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