This directory contains a dump of the UCSC genome annotation database for
the August 2006 assembly of the cow genome (bosTau3, Baylor Release 3.1).
The annotations were generated by UCSC and collaborators worldwide.
This assembly was produced by the Baylor College of Medicine Human Genome Sequencing Center.
For more information on the cow genome, see the project website: http://www.hgsc.bcm.tmc.edu.
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=bosTau3
and click the "describe table schema" button. There is also a "view
table schema" link on the configuration page for each track.
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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/bosTau3/database/. To download multiple
files, use the "mget" command:
mget <filename1> <filename2> ...
- or -
mget -a (to download all the files in the directory)
For conditions of use regarding the Cow genome sequence data, see
http://www.hgsc.bcm.tmc.edu/projects/conditions_for_use.html .
All the files and tables in this directory are freely usable for any purpose.
Name Last modified Size Description
Parent Directory -
blastHg18KG.sql 2007-08-21 18:13 2.1K
blastHg18KG.txt.gz 2007-08-21 18:13 3.5M
chainHg18.sql 2007-08-21 18:13 1.7K
chainHg18.txt.gz 2007-08-21 18:15 153M
chainHg18Link.sql 2007-08-21 18:16 1.4K
chainHg18Link.txt.gz 2007-08-21 18:25 773M
chainRn4.sql 2007-08-21 18:52 1.6K
chainRn4.txt.gz 2007-08-21 18:52 58M
chainRn4Link.sql 2007-08-21 18:53 1.4K
chainRn4Link.txt.gz 2007-08-21 18:59 464M
chromInfo.sql 2007-08-21 19:05 1.2K
chromInfo.txt.gz 2007-08-21 19:05 64K
cpgIslandExt.sql 2007-08-21 19:05 1.6K
cpgIslandExt.txt.gz 2007-08-21 19:05 801K
extFile.sql 2007-08-21 19:05 1.3K
extFile.txt.gz 2007-08-21 19:05 68
gap.sql 2007-08-21 19:05 1.5K
gap.txt.gz 2007-08-21 19:05 936K
gc5Base.sql 2007-08-21 19:07 1.7K
gc5Base.txt.gz 2007-08-21 19:08 11M
genscan.sql 2007-08-21 19:08 1.6K
genscan.txt.gz 2007-08-21 19:08 3.2M
genscanPep.sql 2007-08-21 19:08 1.2K
genscanPep.txt.gz 2007-08-21 19:08 11M
genscanSubopt.sql 2007-08-21 19:08 1.5K
genscanSubopt.txt.gz 2007-08-21 19:08 6.3M
gold.sql 2007-08-21 19:08 1.6K
gold.txt.gz 2007-08-21 19:08 2.2M
history.sql 2007-08-21 19:08 1.4K
history.txt.gz 2007-08-21 19:08 656
netHg18.sql 2007-08-21 19:09 2.2K
netHg18.txt.gz 2007-08-21 19:10 67M
netRn4.sql 2007-08-21 19:12 2.2K
netRn4.txt.gz 2007-08-21 19:13 53M
quality.sql 2007-08-21 19:14 1.7K
quality.txt.gz 2007-08-21 19:15 56M
rmsk.sql 2007-08-21 19:15 1.9K
rmsk.txt.gz 2007-08-21 19:17 134M
simpleRepeat.sql 2007-08-21 19:18 2.0K
simpleRepeat.txt.gz 2007-08-21 19:18 7.7M
snp127.sql 2007-08-21 19:18 2.3K
snp127.txt.gz 2007-08-21 19:18 30K
snp127ExceptionDesc.sql 2007-08-21 19:18 1.2K
snp127ExceptionDesc.txt.gz 2007-08-21 19:18 324
snp127Exceptions.sql 2007-08-21 19:18 1.3K
snp127Exceptions.txt.gz 2007-08-21 19:18 13K
snpSeq.sql 2007-08-21 19:18 1.2K
snpSeq.txt.gz 2007-08-21 19:18 13K
chainMm9Link.sql 2007-10-18 17:36 1.4K
chainMm9Link.txt.gz 2007-10-18 17:48 509M
netMm9.sql 2007-10-18 18:01 2.2K
netMm9.txt.gz 2007-10-18 18:03 55M
chainMm9.sql 2007-10-18 18:04 1.6K
chainMm9.txt.gz 2007-10-18 18:05 69M
sgpGene.sql 2007-12-23 15:48 1.9K
sgpGene.txt.gz 2007-12-23 15:48 2.6M
geneid.sql 2008-04-03 03:13 1.9K
geneid.txt.gz 2008-04-03 03:13 2.7M
geneidPep.sql 2008-04-03 03:13 1.1K
geneidPep.txt.gz 2008-04-03 03:13 8.2M
ensGene.sql 2008-04-25 03:16 1.9K
ensGene.txt.gz 2008-04-25 03:16 2.4M
ensGtp.sql 2008-04-25 03:16 1.3K
ensGtp.txt.gz 2008-04-25 03:16 297K
ensPep.sql 2008-04-25 03:16 1.1K
ensPep.txt.gz 2008-04-25 03:16 7.3M
grp.sql 2014-03-02 03:37 1.4K
grp.txt.gz 2014-03-02 03:37 208
cpgIslandExtUnmasked.sql 2014-06-01 08:25 1.7K
cpgIslandExtUnmasked.txt.gz 2014-06-01 08:25 888K
augustusGene.sql 2015-07-26 10:13 1.9K
augustusGene.txt.gz 2015-07-26 10:13 2.3M
xenoMrna.sql 2016-02-21 09:58 2.3K
xenoMrna.txt.gz 2016-02-21 09:59 333M
intronEst.sql 2016-06-05 09:02 2.1K
intronEst.txt.gz 2016-06-05 09:02 37M
estOrientInfo.sql 2016-06-05 09:03 1.8K
estOrientInfo.txt.gz 2016-06-05 09:03 20M
all_est.sql 2016-06-05 09:03 2.1K
all_est.txt.gz 2016-06-05 09:03 64M
mgcGenes.sql 2020-03-01 04:51 1.9K
mgcGenes.txt.gz 2020-03-01 04:51 815K
mgcFullMrna.sql 2020-03-01 04:52 2.1K
mgcFullMrna.txt.gz 2020-03-01 04:52 920K
all_mrna.sql 2020-08-20 21:54 2.1K
all_mrna.txt.gz 2020-08-20 21:54 1.6M
refGene.sql 2020-08-20 22:14 1.9K
refGene.txt.gz 2020-08-20 22:14 1.5M
refFlat.sql 2020-08-20 22:14 1.7K
refFlat.txt.gz 2020-08-20 22:14 1.4M
xenoRefGene.sql 2020-08-20 22:14 2.0K
xenoRefGene.txt.gz 2020-08-20 22:14 38M
xenoRefFlat.sql 2020-08-20 22:14 1.7K
xenoRefFlat.txt.gz 2020-08-20 22:14 34M
mrnaOrientInfo.sql 2020-08-20 22:14 1.8K
mrnaOrientInfo.txt.gz 2020-08-20 22:14 594K
refSeqAli.sql 2020-08-20 22:20 2.1K
refSeqAli.txt.gz 2020-08-20 22:20 1.5M
xenoRefSeqAli.sql 2020-08-20 22:20 2.1K
xenoRefSeqAli.txt.gz 2020-08-20 22:20 37M
gbLoaded.sql 2020-08-20 22:20 1.6K
gbLoaded.txt.gz 2020-08-20 22:20 43K
trackDb.sql 2023-03-28 13:46 2.1K
trackDb.txt.gz 2023-03-28 13:46 31K
hgFindSpec.sql 2023-03-28 13:46 1.8K
hgFindSpec.txt.gz 2023-03-28 13:46 1.0K
tableDescriptions.sql 2024-10-26 02:03 1.4K
tableDescriptions.txt.gz 2024-10-26 02:03 6.1K
tableList.sql 2024-10-27 03:40 1.6K
tableList.txt.gz 2024-10-27 03:40 3.7K
bigFiles.sql 2024-10-27 03:40 1.4K
bigFiles.txt.gz 2024-10-27 03:40 33