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 -
chainHg17Link.txt.gz 2005-01-15 05:44 476M
rmsk.txt.gz 2005-01-15 06:10 446M
chainMm6Link.txt.gz 2005-05-05 06:43 369M
xenoMrna.txt.gz 2016-02-21 20:04 290M
quality.txt.gz 2005-01-15 06:04 67M
chainGalGal2Link.txt.gz 2005-01-15 05:38 67M
chainDanRer2Link.txt.gz 2005-01-15 05:37 46M
chainHg17.txt.gz 2005-01-15 05:39 40M
netHg17.txt.gz 2005-01-15 06:01 35M
chainMm6.txt.gz 2005-05-05 06:37 34M
xenoRefGene.txt.gz 2020-08-22 12:05 34M
xenoRefSeqAli.txt.gz 2020-08-22 12:05 32M
xenoRefFlat.txt.gz 2020-08-22 12:05 31M
phastCons5.txt.gz 2005-01-20 04:50 30M
netMm6.txt.gz 2005-05-05 06:48 22M
mostConserved.txt.gz 2005-01-15 05:59 19M
simpleRepeat.txt.gz 2005-01-15 06:14 16M
multiz5way.txt.gz 2005-01-15 05:59 15M
gc5Base.txt.gz 2005-01-15 05:58 14M
hg17_netBlastz.txt.gz 2005-01-20 04:52 11M
netGalGal2.txt.gz 2005-01-15 06:00 9.4M
genscanPep.txt.gz 2005-01-15 05:58 8.8M
chainGalGal2.txt.gz 2005-01-15 05:37 8.7M
mm5_netBlastz.txt.gz 2005-01-20 04:52 7.3M
netDanRer2.txt.gz 2005-01-15 06:00 6.0M
chainDanRer2.txt.gz 2005-01-15 05:36 4.7M
blastHg17KG.txt.gz 2005-01-15 05:36 4.3M
galGal2_netBlastz.txt.gz 2005-01-20 04:51 4.2M
genscan.txt.gz 2005-01-15 05:58 2.4M
danRer2_netBlastz.txt.gz 2005-01-20 04:51 2.2M
augustusGene.txt.gz 2015-07-26 16:38 2.0M
gold.txt.gz 2005-01-15 05:59 1.8M
gap.txt.gz 2005-01-15 05:57 1.1M
microsat.txt.gz 2006-08-03 07:52 1.0M
cpgIslandExtUnmasked.txt.gz 2014-06-01 16:52 594K
contigAcc.txt.gz 2005-03-24 05:08 546K
cpgIslandExt.txt.gz 2005-01-15 05:57 545K
gbDelete_tmp.txt.gz 2009-08-19 15:43 171K
chromInfo.txt.gz 2005-01-15 05:57 105K
all_mrna.txt.gz 2019-03-17 11:24 65K
trackDb.txt.gz 2023-03-28 13:51 25K
trackDb_pushedout.txt.gz 2021-12-27 12:21 25K
gbLoaded.txt.gz 2020-08-22 12:20 15K
mrnaOrientInfo.txt.gz 2019-03-17 11:24 14K
tableDescriptions.txt.gz 2024-04-20 02:03 5.5K
tableList.txt.gz 2024-04-21 03:31 3.1K
xenoMrna.sql 2016-02-21 20:04 2.4K
xenoRefSeqAli.sql 2020-08-22 12:05 2.1K
all_mrna.sql 2019-03-17 11:24 2.1K
trackDb_pushedout.sql 2021-12-27 12:21 2.1K
trackDb.sql 2023-03-28 13:51 2.1K
xenoRefGene.sql 2020-08-22 12:05 2.0K
augustusGene.sql 2015-07-26 16:38 1.9K
hgFindSpec_pushedout.sql 2021-12-27 12:21 1.8K
mrnaOrientInfo.sql 2019-03-17 11:24 1.8K
hgFindSpec.sql 2023-03-28 13:51 1.8K
xenoRefFlat.sql 2020-08-22 12:05 1.7K
cpgIslandExtUnmasked.sql 2014-06-01 16:52 1.7K
gbLoaded.sql 2020-08-22 12:20 1.6K
tableList.sql 2024-04-21 03:31 1.6K
tableDescriptions.sql 2024-04-20 02:03 1.5K
bigFiles.sql 2024-04-21 03:31 1.4K
grp.sql 2014-03-02 04:14 1.4K
blastHg17KG.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
netHg17.sql 2013-10-01 12:48 1.3K
netMm6.sql 2013-10-01 12:48 1.3K
microsat.sql 2006-08-03 07:52 1.3K
gbDelete_tmp.sql 2009-08-19 15:43 1.3K
simpleRepeat.sql 2013-10-01 12:48 1.1K
rmsk.sql 2013-10-01 12:48 1.1K
phastCons5.sql 2013-10-01 12:48 898
quality.sql 2013-10-01 12:48 890
gc5Base.sql 2013-10-01 12:48 890
chainGalGal2.sql 2013-10-01 12:48 886
chainDanRer2.sql 2013-10-01 12:48 886
chainHg17.sql 2013-10-01 12:48 880
chainMm6.sql 2013-10-01 12:48 878
gold.sql 2013-10-01 12:48 799
cpgIslandExt.sql 2013-10-01 12:48 751
genscan.sql 2013-10-01 12:48 748
hgFindSpec.txt.gz 2023-03-28 13:51 732
gap.sql 2013-10-01 12:48 722
hgFindSpec_pushedout.txt.gz 2021-12-27 12:21 693
galGal2_netBlastz.sql 2013-10-01 12:48 675
danRer2_netBlastz.sql 2013-10-01 12:48 675
hg17_netBlastz.sql 2013-10-01 12:48 669
mm5_netBlastz.sql 2013-10-01 12:48 667
multiz5way.sql 2013-10-01 12:48 661
mostConserved.sql 2013-10-01 12:48 650
chainGalGal2Link.sql 2013-10-01 12:48 585
chainDanRer2Link.sql 2013-10-01 12:48 585
chainHg17Link.sql 2013-10-01 12:48 579
chainMm6Link.sql 2013-10-01 12:48 577
history.sql 2013-10-01 12:48 537
history.txt.gz 2005-01-15 05:59 508
extFile.sql 2013-10-01 12:48 445
chromInfo.sql 2013-10-01 12:48 396
contigAcc.sql 2013-10-01 12:48 343
genscanPep.sql 2013-10-01 12:48 330
grp.txt.gz 2014-03-02 04:14 223
extFile.txt.gz 2005-01-15 05:57 182
bigFiles.txt.gz 2024-04-21 03:31 33