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 -
blastHg17KG.txt.gz 2005-01-15 05:36 4.3M
chainDanRer2.txt.gz 2005-01-15 05:36 4.7M
chainDanRer2Link.txt.gz 2005-01-15 05:37 46M
chainGalGal2.txt.gz 2005-01-15 05:37 8.7M
chainGalGal2Link.txt.gz 2005-01-15 05:38 67M
chainHg17.txt.gz 2005-01-15 05:39 40M
chainHg17Link.txt.gz 2005-01-15 05:44 476M
chromInfo.txt.gz 2005-01-15 05:57 105K
cpgIslandExt.txt.gz 2005-01-15 05:57 545K
extFile.txt.gz 2005-01-15 05:57 182
gap.txt.gz 2005-01-15 05:57 1.1M
gc5Base.txt.gz 2005-01-15 05:58 14M
genscan.txt.gz 2005-01-15 05:58 2.4M
genscanPep.txt.gz 2005-01-15 05:58 8.8M
gold.txt.gz 2005-01-15 05:59 1.8M
history.txt.gz 2005-01-15 05:59 508
mostConserved.txt.gz 2005-01-15 05:59 19M
multiz5way.txt.gz 2005-01-15 05:59 15M
netDanRer2.txt.gz 2005-01-15 06:00 6.0M
netGalGal2.txt.gz 2005-01-15 06:00 9.4M
netHg17.txt.gz 2005-01-15 06:01 35M
quality.txt.gz 2005-01-15 06:04 67M
rmsk.txt.gz 2005-01-15 06:10 446M
simpleRepeat.txt.gz 2005-01-15 06:14 16M
phastCons5.txt.gz 2005-01-20 04:50 30M
danRer2_netBlastz.txt.gz 2005-01-20 04:51 2.2M
galGal2_netBlastz.txt.gz 2005-01-20 04:51 4.2M
hg17_netBlastz.txt.gz 2005-01-20 04:52 11M
mm5_netBlastz.txt.gz 2005-01-20 04:52 7.3M
contigAcc.txt.gz 2005-03-24 05:08 546K
chainMm6.txt.gz 2005-05-05 06:37 34M
chainMm6Link.txt.gz 2005-05-05 06:43 369M
netMm6.txt.gz 2005-05-05 06:48 22M
microsat.sql 2006-08-03 07:52 1.3K
microsat.txt.gz 2006-08-03 07:52 1.0M
gbDelete_tmp.sql 2009-08-19 15:43 1.3K
gbDelete_tmp.txt.gz 2009-08-19 15:43 171K
blastHg17KG.sql 2013-10-01 12:48 1.3K
chainDanRer2.sql 2013-10-01 12:48 886
chainDanRer2Link.sql 2013-10-01 12:48 585
chainGalGal2.sql 2013-10-01 12:48 886
chainGalGal2Link.sql 2013-10-01 12:48 585
chainHg17.sql 2013-10-01 12:48 880
chainHg17Link.sql 2013-10-01 12:48 579
chainMm6.sql 2013-10-01 12:48 878
chainMm6Link.sql 2013-10-01 12:48 577
chromInfo.sql 2013-10-01 12:48 396
contigAcc.sql 2013-10-01 12:48 343
cpgIslandExt.sql 2013-10-01 12:48 751
danRer2_netBlastz.sql 2013-10-01 12:48 675
extFile.sql 2013-10-01 12:48 445
galGal2_netBlastz.sql 2013-10-01 12:48 675
gap.sql 2013-10-01 12:48 722
gc5Base.sql 2013-10-01 12:48 890
genscan.sql 2013-10-01 12:48 748
genscanPep.sql 2013-10-01 12:48 330
gold.sql 2013-10-01 12:48 799
hg17_netBlastz.sql 2013-10-01 12:48 669
history.sql 2013-10-01 12:48 537
mm5_netBlastz.sql 2013-10-01 12:48 667
mostConserved.sql 2013-10-01 12:48 650
multiz5way.sql 2013-10-01 12:48 661
netDanRer2.sql 2013-10-01 12:48 1.3K
netGalGal2.sql 2013-10-01 12:48 1.3K
netHg17.sql 2013-10-01 12:48 1.3K
netMm6.sql 2013-10-01 12:48 1.3K
phastCons5.sql 2013-10-01 12:48 898
quality.sql 2013-10-01 12:48 890
rmsk.sql 2013-10-01 12:48 1.1K
simpleRepeat.sql 2013-10-01 12:48 1.1K
grp.sql 2014-03-02 04:14 1.4K
grp.txt.gz 2014-03-02 04:14 223
cpgIslandExtUnmasked.sql 2014-06-01 16:52 1.7K
cpgIslandExtUnmasked.txt.gz 2014-06-01 16:52 594K
augustusGene.sql 2015-07-26 16:38 1.9K
augustusGene.txt.gz 2015-07-26 16:38 2.0M
xenoMrna.sql 2016-02-21 20:04 2.4K
xenoMrna.txt.gz 2016-02-21 20:04 290M
all_mrna.sql 2019-03-17 11:24 2.1K
all_mrna.txt.gz 2019-03-17 11:24 65K
mrnaOrientInfo.sql 2019-03-17 11:24 1.8K
mrnaOrientInfo.txt.gz 2019-03-17 11:24 14K
xenoRefGene.sql 2020-08-22 12:05 2.0K
xenoRefGene.txt.gz 2020-08-22 12:05 34M
xenoRefFlat.sql 2020-08-22 12:05 1.7K
xenoRefFlat.txt.gz 2020-08-22 12:05 31M
xenoRefSeqAli.sql 2020-08-22 12:05 2.1K
xenoRefSeqAli.txt.gz 2020-08-22 12:05 32M
gbLoaded.sql 2020-08-22 12:20 1.6K
gbLoaded.txt.gz 2020-08-22 12:20 15K
trackDb.sql 2023-03-28 13:51 2.1K
trackDb.txt.gz 2023-03-28 13:51 25K
hgFindSpec.sql 2023-03-28 13:51 1.8K
hgFindSpec.txt.gz 2023-03-28 13:51 732
tableDescriptions.sql 2024-12-07 02:03 1.5K
tableDescriptions.txt.gz 2024-12-07 02:03 5.5K
tableList.sql 2024-12-08 03:29 1.6K
tableList.txt.gz 2024-12-08 03:29 3.0K
bigFiles.sql 2024-12-08 03:29 1.4K
bigFiles.txt.gz 2024-12-08 03:29 33