This directory contains a dump of the UCSC genome annotation database for
the May 2011 (gorGor3.1/gorGor3) assembly of the gorilla genome
(gorGor3, Wellcome Trust Sanger Institute May 2011
(NCBI project 31265, GCA_000151905.1)).
The annotations were generated by UCSC and collaborators worldwide.

This assembly was produced by the Wellcome Trust Sanger Institute.
For more information on the gorilla genome, see the project website:
	http://www.sanger.ac.uk/resources/downloads/gorilla/
See also, the WGS records:  http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=CABD02

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=gorGor3
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 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/gorGor3/database/. To download multiple 
files, use the "mget" command:

    mget <filename1> <filename2> ...
    - or -
    mget -a (to download all the files in the directory) 

Alternate methods to ftp access.

Using an rsync command to download the entire directory:
    rsync -avzP rsync://hgdownload.cse.ucsc.edu/goldenPath/gorGor3/database/ .
For a single file, e.g. gc5BaseBw.txt.gz
    rsync -avzP 
        rsync://hgdownload.cse.ucsc.edu/goldenPath/gorGor3/database/gc5BaseBw.txt.gz .

Or with wget, all files:
    wget --timestamping 
        'ftp://hgdownload.cse.ucsc.edu/goldenPath/gorGor3/database/*'
With wget, a single file: 
    wget --timestamping 
        'ftp://hgdownload.cse.ucsc.edu/goldenPath/gorGor3/database/gc5BaseBw.txt.gz' 
        -O gc5BaseBw.txt.gz

Please note that some files contents, such as this example gc5BaseBw.txt.gz,
will point to the data being hosted in another /gbdb/ location, which
refers to ftp://hgdownload.cse.ucsc.edu/gbdb/

To uncompress the *.txt.gz files:
    gunzip <table>.txt.gz
The tables can be loaded directly from the .txt.gz compressed file.
It is not necessary to uncompress them to load into a database,
as shown in the example below.

To load one of the tables directly into your local mirror database,
for example the table chromInfo:
## create table from the sql definition
$ hgsql gorGor3 < chromInfo.sql
## load data from the txt.gz file
$ zcat chromInfo.txt.gz | hgsql gorGor3 --local-infile=1 
        -e 'LOAD DATA LOCAL INFILE "/dev/stdin" INTO TABLE chromInfo;'

------------------------------------------------------------------
Please note the following data sharing guidelines:

http://www.sanger.ac.uk/datasharing/
      Name                          Last modified      Size  Description
Parent Directory - gc5BaseBw.txt.gz 2011-11-22 15:39 63 bigFiles.txt.gz 2024-04-14 03:32 68 extFile.txt.gz 2011-12-11 10:24 81 chromAlias.txt.gz 2016-09-15 17:59 157 grp.txt.gz 2014-03-02 04:14 208 history.txt.gz 2011-11-22 15:39 689 hgFindSpec.txt.gz 2023-09-19 16:08 890 hgFindSpec_pushedout.txt.gz 2023-09-18 17:06 900 gc5BaseBw.sql 2011-11-22 15:39 1.2K chromInfo.sql 2011-11-22 15:38 1.3K ensPep.sql 2018-02-04 07:18 1.3K grp.sql 2014-03-02 04:14 1.3K extFile.sql 2011-12-11 10:24 1.4K ensemblSource.sql 2018-02-04 07:22 1.4K bigFiles.sql 2024-04-14 03:32 1.4K ensemblToGeneName.sql 2018-02-04 07:22 1.4K ensGtp.sql 2018-02-04 07:18 1.4K tableDescriptions.sql 2024-04-13 02:03 1.4K ucscToINSDC.sql 2013-09-15 13:36 1.4K chromAlias.sql 2016-09-15 17:59 1.4K multiz11way.sql 2011-12-11 10:24 1.5K chainHg19Link.sql 2011-11-22 15:36 1.5K chainMm10Link.sql 2012-05-08 06:54 1.5K chainCalJac3Link.sql 2011-11-22 15:39 1.5K chainNomLeu1Link.sql 2011-11-22 15:37 1.5K chainPanTro3Link.sql 2011-11-22 15:38 1.5K chainPonAbe2Link.sql 2011-11-22 15:44 1.5K microsat.sql 2015-08-23 17:18 1.5K phastConsElements11way.sql 2011-12-11 10:23 1.5K history.sql 2011-11-22 15:39 1.5K multiz11waySummary.sql 2011-12-11 10:24 1.5K cytoBandIdeo.sql 2013-04-28 15:43 1.5K gap.sql 2011-11-22 15:46 1.5K chainTarSyr2Link.sql 2015-05-25 02:20 1.5K chainMicMur1Link.sql 2012-11-11 13:03 1.6K chainPapHam1Link.sql 2012-11-18 15:14 1.6K chainRheMac3Link.sql 2012-12-02 15:11 1.6K tableList.sql 2024-04-14 03:32 1.6K gold.sql 2011-11-22 15:35 1.6K gbLoaded.sql 2020-08-22 02:09 1.6K chainHg19.sql 2011-11-22 15:44 1.6K chainMm10.sql 2012-05-08 07:20 1.6K chainCalJac3.sql 2011-11-22 15:42 1.6K chainNomLeu1.sql 2011-11-22 15:35 1.6K chainPanTro3.sql 2011-11-22 15:35 1.6K chainPonAbe2.sql 2011-11-22 15:35 1.6K multiz11wayFrames.sql 2011-12-11 10:26 1.7K tRNAs.sql 2012-04-23 00:52 1.7K phyloP11way.sql 2011-12-11 10:26 1.7K phastCons11way.sql 2011-12-11 10:24 1.7K chainTarSyr2.sql 2015-05-25 02:19 1.7K chainMicMur1.sql 2012-11-11 13:03 1.7K chainPapHam1.sql 2012-11-18 15:15 1.7K chainRheMac3.sql 2012-12-02 15:14 1.7K xenoRefFlat.sql 2020-08-22 02:09 1.7K hgFindSpec.sql 2023-09-19 16:08 1.8K mrnaOrientInfo.sql 2019-10-20 08:29 1.8K hgFindSpec_pushedout.sql 2023-09-18 17:06 1.8K rmsk.sql 2011-11-22 15:45 1.8K simpleRepeat.sql 2011-11-22 15:42 1.9K nestedRepeats.sql 2011-11-22 15:39 1.9K geneid.sql 2015-11-22 16:45 1.9K ensGene.sql 2018-02-04 07:22 1.9K augustusGene.sql 2015-07-26 14:02 1.9K xenoRefGene.sql 2020-08-22 02:09 2.0K netHg19.sql 2011-11-22 15:43 2.0K netMm10.sql 2012-05-08 06:49 2.0K netCalJac3.sql 2011-11-22 15:43 2.0K netNomLeu1.sql 2011-11-22 15:35 2.0K netPanTro3.sql 2011-11-22 15:38 2.0K netPonAbe2.sql 2011-11-22 15:35 2.0K trackDb.sql 2023-09-19 16:08 2.1K trackDb_pushedout.sql 2023-09-18 17:06 2.1K netTarSyr2.sql 2015-05-25 02:20 2.1K netMicMur1.sql 2012-11-11 13:03 2.1K netPapHam1.sql 2012-11-18 15:15 2.1K netRheMac3.sql 2012-12-02 15:14 2.1K all_mrna.sql 2019-10-20 08:29 2.1K xenoMrna.sql 2020-08-22 01:49 2.1K xenoRefSeqAli.sql 2020-08-22 02:09 2.1K tableList.txt.gz 2024-04-14 03:32 4.0K mrnaOrientInfo.txt.gz 2019-10-20 08:29 6.0K tableDescriptions.txt.gz 2024-04-13 02:03 7.1K tRNAs.txt.gz 2012-04-23 00:52 11K all_mrna.txt.gz 2019-10-20 08:29 20K gbLoaded.txt.gz 2020-08-22 02:09 36K trackDb_pushedout.txt.gz 2023-09-18 17:06 44K trackDb.txt.gz 2023-09-19 16:08 44K ensemblSource.txt.gz 2018-02-04 07:22 96K ensemblToGeneName.txt.gz 2018-02-04 07:22 183K chromInfo.txt.gz 2011-11-22 15:38 226K cytoBandIdeo.txt.gz 2013-04-28 15:43 237K microsat.txt.gz 2015-08-23 17:18 264K ucscToINSDC.txt.gz 2013-09-15 13:36 351K ensGtp.txt.gz 2018-02-04 07:18 372K gold.txt.gz 2011-11-22 15:35 699K augustusGene.txt.gz 2015-07-26 14:02 2.3M ensGene.txt.gz 2018-02-04 07:22 2.6M geneid.txt.gz 2015-11-22 16:45 2.9M gap.txt.gz 2011-11-22 15:46 5.3M chainMicMur1.txt.gz 2012-11-11 13:03 7.5M ensPep.txt.gz 2018-02-04 07:18 8.4M phastConsElements11way.txt.gz 2011-12-11 10:24 8.5M multiz11wayFrames.txt.gz 2011-12-11 10:26 13M chainCalJac3.txt.gz 2011-11-22 15:42 13M netHg19.txt.gz 2011-11-22 15:43 15M chainNomLeu1.txt.gz 2011-11-22 15:35 15M multiz11waySummary.txt.gz 2011-12-11 10:24 16M netPanTro3.txt.gz 2011-11-22 15:38 17M nestedRepeats.txt.gz 2011-11-22 15:39 17M chainPapHam1.txt.gz 2012-11-18 15:15 20M netPonAbe2.txt.gz 2011-11-22 15:35 22M netNomLeu1.txt.gz 2011-11-22 15:35 22M chainPonAbe2.txt.gz 2011-11-22 15:35 23M chainHg19.txt.gz 2011-11-22 15:44 25M simpleRepeat.txt.gz 2011-11-22 15:42 25M chainPanTro3.txt.gz 2011-11-22 15:35 28M netPapHam1.txt.gz 2012-11-18 15:15 33M netRheMac3.txt.gz 2012-12-02 15:14 36M xenoRefFlat.txt.gz 2020-08-22 02:09 39M xenoRefGene.txt.gz 2020-08-22 02:09 42M xenoRefSeqAli.txt.gz 2020-08-22 02:09 43M netCalJac3.txt.gz 2011-11-22 15:43 44M netMicMur1.txt.gz 2012-11-11 13:03 49M netTarSyr2.txt.gz 2015-05-25 02:20 67M phastCons11way.txt.gz 2011-12-11 10:24 73M netMm10.txt.gz 2012-05-08 06:51 77M phyloP11way.txt.gz 2011-12-11 10:26 80M chainMm10.txt.gz 2012-05-08 07:21 83M chainMicMur1Link.txt.gz 2012-11-11 13:03 96M chainPanTro3Link.txt.gz 2011-11-22 15:38 106M chainHg19Link.txt.gz 2011-11-22 15:36 107M chainNomLeu1Link.txt.gz 2011-11-22 15:37 123M rmsk.txt.gz 2011-11-22 15:46 133M chainPonAbe2Link.txt.gz 2011-11-22 15:44 149M chainPapHam1Link.txt.gz 2012-11-18 15:14 153M multiz11way.txt.gz 2011-12-11 10:25 178M chainRheMac3.txt.gz 2012-12-02 15:15 217M chainCalJac3Link.txt.gz 2011-11-22 15:40 218M chainTarSyr2.txt.gz 2015-05-25 02:19 252M chainMm10Link.txt.gz 2012-05-08 07:01 514M xenoMrna.txt.gz 2020-08-22 01:49 551M chainRheMac3Link.txt.gz 2012-12-02 15:12 647M chainTarSyr2Link.txt.gz 2015-05-25 02:22 1.0G