This directory contains a dump of the UCSC genome annotation database for the
    Nov. 2014 (ICGSC Felis_catus_8.0/felCat8) assembly of the cat genome
    (felCat8, International Cat Genome Sequencing Consortium) .

The annotations were generated by UCSC and collaborators worldwide.

For more information about this assembly, please note the NCBI resources:
    http://www.ncbi.nlm.nih.gov/genome/78
    http://www.ncbi.nlm.nih.gov/genome/assembly/1373248
    http://www.ncbi.nlm.nih.gov/bioproject/16726

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=felCat8
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/felCat8/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/felCat8/database/ .
For a single file, e.g. gc5BaseBw.txt.gz
    rsync -avzP 
        rsync://hgdownload.cse.ucsc.edu/goldenPath/felCat8/database/gc5BaseBw.txt.gz .

Or with wget, all files:
    wget --timestamping 
        'ftp://hgdownload.cse.ucsc.edu/goldenPath/felCat8/database/*'
With wget, a single file:
    wget --timestamping 
        'ftp://hgdownload.cse.ucsc.edu/goldenPath/felCat8/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 felCat8 < chromInfo.sql
## load data from the txt.gz file
$ zcat chromInfo.txt.gz | hgsql felCat8 --local-infile=1 
        -e 'LOAD DATA LOCAL INFILE "/dev/stdin" INTO TABLE chromInfo;'

-----------------------------------------------------------------------------
GenBank Data Usage

The GenBank database is designed to provide and encourage access within
the scientific community to the most up to date and comprehensive DNA
sequence information. Therefore, NCBI places no restrictions on the use
or distribution of the GenBank data. However, some submitters may claim
patent, copyright, or other intellectual property rights in all or a
portion of the data they have submitted. NCBI is not in a position to
assess the validity of such claims, and therefore cannot provide comment
or unrestricted permission concerning the use, copying, or distribution
of the information contained in GenBank.
-----------------------------------------------------------------------------
All the files and tables in this directory are freely usable for any purpose.

      Name                        Last modified      Size  Description
Parent Directory - augustusGene.sql 2015-12-21 09:37 1.9K augustusGene.txt.gz 2015-12-21 09:37 2.3M history.sql 2015-12-21 09:37 1.6K history.txt.gz 2015-12-21 09:37 689 chainCanFam3.sql 2015-12-21 09:39 1.7K chainCanFam3.txt.gz 2015-12-21 09:39 107M chainCanFam3Link.sql 2015-12-21 09:40 1.5K chainCanFam3Link.txt.gz 2015-12-21 09:41 662M chainHg38.sql 2015-12-21 09:44 1.7K chainHg38.txt.gz 2015-12-21 09:44 262M chainHg38Link.sql 2015-12-21 09:45 1.5K chainHg38Link.txt.gz 2015-12-21 09:46 1.0G microsat.sql 2015-12-21 09:50 1.5K microsat.txt.gz 2015-12-21 09:50 1.2M chromInfo.sql 2015-12-21 09:50 1.4K chromInfo.txt.gz 2015-12-21 09:50 1.0M cpgIslandExt.sql 2015-12-21 09:50 1.7K cpgIslandExt.txt.gz 2015-12-21 09:50 1.3M gc5BaseBw.sql 2015-12-21 09:50 1.3K gc5BaseBw.txt.gz 2015-12-21 09:50 66 cpgIslandExtUnmasked.sql 2015-12-21 09:50 1.7K cpgIslandExtUnmasked.txt.gz 2015-12-21 09:50 1.8M cytoBandIdeo.sql 2015-12-21 09:51 1.5K cytoBandIdeo.txt.gz 2015-12-21 09:51 965K genscan.sql 2015-12-21 09:51 1.7K genscan.txt.gz 2015-12-21 09:51 3.5M gold.sql 2015-12-21 09:51 1.7K gold.txt.gz 2015-12-21 09:51 3.6M grp.sql 2015-12-21 09:51 1.3K grp.txt.gz 2015-12-21 09:51 213 gap.sql 2015-12-21 09:51 1.6K gap.txt.gz 2015-12-21 09:51 1.3M nestedRepeats.sql 2015-12-21 09:51 1.9K nestedRepeats.txt.gz 2015-12-21 09:51 15M netCanFam3.sql 2015-12-21 09:51 2.1K netCanFam3.txt.gz 2015-12-21 09:52 62M netHg38.sql 2015-12-21 09:52 2.1K netHg38.txt.gz 2015-12-21 09:52 70M rmsk.sql 2015-12-21 09:52 1.9K rmsk.txt.gz 2015-12-21 09:53 137M simpleRepeat.sql 2015-12-21 09:53 1.9K simpleRepeat.txt.gz 2015-12-21 09:53 23M ucscToINSDC.sql 2015-12-21 09:53 1.4K ucscToINSDC.txt.gz 2015-12-21 09:53 1.8M windowmaskerSdust.sql 2015-12-21 09:53 1.5K windowmaskerSdust.txt.gz 2015-12-21 09:53 132M all_est.sql 2016-05-15 08:39 2.1K all_est.txt.gz 2016-05-15 08:39 40K estOrientInfo.sql 2016-05-15 08:39 1.8K intronEst.sql 2016-05-15 08:39 2.1K intronEst.txt.gz 2016-05-15 08:39 20K estOrientInfo.txt.gz 2016-05-15 08:39 14K chainRn6.sql 2017-03-26 22:59 1.7K chainRn6.txt.gz 2017-03-26 23:00 125M chainRn6Link.sql 2017-03-26 23:04 1.5K chainRn6Link.txt.gz 2017-03-26 23:14 630M netRn6.sql 2017-03-26 23:40 2.1K netRn6.txt.gz 2017-03-26 23:42 64M chromAlias.sql 2018-02-04 07:04 1.4K chromAlias.txt.gz 2018-02-04 07:04 3.2M ncbiRefSeq.sql 2018-02-09 13:42 2.0K ncbiRefSeq.txt.gz 2018-02-09 13:42 3.7M ncbiRefSeqCurated.sql 2018-02-09 13:42 2.0K ncbiRefSeqCurated.txt.gz 2018-02-09 13:42 35K ncbiRefSeqPredicted.sql 2018-02-09 13:42 2.0K ncbiRefSeqPredicted.txt.gz 2018-02-09 13:42 3.7M ncbiRefSeqLink.sql 2018-02-09 13:42 2.0K ncbiRefSeqLink.txt.gz 2018-02-09 13:42 1.8M ncbiRefSeqPsl.sql 2018-02-09 13:43 2.1K ncbiRefSeqPsl.txt.gz 2018-02-09 13:43 5.0M ncbiRefSeqCds.sql 2018-02-09 14:16 1.4K ncbiRefSeqCds.txt.gz 2018-02-09 14:16 366K ncbiRefSeqOther.sql 2018-02-09 14:16 1.3K ncbiRefSeqOther.txt.gz 2018-02-09 14:16 75 extNcbiRefSeq.sql 2018-02-09 14:16 1.5K extNcbiRefSeq.txt.gz 2018-02-09 14:16 91 ncbiRefSeqPepTable.sql 2018-02-09 14:16 1.4K ncbiRefSeqPepTable.txt.gz 2018-02-09 14:16 10M seqNcbiRefSeq.sql 2018-02-09 14:16 1.6K seqNcbiRefSeq.txt.gz 2018-02-09 14:16 1.1M ucscToRefSeq.sql 2018-02-18 06:29 1.4K ucscToRefSeq.txt.gz 2018-02-18 06:29 1.6M ensGene.sql 2018-08-05 06:32 1.9K ensGene.txt.gz 2018-08-05 06:32 2.5M ensGtp.sql 2018-08-05 06:32 1.4K ensGtp.txt.gz 2018-08-05 06:32 360K ensPep.sql 2018-08-05 06:32 1.3K ensPep.txt.gz 2018-08-05 06:32 10M ensemblSource.sql 2018-08-05 06:33 1.4K ensemblSource.txt.gz 2018-08-05 06:33 104K ensemblToGeneName.sql 2018-08-05 06:33 1.4K ensemblToGeneName.txt.gz 2018-08-05 06:33 181K all_mrna.sql 2020-08-21 16:55 2.1K all_mrna.txt.gz 2020-08-21 16:55 219K xenoMrna.sql 2020-08-21 16:55 2.1K xenoMrna.txt.gz 2020-08-21 16:55 231M refGene.sql 2020-08-21 16:55 1.9K refGene.txt.gz 2020-08-21 16:55 37K refFlat.sql 2020-08-21 17:11 1.7K refFlat.txt.gz 2020-08-21 17:11 35K xenoRefGene.sql 2020-08-21 17:11 2.0K xenoRefGene.txt.gz 2020-08-21 17:11 27M xenoRefFlat.sql 2020-08-21 17:11 1.7K xenoRefFlat.txt.gz 2020-08-21 17:11 25M mrnaOrientInfo.sql 2020-08-21 17:11 1.8K mrnaOrientInfo.txt.gz 2020-08-21 17:11 51K refSeqAli.sql 2020-08-21 17:11 2.1K refSeqAli.txt.gz 2020-08-21 17:11 39K xenoRefSeqAli.sql 2020-08-21 17:11 2.1K xenoRefSeqAli.txt.gz 2020-08-21 17:11 27M gbLoaded.sql 2020-08-21 17:17 1.6K gbLoaded.txt.gz 2020-08-21 17:17 43K trackDb.sql 2023-12-05 13:50 2.1K trackDb.txt.gz 2023-12-05 13:50 32K hgFindSpec.sql 2023-12-05 13:50 1.8K hgFindSpec.txt.gz 2023-12-05 13:50 1.3K tableDescriptions.sql 2024-05-25 02:03 1.4K tableDescriptions.txt.gz 2024-05-25 02:03 6.4K tableList.sql 2024-05-26 03:38 1.6K tableList.txt.gz 2024-05-26 03:38 3.5K bigFiles.sql 2024-05-26 03:38 1.4K bigFiles.txt.gz 2024-05-26 03:38 95