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 - all_est.sql 2012-05-28 14:19 2.0K all_est.txt.gz 2012-05-28 14:19 962K all_mrna.sql 2020-05-07 04:28 2.1K all_mrna.txt.gz 2020-05-07 04:28 43K augustusGene.sql 2015-07-26 17:28 1.9K augustusGene.txt.gz 2015-07-26 17:28 109K bigFiles.sql 2021-05-16 03:09 1.4K bigFiles.txt.gz 2021-05-16 03:09 114 blastHg18KG.sql 2011-10-06 16:15 2.1K blastHg18KG.txt.gz 2011-10-06 16:15 350K ceBlastTab.sql 2011-10-06 16:15 1.6K ceBlastTab.txt.gz 2011-10-06 16:15 87K choExpDistance.sql 2011-10-06 16:16 1.3K choExpDistance.txt.gz 2011-10-06 16:16 34M chrIII_est.sql 2012-05-28 14:19 2.0K chrIII_est.txt.gz 2012-05-28 14:19 32K chrIII_intronEst.sql 2011-10-06 16:18 2.1K chrIII_intronEst.txt.gz 2011-10-06 16:18 1.5K chrIII_mrna.sql 2020-05-07 04:20 2.1K chrIII_mrna.txt.gz 2020-05-07 04:20 1.1K chrII_est.sql 2012-05-28 14:19 2.0K chrII_est.txt.gz 2012-05-28 14:19 71K chrII_intronEst.sql 2011-10-06 16:17 2.1K chrII_intronEst.txt.gz 2011-10-06 16:17 9.4K chrII_mrna.sql 2020-05-07 04:20 2.1K chrII_mrna.txt.gz 2020-05-07 04:20 3.0K chrIV_est.sql 2012-05-28 14:19 2.0K chrIV_est.txt.gz 2012-05-28 14:19 150K chrIV_intronEst.sql 2012-05-28 14:19 2.1K chrIV_intronEst.txt.gz 2012-05-28 14:19 12K chrIV_mrna.sql 2020-05-07 04:20 2.1K chrIV_mrna.txt.gz 2020-05-07 04:20 5.5K chrIX_est.sql 2012-05-28 14:19 2.0K chrIX_est.txt.gz 2012-05-28 14:19 24K chrIX_intronEst.sql 2011-10-06 16:15 2.1K chrIX_intronEst.txt.gz 2011-10-06 16:15 2.6K chrIX_mrna.sql 2020-05-07 04:20 2.1K chrIX_mrna.txt.gz 2020-05-07 04:20 1.5K chrI_est.sql 2012-05-28 14:19 2.0K chrI_est.txt.gz 2012-05-28 14:19 11K chrI_intronEst.sql 2011-10-06 16:18 2.0K chrI_intronEst.txt.gz 2011-10-06 16:18 1.1K chrI_mrna.sql 2020-05-07 04:20 2.1K chrI_mrna.txt.gz 2020-05-07 04:20 845 chrM_est.sql 2011-10-06 16:16 2.0K chrM_est.txt.gz 2011-10-06 16:16 33 chrM_intronEst.sql 2011-10-06 16:17 2.0K chrM_intronEst.txt.gz 2011-10-06 16:17 39 chrM_mrna.sql 2020-05-07 04:20 2.1K chrM_mrna.txt.gz 2020-05-07 04:20 863 chrVIII_est.sql 2012-05-28 14:19 2.0K chrVIII_est.txt.gz 2012-05-28 14:19 32K chrVIII_intronEst.sql 2011-10-06 16:17 2.1K chrVIII_intronEst.txt.gz 2011-10-06 16:17 3.7K chrVIII_mrna.sql 2020-05-07 04:20 2.1K chrVIII_mrna.txt.gz 2020-05-07 04:20 1.8K chrVII_est.sql 2012-05-28 14:19 2.0K chrVII_est.txt.gz 2012-05-28 14:19 84K chrVII_intronEst.sql 2011-10-06 16:18 2.1K chrVII_intronEst.txt.gz 2011-10-06 16:18 8.4K chrVII_mrna.sql 2020-05-07 04:25 2.1K chrVII_mrna.txt.gz 2020-05-07 04:25 4.4K chrVI_est.sql 2012-05-28 14:19 2.0K chrVI_est.txt.gz 2012-05-28 14:19 30K chrVI_intronEst.sql 2012-05-28 14:19 2.1K chrVI_intronEst.txt.gz 2012-05-28 14:19 3.0K chrVI_mrna.sql 2020-05-07 04:20 2.1K chrVI_mrna.txt.gz 2020-05-07 04:20 1.1K chrV_est.sql 2012-05-28 14:19 2.0K chrV_est.txt.gz 2012-05-28 14:19 52K chrV_intronEst.sql 2011-10-06 16:15 2.0K chrV_intronEst.txt.gz 2011-10-06 16:15 3.4K chrV_mrna.sql 2020-05-07 04:21 2.1K chrV_mrna.txt.gz 2020-05-07 04:21 2.6K chrXIII_est.sql 2012-05-28 14:19 2.0K chrXIII_est.txt.gz 2012-05-28 14:19 70K chrXIII_intronEst.sql 2011-10-06 16:18 2.1K chrXIII_intronEst.txt.gz 2011-10-06 16:18 5.6K chrXIII_mrna.sql 2020-05-07 04:20 2.1K chrXIII_mrna.txt.gz 2020-05-07 04:20 3.3K chrXII_est.sql 2012-05-28 14:19 2.0K chrXII_est.txt.gz 2012-05-28 14:19 81K chrXII_intronEst.sql 2012-05-28 14:19 2.1K chrXII_intronEst.txt.gz 2012-05-28 14:19 5.7K chrXII_mrna.sql 2020-05-07 04:20 2.1K chrXII_mrna.txt.gz 2020-05-07 04:20 4.7K chrXIV_est.sql 2012-05-28 14:19 2.0K chrXIV_est.txt.gz 2012-05-28 14:19 46K chrXIV_intronEst.sql 2011-10-06 16:17 2.1K chrXIV_intronEst.txt.gz 2011-10-06 16:17 2.5K chrXIV_mrna.sql 2020-05-07 04:20 2.1K chrXIV_mrna.txt.gz 2020-05-07 04:20 2.8K chrXI_est.sql 2012-05-28 14:19 2.0K chrXI_est.txt.gz 2012-05-28 14:19 49K chrXI_intronEst.sql 2011-10-06 16:18 2.1K chrXI_intronEst.txt.gz 2011-10-06 16:18 3.2K chrXI_mrna.sql 2020-05-07 04:20 2.1K chrXI_mrna.txt.gz 2020-05-07 04:20 2.3K chrXVI_est.sql 2012-05-28 14:19 2.0K chrXVI_est.txt.gz 2012-05-28 14:19 85K chrXVI_intronEst.sql 2012-05-28 14:19 2.1K chrXVI_intronEst.txt.gz 2012-05-28 14:19 6.6K chrXVI_mrna.sql 2020-05-07 04:20 2.1K chrXVI_mrna.txt.gz 2020-05-07 04:20 3.1K chrXV_est.sql 2012-05-28 14:19 2.0K chrXV_est.txt.gz 2012-05-28 14:19 100K chrXV_intronEst.sql 2011-10-06 16:15 2.1K chrXV_intronEst.txt.gz 2011-10-06 16:15 5.3K chrXV_mrna.sql 2020-05-07 04:20 2.1K chrXV_mrna.txt.gz 2020-05-07 04:20 3.2K chrX_est.sql 2012-05-28 14:19 2.0K chrX_est.txt.gz 2012-05-28 14:19 49K chrX_intronEst.sql 2012-05-28 14:19 2.0K chrX_intronEst.txt.gz 2012-05-28 14:19 3.3K chrX_mrna.sql 2020-05-07 04:25 2.1K chrX_mrna.txt.gz 2020-05-07 04:25 3.4K chromAlias.sql 2018-08-05 09:15 1.4K chromAlias.txt.gz 2018-08-05 09:15 338 chromInfo.sql 2011-10-06 16:17 1.3K chromInfo.txt.gz 2011-10-06 16:17 193 crisprRanges.sql 2016-11-06 09:28 1.4K crisprRanges.txt.gz 2016-11-06 09:28 22K crisprTargets.sql 2016-11-06 09:28 1.3K crisprTargets.txt.gz 2016-11-06 09:28 63 dmBlastTab.sql 2011-10-06 16:17 1.6K dmBlastTab.txt.gz 2011-10-06 16:17 85K drBlastTab.sql 2017-09-11 02:52 1.7K drBlastTab.txt.gz 2017-09-11 02:52 61K ensGene.sql 2020-08-31 15:54 1.9K ensGene.txt.gz 2020-08-31 15:54 150K ensGtp.sql 2020-08-31 15:54 1.4K ensGtp.txt.gz 2020-08-31 15:54 55K ensPep.sql 2020-08-31 18:00 1.3K ensPep.txt.gz 2020-08-31 18:00 1.7M ensemblSource.sql 2020-08-31 18:00 1.4K ensemblSource.txt.gz 2020-08-31 18:00 22K ensemblToGeneName.sql 2020-08-31 15:54 1.4K ensemblToGeneName.txt.gz 2020-08-31 15:54 30K esRegGeneToModule.sql 2011-10-06 16:18 1.3K esRegGeneToModule.txt.gz 2011-10-06 16:18 9.1K esRegGeneToMotif.sql 2011-10-06 16:18 1.6K esRegGeneToMotif.txt.gz 2011-10-06 16:18 38K esRegMotif.sql 2011-10-06 16:15 1.4K esRegMotif.txt.gz 2011-10-06 16:15 17K esRegUpstreamRegion.sql 2011-10-06 16:18 1.6K esRegUpstreamRegion.txt.gz 2011-10-06 16:18 19K estOrientInfo.sql 2012-05-28 14:19 1.7K estOrientInfo.txt.gz 2012-05-28 14:19 306K extFile.sql 2011-10-06 16:17 1.4K extFile.txt.gz 2011-10-06 16:17 265 extNcbiRefSeq.sql 2021-02-10 16:08 1.5K extNcbiRefSeq.txt.gz 2021-02-10 16:08 89 gap.sql 2011-10-06 16:17 1.5K gap.txt.gz 2011-10-06 16:17 28 gbLoaded.sql 2020-08-20 09:58 1.6K gbLoaded.txt.gz 2020-08-20 09:58 90K gc5BaseBw.sql 2011-10-06 16:17 1.2K gc5BaseBw.txt.gz 2011-10-06 16:17 63 gold.sql 2011-10-06 16:17 1.6K gold.txt.gz 2011-10-06 16:17 287 growthCondition.sql 2014-10-19 15:03 1.4K growthCondition.txt.gz 2014-10-19 15:03 685 grp.sql 2014-03-02 04:14 1.3K grp.txt.gz 2014-03-02 04:14 199 hgBlastTab.sql 2019-10-13 03:46 1.7K hgBlastTab.txt.gz 2019-10-13 03:46 60K hgFindSpec.sql 2021-03-05 10:48 1.8K hgFindSpec.txt.gz 2021-03-05 10:48 1.2K history.sql 2014-10-19 15:03 1.6K history.txt.gz 2014-10-19 15:03 1.9K locusName.sql 2016-11-06 09:28 1.5K locusName.txt.gz 2016-11-06 09:28 141K microsat.sql 2015-08-24 01:24 1.5K microsat.txt.gz 2015-08-24 01:24 345 mmBlastTab.sql 2019-04-14 03:23 1.7K mmBlastTab.txt.gz 2019-04-14 03:23 62K mrnaOrientInfo.sql 2020-05-07 04:28 1.8K mrnaOrientInfo.txt.gz 2020-05-07 04:28 19K multiz7way.sql 2011-10-06 16:15 1.5K multiz7way.txt.gz 2011-10-06 16:15 669K multiz7wayFrames.sql 2011-10-06 16:18 1.7K multiz7wayFrames.txt.gz 2011-10-06 16:18 83K multiz7waySummary.sql 2011-10-06 16:15 1.5K multiz7waySummary.txt.gz 2011-10-06 16:15 33K ncbiRefSeq.sql 2021-02-10 15:45 2.0K ncbiRefSeq.txt.gz 2021-02-10 15:45 140K ncbiRefSeqCds.sql 2021-02-10 16:08 1.4K ncbiRefSeqCds.txt.gz 2021-02-10 16:08 30K ncbiRefSeqCurated.sql 2021-02-10 15:45 2.0K ncbiRefSeqCurated.txt.gz 2021-02-10 15:45 140K ncbiRefSeqLink.sql 2021-02-10 15:45 2.0K ncbiRefSeqLink.txt.gz 2021-02-10 15:45 661K ncbiRefSeqOther.sql 2021-02-10 16:07 1.3K ncbiRefSeqOther.txt.gz 2021-02-10 16:07 75 ncbiRefSeqPepTable.sql 2021-02-10 16:08 1.4K ncbiRefSeqPepTable.txt.gz 2021-02-10 16:08 1.6M ncbiRefSeqPsl.sql 2021-02-10 15:45 2.1K ncbiRefSeqPsl.txt.gz 2021-02-10 15:45 158K oreganno.sql 2016-05-15 11:29 1.5K oreganno.txt.gz 2016-05-15 11:29 85K oregannoAttr.sql 2016-05-15 11:29 1.4K oregannoAttr.txt.gz 2016-05-15 11:29 118K oregannoLink.sql 2016-05-15 11:29 1.4K oregannoLink.txt.gz 2016-05-15 11:29 83K phastCons7way.sql 2011-10-06 16:15 1.7K phastCons7way.txt.gz 2011-10-06 16:15 305K phastConsElements7way.sql 2011-10-06 16:15 1.5K phastConsElements7way.txt.gz 2011-10-06 16:15 503K pslChainAWRI1631.sql 2011-10-06 16:15 2.1K pslChainAWRI1631.txt.gz 2011-10-06 16:15 3.3M rnBlastTab.sql 2012-02-26 05:30 1.6K rnBlastTab.txt.gz 2012-02-26 05:30 42K seqNcbiRefSeq.sql 2021-02-10 16:08 1.6K seqNcbiRefSeq.txt.gz 2021-02-10 16:08 88K sgdBlastTab.sql 2011-10-06 16:15 1.6K sgdBlastTab.txt.gz 2011-10-06 16:15 943K sgdCanonical.sql 2011-10-06 16:18 1.5K sgdCanonical.txt.gz 2011-10-06 16:18 102K sgdClone.sql 2011-10-06 16:18 1.5K sgdClone.txt.gz 2011-10-06 16:18 16K sgdDescription.sql 2011-10-06 16:17 1.3K sgdDescription.txt.gz 2011-10-06 16:17 337K sgdGene.sql 2011-10-06 16:18 1.7K sgdGene.txt.gz 2011-10-06 16:18 131K sgdIsoforms.sql 2011-10-06 16:18 1.3K sgdIsoforms.txt.gz 2011-10-06 16:18 31K sgdOther.sql 2011-10-06 16:15 1.5K sgdOther.txt.gz 2011-10-06 16:15 41K sgdOtherDescription.sql 2011-10-06 16:17 1.3K sgdOtherDescription.txt.gz 2011-10-06 16:17 12K sgdPep.sql 2011-10-06 16:15 1.3K sgdPep.txt.gz 2011-10-06 16:15 1.7M sgdToName.sql 2011-10-06 16:18 1.3K sgdToName.txt.gz 2011-10-06 16:18 36K sgdToSwissProt.sql 2011-10-06 16:18 1.3K sgdToSwissProt.txt.gz 2011-10-06 16:18 31K simpleRepeat.sql 2011-10-06 16:18 1.9K simpleRepeat.txt.gz 2011-10-06 16:18 54K tableDescriptions.sql 2019-07-21 03:43 1.4K tableDescriptions.txt.gz 2019-07-21 03:43 7.5K tableList.sql 2021-05-16 03:09 1.6K tableList.txt.gz 2021-05-16 03:09 6.8K trackDb.sql 2021-03-05 10:48 2.1K trackDb.txt.gz 2021-03-05 10:48 40K transRegCode.sql 2011-10-06 16:15 1.5K transRegCode.txt.gz 2011-10-06 16:15 1.4M transRegCodeCondition.sql 2011-10-06 16:18 1.4K transRegCodeCondition.txt.gz 2011-10-06 16:18 1.2K transRegCodeMotif.sql 2011-10-06 16:18 1.4K transRegCodeMotif.txt.gz 2011-10-06 16:18 6.5K transRegCodeProbe.sql 2011-10-06 16:15 1.5K transRegCodeProbe.txt.gz 2011-10-06 16:15 143K xenoRefFlat.sql 2020-08-20 09:46 1.7K xenoRefFlat.txt.gz 2020-08-20 09:46 1.0M xenoRefGene.sql 2020-08-20 09:46 1.9K xenoRefGene.txt.gz 2020-08-20 09:46 1.1M xenoRefSeqAli.sql 2020-08-20 09:46 2.1K xenoRefSeqAli.txt.gz 2020-08-20 09:46 1.2M