This directory contains a dump of the UCSC genome annotation database for
the Apr. 2011 (SacCer_Apr2011/sacCer3) assembly of the S. cerevisiae genome
(sacCer3, Saccharomyces cerevisiae S288c assembly from
Saccharomyces Genome Database (GCA_000146055.2)).
The annotations were generated by UCSC and collaborators worldwide.

This assembly is based on sequence dated April 2011 in the Saccharomyces Genome
Database (http://www.yeastgenome.org/) and was obtained from the site
ftp://ftp.ncbi.nlm.nih.gov/genbank/genomes/Eukaryotes/fungi/Saccharomyces_cerevisiae/SacCer_Apr2011/

Files included in this directory (updated nightly):

  - *.sql files:  the MySQL commands used to create the tables

  - *.txt.gz files: the database tables in a tab-delimited format
    compressed with gzip.

To see descriptions of the tables underlying Genome Browser annotation
tracks, select the table in the Table Browser:
  http://genome.ucsc.edu/cgi-bin/hgTables?db=sacCer3
and click the "describe table schema" button.  There is also a "view
table schema" link on the configuration page for each track.

---------------------------------------------------------------
If you plan to download a large file or multiple files from this 
directory, we recommend you use ftp rather than downloading the files 
via our website. To do so, ftp to hgdownload.cse.ucsc.edu, then go to 
the directory goldenPath/sacCer3/database/. To download multiple 
files, use the "mget" command:

    mget <filename1> <filename2> ...
    - or -
    mget -a (to download all the files in the directory) 

Alternate methods to ftp access.

Using an rsync command to download the entire directory:
    rsync -avzP rsync://hgdownload.cse.ucsc.edu/goldenPath/sacCer3/database/ .
For a single file, e.g. gc5BaseBw.txt.gz
    rsync -avzP 
        rsync://hgdownload.cse.ucsc.edu/goldenPath/sacCer3/database/gc5BaseBw.txt.gz .

Or with wget, all files:
    wget --timestamping 
        'ftp://hgdownload.cse.ucsc.edu/goldenPath/sacCer3/database/*'
With wget, a single file: 
    wget --timestamping 
        'ftp://hgdownload.cse.ucsc.edu/goldenPath/sacCer3/database/gc5BaseBw.txt.gz' 
        -O gc5BaseBw.txt.gz

Please note that some files contents, such as this example gc5BaseBw.txt.gz,
will point to the data being hosted in another /gbdb/ location, which
refers to ftp://hgdownload.cse.ucsc.edu/gbdb/

To uncompress the *.txt.gz files:
    gunzip <table>.txt.gz
The tables can be loaded directly from the .txt.gz compressed file.
It is not necessary to uncompress them to load into a database,
as shown in the example below.

To load one of the tables directly into your local mirror database,
for example the table chromInfo:
## create table from the sql definition
$ hgsql sacCer3 < chromInfo.sql
## load data from the txt.gz file
$ zcat chromInfo.txt.gz | hgsql sacCer3 --local-infile=1 
        -e 'LOAD DATA LOCAL INFILE "/dev/stdin" INTO TABLE chromInfo;'

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All the files and tables in this directory are freely usable for any purpose.
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      Name                         Last modified      Size  Description
Parent Directory - bigFiles.txt.gz 2022-09-25 03:10 114 bigFiles.sql 2022-09-25 03:10 1.4K tableList.txt.gz 2022-09-25 03:10 6.8K tableList.sql 2022-09-25 03:10 1.6K mmBlastTab.txt.gz 2022-07-12 17:09 61K mmBlastTab.sql 2022-07-12 17:09 1.7K hgBlastTab.txt.gz 2022-07-12 17:02 60K hgBlastTab.sql 2022-07-12 17:02 1.7K hgFindSpec.txt.gz 2021-12-27 12:20 1.2K hgFindSpec.sql 2021-12-27 12:20 1.8K trackDb.txt.gz 2021-12-27 12:20 39K trackDb.sql 2021-12-27 12:20 2.1K ensPep.txt.gz 2021-05-25 14:46 1.7M ensPep.sql 2021-05-25 14:46 1.3K ensemblSource.txt.gz 2021-05-25 14:46 22K ensemblSource.sql 2021-05-25 14:46 1.4K ensemblToGeneName.txt.gz 2021-05-25 14:46 31K ensemblToGeneName.sql 2021-05-25 14:46 1.4K ensGtp.txt.gz 2021-05-25 14:46 59K ensGtp.sql 2021-05-25 14:46 1.4K ensGene.txt.gz 2021-05-25 14:46 150K ensGene.sql 2021-05-25 14:46 1.9K seqNcbiRefSeq.txt.gz 2021-02-10 16:08 88K seqNcbiRefSeq.sql 2021-02-10 16:08 1.6K extNcbiRefSeq.txt.gz 2021-02-10 16:08 89 extNcbiRefSeq.sql 2021-02-10 16:08 1.5K ncbiRefSeqPepTable.txt.gz 2021-02-10 16:08 1.6M ncbiRefSeqPepTable.sql 2021-02-10 16:08 1.4K ncbiRefSeqCds.txt.gz 2021-02-10 16:08 30K ncbiRefSeqCds.sql 2021-02-10 16:08 1.4K ncbiRefSeqOther.txt.gz 2021-02-10 16:07 75 ncbiRefSeqOther.sql 2021-02-10 16:07 1.3K ncbiRefSeqPsl.txt.gz 2021-02-10 15:45 158K ncbiRefSeqPsl.sql 2021-02-10 15:45 2.1K ncbiRefSeqLink.txt.gz 2021-02-10 15:45 661K ncbiRefSeqLink.sql 2021-02-10 15:45 2.0K ncbiRefSeqCurated.txt.gz 2021-02-10 15:45 140K ncbiRefSeqCurated.sql 2021-02-10 15:45 2.0K ncbiRefSeq.txt.gz 2021-02-10 15:45 140K ncbiRefSeq.sql 2021-02-10 15:45 2.0K gbLoaded.txt.gz 2020-08-20 09:58 90K gbLoaded.sql 2020-08-20 09:58 1.6K xenoRefSeqAli.txt.gz 2020-08-20 09:46 1.2M xenoRefFlat.txt.gz 2020-08-20 09:46 1.0M xenoRefGene.txt.gz 2020-08-20 09:46 1.1M xenoRefSeqAli.sql 2020-08-20 09:46 2.1K xenoRefGene.sql 2020-08-20 09:46 1.9K xenoRefFlat.sql 2020-08-20 09:46 1.7K mrnaOrientInfo.txt.gz 2020-05-07 04:28 19K mrnaOrientInfo.sql 2020-05-07 04:28 1.8K all_mrna.txt.gz 2020-05-07 04:28 43K all_mrna.sql 2020-05-07 04:28 2.1K chrVII_mrna.txt.gz 2020-05-07 04:25 4.4K chrX_mrna.txt.gz 2020-05-07 04:25 3.4K chrX_mrna.sql 2020-05-07 04:25 2.1K chrVII_mrna.sql 2020-05-07 04:25 2.1K chrV_mrna.txt.gz 2020-05-07 04:21 2.6K chrV_mrna.sql 2020-05-07 04:21 2.1K chrM_mrna.txt.gz 2020-05-07 04:20 863 chrI_mrna.txt.gz 2020-05-07 04:20 845 chrVIII_mrna.txt.gz 2020-05-07 04:20 1.8K chrIII_mrna.txt.gz 2020-05-07 04:20 1.1K chrXV_mrna.txt.gz 2020-05-07 04:20 3.2K chrXI_mrna.txt.gz 2020-05-07 04:20 2.3K chrVI_mrna.txt.gz 2020-05-07 04:20 1.1K chrIX_mrna.txt.gz 2020-05-07 04:20 1.5K chrIV_mrna.txt.gz 2020-05-07 04:20 5.5K chrII_mrna.txt.gz 2020-05-07 04:20 3.0K chrXIII_mrna.txt.gz 2020-05-07 04:20 3.3K chrXVI_mrna.txt.gz 2020-05-07 04:20 3.1K chrXIV_mrna.txt.gz 2020-05-07 04:20 2.8K chrXII_mrna.txt.gz 2020-05-07 04:20 4.7K chrXV_mrna.sql 2020-05-07 04:20 2.1K chrXVI_mrna.sql 2020-05-07 04:20 2.1K chrXI_mrna.sql 2020-05-07 04:20 2.1K chrXIV_mrna.sql 2020-05-07 04:20 2.1K chrXII_mrna.sql 2020-05-07 04:20 2.1K chrXIII_mrna.sql 2020-05-07 04:20 2.1K chrVI_mrna.sql 2020-05-07 04:20 2.1K chrVIII_mrna.sql 2020-05-07 04:20 2.1K chrM_mrna.sql 2020-05-07 04:20 2.1K chrI_mrna.sql 2020-05-07 04:20 2.1K chrIX_mrna.sql 2020-05-07 04:20 2.1K chrIV_mrna.sql 2020-05-07 04:20 2.1K chrII_mrna.sql 2020-05-07 04:20 2.1K chrIII_mrna.sql 2020-05-07 04:20 2.1K tableDescriptions.txt.gz 2019-07-21 03:43 7.5K tableDescriptions.sql 2019-07-21 03:43 1.4K chromAlias.txt.gz 2018-08-05 09:15 338 chromAlias.sql 2018-08-05 09:15 1.4K drBlastTab.txt.gz 2017-09-11 02:52 61K drBlastTab.sql 2017-09-11 02:52 1.7K locusName.txt.gz 2016-11-06 09:28 141K locusName.sql 2016-11-06 09:28 1.5K crisprTargets.txt.gz 2016-11-06 09:28 63 crisprTargets.sql 2016-11-06 09:28 1.3K crisprRanges.txt.gz 2016-11-06 09:28 22K crisprRanges.sql 2016-11-06 09:28 1.4K oregannoLink.txt.gz 2016-05-15 11:29 83K oregannoLink.sql 2016-05-15 11:29 1.4K oregannoAttr.txt.gz 2016-05-15 11:29 118K oregannoAttr.sql 2016-05-15 11:29 1.4K oreganno.txt.gz 2016-05-15 11:29 85K oreganno.sql 2016-05-15 11:29 1.5K microsat.txt.gz 2015-08-24 01:24 345 microsat.sql 2015-08-24 01:24 1.5K augustusGene.txt.gz 2015-07-26 17:28 109K augustusGene.sql 2015-07-26 17:28 1.9K history.txt.gz 2014-10-19 15:03 1.9K history.sql 2014-10-19 15:03 1.6K growthCondition.txt.gz 2014-10-19 15:03 685 growthCondition.sql 2014-10-19 15:03 1.4K grp.txt.gz 2014-03-02 04:14 199 grp.sql 2014-03-02 04:14 1.3K estOrientInfo.txt.gz 2012-05-28 14:19 306K estOrientInfo.sql 2012-05-28 14:19 1.7K chrXVI_intronEst.txt.gz 2012-05-28 14:19 6.6K chrXVI_intronEst.sql 2012-05-28 14:19 2.1K chrXV_est.txt.gz 2012-05-28 14:19 100K chrXV_est.sql 2012-05-28 14:19 2.0K chrXVI_est.txt.gz 2012-05-28 14:19 85K chrXVI_est.sql 2012-05-28 14:19 2.0K chrXI_est.txt.gz 2012-05-28 14:19 49K chrXI_est.sql 2012-05-28 14:19 2.0K chrXII_intronEst.txt.gz 2012-05-28 14:19 5.7K chrXII_intronEst.sql 2012-05-28 14:19 2.1K chrXIII_est.txt.gz 2012-05-28 14:19 70K chrXIII_est.sql 2012-05-28 14:19 2.0K chrVI_intronEst.txt.gz 2012-05-28 14:19 3.0K chrVI_intronEst.sql 2012-05-28 14:19 2.1K chrIX_est.txt.gz 2012-05-28 14:19 24K chrIX_est.sql 2012-05-28 14:19 2.0K chrIV_est.txt.gz 2012-05-28 14:19 150K chrIV_est.sql 2012-05-28 14:19 2.0K chrII_est.txt.gz 2012-05-28 14:19 71K chrII_est.sql 2012-05-28 14:19 2.0K chrIII_est.txt.gz 2012-05-28 14:19 32K chrIII_est.sql 2012-05-28 14:19 2.0K chrVI_est.txt.gz 2012-05-28 14:19 30K chrVI_est.sql 2012-05-28 14:19 2.0K chrI_est.txt.gz 2012-05-28 14:19 11K chrI_est.sql 2012-05-28 14:19 2.0K chrX_est.txt.gz 2012-05-28 14:19 49K chrX_est.sql 2012-05-28 14:19 2.0K chrXII_est.txt.gz 2012-05-28 14:19 81K chrXII_est.sql 2012-05-28 14:19 2.0K chrIV_intronEst.txt.gz 2012-05-28 14:19 12K chrIV_intronEst.sql 2012-05-28 14:19 2.1K all_est.txt.gz 2012-05-28 14:19 962K all_est.sql 2012-05-28 14:19 2.0K chrX_intronEst.txt.gz 2012-05-28 14:19 3.3K chrX_intronEst.sql 2012-05-28 14:19 2.0K chrXIV_est.txt.gz 2012-05-28 14:19 46K chrXIV_est.sql 2012-05-28 14:19 2.0K chrV_est.txt.gz 2012-05-28 14:19 52K chrV_est.sql 2012-05-28 14:19 2.0K chrVII_est.txt.gz 2012-05-28 14:19 84K chrVII_est.sql 2012-05-28 14:19 2.0K chrVIII_est.txt.gz 2012-05-28 14:19 32K chrVIII_est.sql 2012-05-28 14:19 2.0K rnBlastTab.txt.gz 2012-02-26 05:30 42K rnBlastTab.sql 2012-02-26 05:30 1.6K transRegCodeMotif.txt.gz 2011-10-06 16:18 6.5K transRegCodeMotif.sql 2011-10-06 16:18 1.4K sgdToName.txt.gz 2011-10-06 16:18 36K sgdToName.sql 2011-10-06 16:18 1.3K sgdClone.txt.gz 2011-10-06 16:18 16K sgdClone.sql 2011-10-06 16:18 1.5K sgdToSwissProt.txt.gz 2011-10-06 16:18 31K sgdToSwissProt.sql 2011-10-06 16:18 1.3K transRegCodeCondition.txt.gz 2011-10-06 16:18 1.2K transRegCodeCondition.sql 2011-10-06 16:18 1.4K chrVII_intronEst.txt.gz 2011-10-06 16:18 8.4K chrVII_intronEst.sql 2011-10-06 16:18 2.1K sgdGene.txt.gz 2011-10-06 16:18 131K sgdGene.sql 2011-10-06 16:18 1.7K esRegGeneToModule.txt.gz 2011-10-06 16:18 9.1K esRegGeneToModule.sql 2011-10-06 16:18 1.3K multiz7wayFrames.txt.gz 2011-10-06 16:18 83K multiz7wayFrames.sql 2011-10-06 16:18 1.7K chrIII_intronEst.txt.gz 2011-10-06 16:18 1.5K chrIII_intronEst.sql 2011-10-06 16:18 2.1K esRegGeneToMotif.txt.gz 2011-10-06 16:18 38K esRegGeneToMotif.sql 2011-10-06 16:18 1.6K chrXI_intronEst.txt.gz 2011-10-06 16:18 3.2K chrXI_intronEst.sql 2011-10-06 16:18 2.1K simpleRepeat.txt.gz 2011-10-06 16:18 54K simpleRepeat.sql 2011-10-06 16:18 1.9K esRegUpstreamRegion.txt.gz 2011-10-06 16:18 19K esRegUpstreamRegion.sql 2011-10-06 16:18 1.6K sgdIsoforms.txt.gz 2011-10-06 16:18 31K sgdIsoforms.sql 2011-10-06 16:18 1.3K sgdCanonical.txt.gz 2011-10-06 16:18 102K sgdCanonical.sql 2011-10-06 16:18 1.5K chrXIII_intronEst.txt.gz 2011-10-06 16:18 5.6K chrXIII_intronEst.sql 2011-10-06 16:18 2.1K chrI_intronEst.txt.gz 2011-10-06 16:18 1.1K chrI_intronEst.sql 2011-10-06 16:18 2.0K gc5BaseBw.txt.gz 2011-10-06 16:17 63 gc5BaseBw.sql 2011-10-06 16:17 1.2K sgdOtherDescription.txt.gz 2011-10-06 16:17 12K sgdOtherDescription.sql 2011-10-06 16:17 1.3K dmBlastTab.txt.gz 2011-10-06 16:17 85K dmBlastTab.sql 2011-10-06 16:17 1.6K gap.txt.gz 2011-10-06 16:17 28 gap.sql 2011-10-06 16:17 1.5K sgdDescription.txt.gz 2011-10-06 16:17 337K sgdDescription.sql 2011-10-06 16:17 1.3K chrM_intronEst.txt.gz 2011-10-06 16:17 39 chrM_intronEst.sql 2011-10-06 16:17 2.0K chrVIII_intronEst.txt.gz 2011-10-06 16:17 3.7K chrVIII_intronEst.sql 2011-10-06 16:17 2.1K extFile.txt.gz 2011-10-06 16:17 265 extFile.sql 2011-10-06 16:17 1.4K chromInfo.txt.gz 2011-10-06 16:17 193 chromInfo.sql 2011-10-06 16:17 1.3K chrXIV_intronEst.txt.gz 2011-10-06 16:17 2.5K chrXIV_intronEst.sql 2011-10-06 16:17 2.1K chrII_intronEst.txt.gz 2011-10-06 16:17 9.4K chrII_intronEst.sql 2011-10-06 16:17 2.1K gold.txt.gz 2011-10-06 16:17 287 gold.sql 2011-10-06 16:17 1.6K choExpDistance.txt.gz 2011-10-06 16:16 34M choExpDistance.sql 2011-10-06 16:16 1.3K chrM_est.txt.gz 2011-10-06 16:16 33 chrM_est.sql 2011-10-06 16:16 2.0K esRegMotif.txt.gz 2011-10-06 16:15 17K esRegMotif.sql 2011-10-06 16:15 1.4K sgdBlastTab.txt.gz 2011-10-06 16:15 943K sgdBlastTab.sql 2011-10-06 16:15 1.6K transRegCodeProbe.txt.gz 2011-10-06 16:15 143K transRegCodeProbe.sql 2011-10-06 16:15 1.5K sgdPep.txt.gz 2011-10-06 16:15 1.7M sgdPep.sql 2011-10-06 16:15 1.3K blastHg18KG.txt.gz 2011-10-06 16:15 350K blastHg18KG.sql 2011-10-06 16:15 2.1K chrXV_intronEst.txt.gz 2011-10-06 16:15 5.3K chrXV_intronEst.sql 2011-10-06 16:15 2.1K multiz7way.txt.gz 2011-10-06 16:15 669K multiz7way.sql 2011-10-06 16:15 1.5K chrIX_intronEst.txt.gz 2011-10-06 16:15 2.6K chrIX_intronEst.sql 2011-10-06 16:15 2.1K phastCons7way.txt.gz 2011-10-06 16:15 305K phastCons7way.sql 2011-10-06 16:15 1.7K transRegCode.txt.gz 2011-10-06 16:15 1.4M transRegCode.sql 2011-10-06 16:15 1.5K sgdOther.txt.gz 2011-10-06 16:15 41K sgdOther.sql 2011-10-06 16:15 1.5K multiz7waySummary.txt.gz 2011-10-06 16:15 33K multiz7waySummary.sql 2011-10-06 16:15 1.5K pslChainAWRI1631.txt.gz 2011-10-06 16:15 3.3M pslChainAWRI1631.sql 2011-10-06 16:15 2.1K ceBlastTab.txt.gz 2011-10-06 16:15 87K ceBlastTab.sql 2011-10-06 16:15 1.6K phastConsElements7way.txt.gz 2011-10-06 16:15 503K phastConsElements7way.sql 2011-10-06 16:15 1.5K chrV_intronEst.txt.gz 2011-10-06 16:15 3.4K chrV_intronEst.sql 2011-10-06 16:15 2.0K