This directory contains a dump of the UCSC genome annotation database
for the Mar. 2005 cow genome assembled by the Baylor College of Medicine
Human Genome Sequencing Center (bosTau2 BCM HGSC Btau_2.0). For more
information about this assembly, see the Baylor web page at
http://www.hgsc.bcm.tmc.edu/projects/bovine/.
Files included in this directory (updated nightly):
- *.sql files: the MySQL commands used to create the tables.
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=bosTau2
and click the "describe table schema" button. There is also a "view
table schema" link on the configuration page for each track.
- *.txt.gz files: the database tables in a tab-delimited format
compressed with gzip.
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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/bosTau2/database/. To download multiple files, use the
"mget" command:
mget <filename1> <filename2> ...
- or -
mget -a (to download all the files in the directory)
Please review the restrictions on the use of the cow assembly data at
http://www.hgsc.bcm.tmc.edu/projects/conditions_for_use.html.
Name Last modified Size Description
Parent Directory -
all_est.sql 05-Jun-2016 09:00 2.3K
all_est.txt.gz 05-Jun-2016 09:00 65M
all_mrna.sql 09-Jul-2017 07:32 2.3K
all_mrna.txt.gz 09-Jul-2017 07:32 1.8M
augustusGene.sql 26-Jul-2015 10:13 1.9K
augustusGene.txt.gz 26-Jul-2015 10:13 2.3M
bigFiles.sql 09-Jul-2017 07:33 1.4K
bigFiles.txt.gz 09-Jul-2017 07:33 33
blastHg18KG.sql 01-Mar-2007 07:13 2.1K
blastHg18KG.txt.gz 01-Mar-2007 07:13 2.9M
chainHg18.sql 01-Oct-2013 12:48 880
chainHg18.txt.gz 16-Apr-2006 06:25 36M
chainHg18Link.sql 01-Oct-2013 12:48 579
chainHg18Link.txt.gz 16-Apr-2006 06:29 441M
chainMm8.sql 01-Oct-2013 12:48 812
chainMm8.txt.gz 10-May-2006 06:30 53M
chainMm8Link.sql 01-Oct-2013 12:48 577
chainMm8Link.txt.gz 10-May-2006 06:37 440M
chainRn4.sql 21-Jun-2006 06:33 1.6K
chainRn4.txt.gz 21-Jun-2006 06:34 57M
chainRn4Link.sql 21-Jun-2006 06:34 1.4K
chainRn4Link.txt.gz 21-Jun-2006 06:41 455M
chromInfo.sql 01-Oct-2013 12:48 396
chromInfo.txt.gz 05-Oct-2005 09:02 279K
contigOrient.sql 01-Oct-2013 12:48 686
contigOrient.txt.gz 05-Oct-2005 09:03 1.5M
cpgIslandExt.sql 01-Oct-2013 12:48 751
cpgIslandExt.txt.gz 05-Oct-2005 09:03 2.0M
cpgIslandExtUnmasked.sql 01-Jun-2014 08:19 1.7K
cpgIslandExtUnmasked.txt.gz 01-Jun-2014 08:19 2.1M
estOrientInfo.sql 05-Jun-2016 08:59 1.9K
estOrientInfo.txt.gz 05-Jun-2016 09:00 21M
gap.sql 01-Oct-2013 12:48 634
gap.txt.gz 05-Oct-2005 09:03 6.2M
gbLoaded.sql 09-Jul-2017 07:33 1.7K
gbLoaded.txt.gz 09-Jul-2017 07:33 179K
gc5Base.sql 01-Oct-2013 12:48 891
gc5Base.txt.gz 05-Oct-2005 09:05 14M
geneid.sql 01-Oct-2013 12:48 1.0K
geneid.txt.gz 28-Oct-2005 05:23 3.7M
geneidPep.sql 01-Oct-2013 12:48 328
geneidPep.txt.gz 28-Oct-2005 05:23 7.9M
genscan.sql 01-Oct-2013 12:48 748
genscan.txt.gz 05-Oct-2005 09:05 3.2M
genscanPep.sql 01-Oct-2013 12:48 330
genscanPep.txt.gz 05-Oct-2005 09:05 11M
gold.sql 01-Oct-2013 12:48 711
gold.txt.gz 05-Oct-2005 09:06 11M
grp.sql 02-Mar-2014 03:37 1.4K
grp.txt.gz 02-Mar-2014 03:37 223
hgFindSpec.sql 09-Jul-2017 07:32 1.7K
hgFindSpec.txt.gz 09-Jul-2017 07:32 754
history.sql 01-Oct-2013 12:48 537
history.txt.gz 05-Oct-2005 09:06 279
intronEst.sql 05-Jun-2016 08:59 2.3K
intronEst.txt.gz 05-Jun-2016 08:59 33M
mgcFullMrna.sql 05-Jun-2016 08:59 2.3K
mgcFullMrna.txt.gz 05-Jun-2016 08:59 962K
mgcGenes.sql 05-Jun-2016 08:59 2.1K
mgcGenes.txt.gz 05-Jun-2016 08:59 962K
mrnaOrientInfo.sql 09-Jul-2017 07:32 1.9K
mrnaOrientInfo.txt.gz 09-Jul-2017 07:32 694K
netHg18.sql 01-Oct-2013 12:48 1.3K
netHg18.txt.gz 16-Apr-2006 06:34 69M
netMm8.sql 01-Oct-2013 12:48 1.3K
netMm8.txt.gz 10-May-2006 06:44 54M
netRn4.sql 21-Jun-2006 06:46 2.2K
netRn4.txt.gz 21-Jun-2006 06:47 52M
quality.sql 01-Oct-2013 12:48 892
quality.txt.gz 05-Oct-2005 09:08 62M
refFlat.sql 09-Jul-2017 07:32 1.9K
refFlat.txt.gz 09-Jul-2017 07:32 1.4M
refGene.sql 09-Jul-2017 07:32 2.2K
refGene.txt.gz 09-Jul-2017 07:32 1.6M
refSeqAli.sql 09-Jul-2017 07:32 2.3K
refSeqAli.txt.gz 09-Jul-2017 07:32 1.6M
rmsk.sql 01-Oct-2013 12:48 1.0K
rmsk.txt.gz 05-Oct-2005 09:11 140M
sgpGene.sql 01-Oct-2013 12:48 1.0K
sgpGene.txt.gz 31-Dec-2005 06:16 2.4M
simpleRepeat.sql 01-Oct-2013 12:48 1.0K
simpleRepeat.txt.gz 05-Oct-2005 09:14 10M
tableDescriptions.sql 09-Jul-2017 07:33 1.4K
tableDescriptions.txt.gz 09-Jul-2017 07:33 4.1K
tableList.sql 09-Jul-2017 07:33 1.5K
tableList.txt.gz 09-Jul-2017 07:33 3.1K
trackDb.sql 09-Jul-2017 07:33 2.0K
trackDb.txt.gz 09-Jul-2017 07:33 23K
xenoMrna.sql 03-Nov-2013 07:21 2.1K
xenoMrna.txt.gz 03-Nov-2013 07:21 33
xenoRefFlat.sql 09-Jul-2017 07:32 1.9K
xenoRefFlat.txt.gz 09-Jul-2017 07:33 31M
xenoRefGene.sql 09-Jul-2017 07:33 1.8K
xenoRefGene.txt.gz 09-Jul-2017 07:33 29M
xenoRefSeqAli.sql 09-Jul-2017 07:32 2.4K
xenoRefSeqAli.txt.gz 09-Jul-2017 07:32 38M