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.
-----------------------------------------------------------------------------
      Name                         Last modified      Size  Description
Parent Directory - chrV_intronEst.sql 2011-10-06 16:15 2.0K chrV_intronEst.txt.gz 2011-10-06 16:15 3.4K phastConsElements7way.sql 2011-10-06 16:15 1.5K phastConsElements7way.txt.gz 2011-10-06 16:15 503K ceBlastTab.sql 2011-10-06 16:15 1.6K ceBlastTab.txt.gz 2011-10-06 16:15 87K pslChainAWRI1631.sql 2011-10-06 16:15 2.1K pslChainAWRI1631.txt.gz 2011-10-06 16:15 3.3M multiz7waySummary.sql 2011-10-06 16:15 1.5K multiz7waySummary.txt.gz 2011-10-06 16:15 33K sgdOther.sql 2011-10-06 16:15 1.5K sgdOther.txt.gz 2011-10-06 16:15 41K transRegCode.sql 2011-10-06 16:15 1.5K transRegCode.txt.gz 2011-10-06 16:15 1.4M phastCons7way.sql 2011-10-06 16:15 1.7K phastCons7way.txt.gz 2011-10-06 16:15 305K chrIX_intronEst.sql 2011-10-06 16:15 2.1K chrIX_intronEst.txt.gz 2011-10-06 16:15 2.6K multiz7way.sql 2011-10-06 16:15 1.5K multiz7way.txt.gz 2011-10-06 16:15 669K chrXV_intronEst.sql 2011-10-06 16:15 2.1K chrXV_intronEst.txt.gz 2011-10-06 16:15 5.3K blastHg18KG.sql 2011-10-06 16:15 2.1K blastHg18KG.txt.gz 2011-10-06 16:15 350K sgdPep.sql 2011-10-06 16:15 1.3K sgdPep.txt.gz 2011-10-06 16:15 1.7M transRegCodeProbe.sql 2011-10-06 16:15 1.5K transRegCodeProbe.txt.gz 2011-10-06 16:15 143K sgdBlastTab.sql 2011-10-06 16:15 1.6K sgdBlastTab.txt.gz 2011-10-06 16:15 943K esRegMotif.sql 2011-10-06 16:15 1.4K esRegMotif.txt.gz 2011-10-06 16:15 17K chrM_est.sql 2011-10-06 16:16 2.0K chrM_est.txt.gz 2011-10-06 16:16 33 choExpDistance.sql 2011-10-06 16:16 1.3K choExpDistance.txt.gz 2011-10-06 16:16 34M gold.sql 2011-10-06 16:17 1.6K gold.txt.gz 2011-10-06 16:17 287 chrII_intronEst.sql 2011-10-06 16:17 2.1K chrII_intronEst.txt.gz 2011-10-06 16:17 9.4K chrXIV_intronEst.sql 2011-10-06 16:17 2.1K chrXIV_intronEst.txt.gz 2011-10-06 16:17 2.5K chromInfo.sql 2011-10-06 16:17 1.3K chromInfo.txt.gz 2011-10-06 16:17 193 extFile.sql 2011-10-06 16:17 1.4K extFile.txt.gz 2011-10-06 16:17 265 chrVIII_intronEst.sql 2011-10-06 16:17 2.1K chrVIII_intronEst.txt.gz 2011-10-06 16:17 3.7K chrM_intronEst.sql 2011-10-06 16:17 2.0K chrM_intronEst.txt.gz 2011-10-06 16:17 39 sgdDescription.sql 2011-10-06 16:17 1.3K sgdDescription.txt.gz 2011-10-06 16:17 337K gap.sql 2011-10-06 16:17 1.5K gap.txt.gz 2011-10-06 16:17 28 dmBlastTab.sql 2011-10-06 16:17 1.6K dmBlastTab.txt.gz 2011-10-06 16:17 85K sgdOtherDescription.sql 2011-10-06 16:17 1.3K sgdOtherDescription.txt.gz 2011-10-06 16:17 12K gc5BaseBw.sql 2011-10-06 16:17 1.2K gc5BaseBw.txt.gz 2011-10-06 16:17 63 chrI_intronEst.sql 2011-10-06 16:18 2.0K chrI_intronEst.txt.gz 2011-10-06 16:18 1.1K chrXIII_intronEst.sql 2011-10-06 16:18 2.1K chrXIII_intronEst.txt.gz 2011-10-06 16:18 5.6K sgdCanonical.sql 2011-10-06 16:18 1.5K sgdCanonical.txt.gz 2011-10-06 16:18 102K sgdIsoforms.sql 2011-10-06 16:18 1.3K sgdIsoforms.txt.gz 2011-10-06 16:18 31K esRegUpstreamRegion.sql 2011-10-06 16:18 1.6K esRegUpstreamRegion.txt.gz 2011-10-06 16:18 19K simpleRepeat.sql 2011-10-06 16:18 1.9K simpleRepeat.txt.gz 2011-10-06 16:18 54K chrXI_intronEst.sql 2011-10-06 16:18 2.1K chrXI_intronEst.txt.gz 2011-10-06 16:18 3.2K esRegGeneToMotif.sql 2011-10-06 16:18 1.6K esRegGeneToMotif.txt.gz 2011-10-06 16:18 38K chrIII_intronEst.sql 2011-10-06 16:18 2.1K chrIII_intronEst.txt.gz 2011-10-06 16:18 1.5K multiz7wayFrames.sql 2011-10-06 16:18 1.7K multiz7wayFrames.txt.gz 2011-10-06 16:18 83K esRegGeneToModule.sql 2011-10-06 16:18 1.3K esRegGeneToModule.txt.gz 2011-10-06 16:18 9.1K sgdGene.sql 2011-10-06 16:18 1.7K sgdGene.txt.gz 2011-10-06 16:18 131K chrVII_intronEst.sql 2011-10-06 16:18 2.1K chrVII_intronEst.txt.gz 2011-10-06 16:18 8.4K transRegCodeCondition.sql 2011-10-06 16:18 1.4K transRegCodeCondition.txt.gz 2011-10-06 16:18 1.2K sgdToSwissProt.sql 2011-10-06 16:18 1.3K sgdToSwissProt.txt.gz 2011-10-06 16:18 31K sgdClone.sql 2011-10-06 16:18 1.5K sgdClone.txt.gz 2011-10-06 16:18 16K sgdToName.sql 2011-10-06 16:18 1.3K sgdToName.txt.gz 2011-10-06 16:18 36K transRegCodeMotif.sql 2011-10-06 16:18 1.4K transRegCodeMotif.txt.gz 2011-10-06 16:18 6.5K rnBlastTab.sql 2012-02-26 05:30 1.6K rnBlastTab.txt.gz 2012-02-26 05:30 42K chrVIII_est.sql 2012-05-28 14:19 2.0K chrVIII_est.txt.gz 2012-05-28 14:19 32K chrVII_est.sql 2012-05-28 14:19 2.0K chrVII_est.txt.gz 2012-05-28 14:19 84K chrV_est.sql 2012-05-28 14:19 2.0K chrV_est.txt.gz 2012-05-28 14:19 52K chrXIV_est.sql 2012-05-28 14:19 2.0K chrXIV_est.txt.gz 2012-05-28 14:19 46K chrX_intronEst.sql 2012-05-28 14:19 2.0K chrX_intronEst.txt.gz 2012-05-28 14:19 3.3K all_est.sql 2012-05-28 14:19 2.0K all_est.txt.gz 2012-05-28 14:19 962K chrIV_intronEst.sql 2012-05-28 14:19 2.1K chrIV_intronEst.txt.gz 2012-05-28 14:19 12K chrXII_est.sql 2012-05-28 14:19 2.0K chrXII_est.txt.gz 2012-05-28 14:19 81K chrX_est.sql 2012-05-28 14:19 2.0K chrX_est.txt.gz 2012-05-28 14:19 49K chrI_est.sql 2012-05-28 14:19 2.0K chrI_est.txt.gz 2012-05-28 14:19 11K chrVI_est.sql 2012-05-28 14:19 2.0K chrVI_est.txt.gz 2012-05-28 14:19 30K chrIII_est.sql 2012-05-28 14:19 2.0K chrIII_est.txt.gz 2012-05-28 14:19 32K chrII_est.sql 2012-05-28 14:19 2.0K chrII_est.txt.gz 2012-05-28 14:19 71K chrIV_est.sql 2012-05-28 14:19 2.0K chrIV_est.txt.gz 2012-05-28 14:19 150K chrIX_est.sql 2012-05-28 14:19 2.0K chrIX_est.txt.gz 2012-05-28 14:19 24K chrVI_intronEst.sql 2012-05-28 14:19 2.1K chrVI_intronEst.txt.gz 2012-05-28 14:19 3.0K chrXIII_est.sql 2012-05-28 14:19 2.0K chrXIII_est.txt.gz 2012-05-28 14:19 70K chrXII_intronEst.sql 2012-05-28 14:19 2.1K chrXII_intronEst.txt.gz 2012-05-28 14:19 5.7K chrXI_est.sql 2012-05-28 14:19 2.0K chrXI_est.txt.gz 2012-05-28 14:19 49K chrXVI_est.sql 2012-05-28 14:19 2.0K chrXVI_est.txt.gz 2012-05-28 14:19 85K chrXV_est.sql 2012-05-28 14:19 2.0K chrXV_est.txt.gz 2012-05-28 14:19 100K chrXVI_intronEst.sql 2012-05-28 14:19 2.1K chrXVI_intronEst.txt.gz 2012-05-28 14:19 6.6K estOrientInfo.sql 2012-05-28 14:19 1.7K estOrientInfo.txt.gz 2012-05-28 14:19 306K grp.sql 2014-03-02 04:14 1.3K grp.txt.gz 2014-03-02 04:14 199 growthCondition.sql 2014-10-19 15:03 1.4K growthCondition.txt.gz 2014-10-19 15:03 685 history.sql 2014-10-19 15:03 1.6K history.txt.gz 2014-10-19 15:03 1.9K augustusGene.sql 2015-07-26 17:28 1.9K augustusGene.txt.gz 2015-07-26 17:28 109K microsat.sql 2015-08-24 01:24 1.5K microsat.txt.gz 2015-08-24 01:24 345 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 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 locusName.sql 2016-11-06 09:28 1.5K locusName.txt.gz 2016-11-06 09:28 141K drBlastTab.sql 2017-09-11 02:52 1.7K drBlastTab.txt.gz 2017-09-11 02:52 61K chromAlias.sql 2018-08-05 09:15 1.4K chromAlias.txt.gz 2018-08-05 09:15 338 tableDescriptions.sql 2019-07-21 03:43 1.4K tableDescriptions.txt.gz 2019-07-21 03:43 7.5K chrIII_mrna.sql 2020-05-07 04:20 2.1K chrII_mrna.sql 2020-05-07 04:20 2.1K chrIV_mrna.sql 2020-05-07 04:20 2.1K chrIX_mrna.sql 2020-05-07 04:20 2.1K chrI_mrna.sql 2020-05-07 04:20 2.1K chrM_mrna.sql 2020-05-07 04:20 2.1K chrVIII_mrna.sql 2020-05-07 04:20 2.1K chrVI_mrna.sql 2020-05-07 04:20 2.1K chrXIII_mrna.sql 2020-05-07 04:20 2.1K chrXII_mrna.sql 2020-05-07 04:20 2.1K chrXIV_mrna.sql 2020-05-07 04:20 2.1K chrXI_mrna.sql 2020-05-07 04:20 2.1K chrXVI_mrna.sql 2020-05-07 04:20 2.1K chrXV_mrna.sql 2020-05-07 04:20 2.1K chrXII_mrna.txt.gz 2020-05-07 04:20 4.7K chrXIV_mrna.txt.gz 2020-05-07 04:20 2.8K chrXVI_mrna.txt.gz 2020-05-07 04:20 3.1K chrXIII_mrna.txt.gz 2020-05-07 04:20 3.3K chrII_mrna.txt.gz 2020-05-07 04:20 3.0K chrIV_mrna.txt.gz 2020-05-07 04:20 5.5K chrIX_mrna.txt.gz 2020-05-07 04:20 1.5K chrVI_mrna.txt.gz 2020-05-07 04:20 1.1K chrXI_mrna.txt.gz 2020-05-07 04:20 2.3K chrXV_mrna.txt.gz 2020-05-07 04:20 3.2K chrIII_mrna.txt.gz 2020-05-07 04:20 1.1K chrVIII_mrna.txt.gz 2020-05-07 04:20 1.8K chrI_mrna.txt.gz 2020-05-07 04:20 845 chrM_mrna.txt.gz 2020-05-07 04:20 863 chrV_mrna.sql 2020-05-07 04:21 2.1K chrV_mrna.txt.gz 2020-05-07 04:21 2.6K chrVII_mrna.sql 2020-05-07 04:25 2.1K chrX_mrna.sql 2020-05-07 04:25 2.1K chrX_mrna.txt.gz 2020-05-07 04:25 3.4K chrVII_mrna.txt.gz 2020-05-07 04:25 4.4K all_mrna.sql 2020-05-07 04:28 2.1K all_mrna.txt.gz 2020-05-07 04:28 43K mrnaOrientInfo.sql 2020-05-07 04:28 1.8K mrnaOrientInfo.txt.gz 2020-05-07 04:28 19K xenoRefFlat.sql 2020-08-20 09:46 1.7K xenoRefGene.sql 2020-08-20 09:46 1.9K xenoRefSeqAli.sql 2020-08-20 09:46 2.1K xenoRefGene.txt.gz 2020-08-20 09:46 1.1M xenoRefFlat.txt.gz 2020-08-20 09:46 1.0M xenoRefSeqAli.txt.gz 2020-08-20 09:46 1.2M gbLoaded.sql 2020-08-20 09:58 1.6K gbLoaded.txt.gz 2020-08-20 09:58 90K ncbiRefSeq.sql 2021-02-10 15:45 2.0K ncbiRefSeq.txt.gz 2021-02-10 15:45 140K 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 ncbiRefSeqPsl.sql 2021-02-10 15:45 2.1K ncbiRefSeqPsl.txt.gz 2021-02-10 15:45 158K ncbiRefSeqOther.sql 2021-02-10 16:07 1.3K ncbiRefSeqOther.txt.gz 2021-02-10 16:07 75 ncbiRefSeqCds.sql 2021-02-10 16:08 1.4K ncbiRefSeqCds.txt.gz 2021-02-10 16:08 30K ncbiRefSeqPepTable.sql 2021-02-10 16:08 1.4K ncbiRefSeqPepTable.txt.gz 2021-02-10 16:08 1.6M extNcbiRefSeq.sql 2021-02-10 16:08 1.5K extNcbiRefSeq.txt.gz 2021-02-10 16:08 89 seqNcbiRefSeq.sql 2021-02-10 16:08 1.6K seqNcbiRefSeq.txt.gz 2021-02-10 16:08 88K ensGene.sql 2021-05-25 14:46 1.9K ensGene.txt.gz 2021-05-25 14:46 150K ensGtp.sql 2021-05-25 14:46 1.4K ensGtp.txt.gz 2021-05-25 14:46 59K ensemblToGeneName.sql 2021-05-25 14:46 1.4K ensemblToGeneName.txt.gz 2021-05-25 14:46 31K ensemblSource.sql 2021-05-25 14:46 1.4K ensemblSource.txt.gz 2021-05-25 14:46 22K ensPep.sql 2021-05-25 14:46 1.3K ensPep.txt.gz 2021-05-25 14:46 1.7M trackDb_pushedout.sql 2021-12-27 12:20 2.1K trackDb_pushedout.txt.gz 2021-12-27 12:20 39K hgFindSpec_pushedout.sql 2021-12-27 12:20 1.8K hgFindSpec_pushedout.txt.gz 2021-12-27 12:20 1.2K hgBlastTab.sql 2022-07-12 17:02 1.7K hgBlastTab.txt.gz 2022-07-12 17:02 60K mmBlastTab.sql 2022-07-12 17:09 1.7K mmBlastTab.txt.gz 2022-07-12 17:09 61K trackDb.sql 2022-11-29 11:10 2.1K trackDb.txt.gz 2022-11-29 11:10 41K hgFindSpec.sql 2022-11-29 11:10 1.8K hgFindSpec.txt.gz 2022-11-29 11:10 1.2K tableList.sql 2022-12-04 03:11 1.6K tableList.txt.gz 2022-12-04 03:11 7.0K bigFiles.sql 2022-12-04 03:11 1.4K bigFiles.txt.gz 2022-12-04 03:11 114