This directory contains a dump of the UCSC genome annotation
database for the Oct. 2004 assembly of the opossum genome (UCSC
version monDom1) from the Broad Institute at MIT and Harvard.
The directory is updated nightly. The .txt.gz files contain the
database tables in a tab-delimited format compressed with gzip.
The .sql files contain 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=monDom1
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 that 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/monDom1/database. To download multiple files,
use the "mget" command:
mget <filename1> <filename2> ...
- or -
mget -a (to download all the files in the directory)
All the tables in this directory are freely usable for any
purpose. The opossum sequence is made freely available before scientific
publication with the following understanding:
1. The data may be freely downloaded, used in analyses, and repackaged
in databases.
2. Users are free to use the data in scientific papers analyzing
particular genes and regions if the providers of these data (The
Broad Institute) are properly acknowledged.
3. The centers producing the data reserve the right to publish the
initial large-scale analyses of the data set, including large-scale
identification of regions of evolutionary conservation and large-scale
genomic assembly. Large-scale refers to regions with size on the order
of a chromosome (that is, 30 Mb or more).
4. Any redistribution of the data should carry this notice.
Name Last modified Size Description
Parent Directory -
bigFiles.txt.gz 2024-11-17 03:33 33
bigFiles.sql 2024-11-17 03:33 1.4K
tableList.txt.gz 2024-11-17 03:33 3.0K
tableList.sql 2024-11-17 03:33 1.6K
tableDescriptions.txt.gz 2024-11-16 02:03 5.5K
tableDescriptions.sql 2024-11-16 02:03 1.4K
hgFindSpec.txt.gz 2023-03-28 13:51 732
hgFindSpec.sql 2023-03-28 13:51 1.8K
trackDb.txt.gz 2023-03-28 13:51 25K
trackDb.sql 2023-03-28 13:51 2.1K
gbLoaded.txt.gz 2020-08-22 12:20 15K
gbLoaded.sql 2020-08-22 12:20 1.6K
xenoRefSeqAli.txt.gz 2020-08-22 12:05 32M
xenoRefSeqAli.sql 2020-08-22 12:05 2.1K
xenoRefFlat.txt.gz 2020-08-22 12:05 31M
xenoRefFlat.sql 2020-08-22 12:05 1.7K
xenoRefGene.txt.gz 2020-08-22 12:05 34M
xenoRefGene.sql 2020-08-22 12:05 2.0K
mrnaOrientInfo.txt.gz 2019-03-17 11:24 14K
mrnaOrientInfo.sql 2019-03-17 11:24 1.8K
all_mrna.txt.gz 2019-03-17 11:24 65K
all_mrna.sql 2019-03-17 11:24 2.1K
xenoMrna.txt.gz 2016-02-21 20:04 290M
xenoMrna.sql 2016-02-21 20:04 2.4K
augustusGene.txt.gz 2015-07-26 16:38 2.0M
augustusGene.sql 2015-07-26 16:38 1.9K
cpgIslandExtUnmasked.txt.gz 2014-06-01 16:52 594K
cpgIslandExtUnmasked.sql 2014-06-01 16:52 1.7K
grp.txt.gz 2014-03-02 04:14 223
grp.sql 2014-03-02 04:14 1.4K
simpleRepeat.sql 2013-10-01 12:48 1.1K
rmsk.sql 2013-10-01 12:48 1.1K
quality.sql 2013-10-01 12:48 890
phastCons5.sql 2013-10-01 12:48 898
netMm6.sql 2013-10-01 12:48 1.3K
netHg17.sql 2013-10-01 12:48 1.3K
netGalGal2.sql 2013-10-01 12:48 1.3K
netDanRer2.sql 2013-10-01 12:48 1.3K
multiz5way.sql 2013-10-01 12:48 661
mostConserved.sql 2013-10-01 12:48 650
mm5_netBlastz.sql 2013-10-01 12:48 667
history.sql 2013-10-01 12:48 537
hg17_netBlastz.sql 2013-10-01 12:48 669
gold.sql 2013-10-01 12:48 799
genscanPep.sql 2013-10-01 12:48 330
genscan.sql 2013-10-01 12:48 748
gc5Base.sql 2013-10-01 12:48 890
gap.sql 2013-10-01 12:48 722
galGal2_netBlastz.sql 2013-10-01 12:48 675
extFile.sql 2013-10-01 12:48 445
danRer2_netBlastz.sql 2013-10-01 12:48 675
cpgIslandExt.sql 2013-10-01 12:48 751
contigAcc.sql 2013-10-01 12:48 343
chromInfo.sql 2013-10-01 12:48 396
chainMm6Link.sql 2013-10-01 12:48 577
chainMm6.sql 2013-10-01 12:48 878
chainHg17Link.sql 2013-10-01 12:48 579
chainHg17.sql 2013-10-01 12:48 880
chainGalGal2Link.sql 2013-10-01 12:48 585
chainGalGal2.sql 2013-10-01 12:48 886
chainDanRer2Link.sql 2013-10-01 12:48 585
chainDanRer2.sql 2013-10-01 12:48 886
blastHg17KG.sql 2013-10-01 12:48 1.3K
gbDelete_tmp.txt.gz 2009-08-19 15:43 171K
gbDelete_tmp.sql 2009-08-19 15:43 1.3K
microsat.txt.gz 2006-08-03 07:52 1.0M
microsat.sql 2006-08-03 07:52 1.3K
netMm6.txt.gz 2005-05-05 06:48 22M
chainMm6Link.txt.gz 2005-05-05 06:43 369M
chainMm6.txt.gz 2005-05-05 06:37 34M
contigAcc.txt.gz 2005-03-24 05:08 546K
mm5_netBlastz.txt.gz 2005-01-20 04:52 7.3M
hg17_netBlastz.txt.gz 2005-01-20 04:52 11M
galGal2_netBlastz.txt.gz 2005-01-20 04:51 4.2M
danRer2_netBlastz.txt.gz 2005-01-20 04:51 2.2M
phastCons5.txt.gz 2005-01-20 04:50 30M
simpleRepeat.txt.gz 2005-01-15 06:14 16M
rmsk.txt.gz 2005-01-15 06:10 446M
quality.txt.gz 2005-01-15 06:04 67M
netHg17.txt.gz 2005-01-15 06:01 35M
netGalGal2.txt.gz 2005-01-15 06:00 9.4M
netDanRer2.txt.gz 2005-01-15 06:00 6.0M
multiz5way.txt.gz 2005-01-15 05:59 15M
mostConserved.txt.gz 2005-01-15 05:59 19M
history.txt.gz 2005-01-15 05:59 508
gold.txt.gz 2005-01-15 05:59 1.8M
genscanPep.txt.gz 2005-01-15 05:58 8.8M
genscan.txt.gz 2005-01-15 05:58 2.4M
gc5Base.txt.gz 2005-01-15 05:58 14M
gap.txt.gz 2005-01-15 05:57 1.1M
extFile.txt.gz 2005-01-15 05:57 182
cpgIslandExt.txt.gz 2005-01-15 05:57 545K
chromInfo.txt.gz 2005-01-15 05:57 105K
chainHg17Link.txt.gz 2005-01-15 05:44 476M
chainHg17.txt.gz 2005-01-15 05:39 40M
chainGalGal2Link.txt.gz 2005-01-15 05:38 67M
chainGalGal2.txt.gz 2005-01-15 05:37 8.7M
chainDanRer2Link.txt.gz 2005-01-15 05:37 46M
chainDanRer2.txt.gz 2005-01-15 05:36 4.7M
blastHg17KG.txt.gz 2005-01-15 05:36 4.3M