This directory contains a dump of the UCSC genome annotation database for the
    Mar. 2018 (GRCg6a/galGal6) assembly of the chicken genome
    (galGal6, Genome Reference Consortium) 
from the Chicken Genome Sequencing Consortium.

The annotations were generated by UCSC and collaborators worldwide.

For more information about this assembly, please note the NCBI resources:
    https://www.ncbi.nlm.nih.gov/genome/111
    https://www.ncbi.nlm.nih.gov/genome/assembly/1668981
    https://www.ncbi.nlm.nih.gov/bioproject/13342

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=galGal6
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.soe.ucsc.edu, then go to
the directory goldenPath/galGal6/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.soe.ucsc.edu/goldenPath/galGal6/database/ .
For a single file, e.g. gc5Base.txt.gz
    rsync -avzP 
        rsync://hgdownload.soe.ucsc.edu/goldenPath/galGal6/database/gc5Base.txt.gz .

Or with wget, all files:
    wget --timestamping 
        'ftp://hgdownload.soe.ucsc.edu/goldenPath/galGal6/database/*'
With wget, a single file:
    wget --timestamping 
        'ftp://hgdownload.soe.ucsc.edu/goldenPath/galGal6/database/gc5Base.txt.gz' 
        -O gc5Base.txt.gz

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 galGal6 < chromInfo.sql
## load data from the txt.gz file
$ zcat chromInfo.txt.gz | hgsql galGal6 --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 - xenoRefSeqAli.txt.gz 2018-11-14 11:35 10M xenoRefSeqAli.sql 2018-11-14 11:35 2.1K xenoRefGene.txt.gz 2018-11-14 11:35 5.9M xenoRefGene.sql 2018-11-14 11:35 1.9K xenoRefFlat.txt.gz 2018-11-14 11:35 5.3M xenoRefFlat.sql 2018-11-14 11:35 1.7K xenoMrna.txt.gz 2018-11-14 11:34 121M xenoMrna.sql 2018-11-14 11:34 2.1K windowmaskerSdust.txt.gz 2018-11-14 11:34 53M windowmaskerSdust.sql 2018-11-14 11:34 1.5K ucscToRefSeq.txt.gz 2018-11-14 11:34 4.1K ucscToRefSeq.sql 2018-11-14 11:34 1.4K ucscToINSDC.txt.gz 2018-11-14 11:34 4.3K ucscToINSDC.sql 2018-11-14 11:34 1.4K trackDb.txt.gz 2024-08-29 15:19 99K trackDb.sql 2024-08-29 15:19 2.1K tableList.txt.gz 2024-12-29 03:04 15K tableList.sql 2024-12-29 03:04 1.6K tableDescriptions.txt.gz 2024-12-28 02:12 12K tableDescriptions.sql 2024-12-28 02:12 1.5K simpleRepeat.txt.gz 2018-11-14 11:34 8.0M simpleRepeat.sql 2018-11-14 11:34 1.9K seqNcbiRefSeq.txt.gz 2020-05-10 03:27 952K seqNcbiRefSeq.sql 2020-05-10 03:27 1.5K rmsk.txt.gz 2018-11-14 11:34 17M rmsk.sql 2018-11-14 11:34 1.9K refSeqAli.txt.gz 2018-11-14 11:34 736K refSeqAli.sql 2018-11-14 11:34 2.1K refGene.txt.gz 2018-11-14 11:34 687K refGene.sql 2018-11-14 11:34 1.9K refFlat.txt.gz 2018-11-14 11:34 631K refFlat.sql 2018-11-14 11:34 1.7K phyloP77way.txt.gz 2019-01-20 19:24 34M phyloP77way.sql 2019-01-20 19:24 1.8K phastConsElements77way.txt.gz 2019-01-20 19:24 61M phastConsElements77way.sql 2019-01-20 19:24 1.6K phastCons77way.txt.gz 2019-01-20 19:24 27M phastCons77way.sql 2019-01-20 19:24 1.8K netZonAlb1.txt.gz 2019-01-20 19:23 41M netZonAlb1.sql 2019-01-20 19:23 2.1K netXenTro9.txt.gz 2019-01-20 19:23 9.1M netXenTro9.sql 2019-01-20 19:23 2.1K netXenLae2.txt.gz 2019-01-20 19:23 9.2M netXenLae2.sql 2019-01-20 19:23 2.1K netTytAlb1.txt.gz 2019-01-20 19:23 31M netTytAlb1.sql 2019-01-20 19:23 2.1K netTinGut2.txt.gz 2019-01-20 19:23 39M netTinGut2.sql 2019-01-20 19:23 2.1K netThaSir1.txt.gz 2019-01-20 19:23 12M netThaSir1.sql 2019-01-20 19:23 2.1K netTetNig2.txt.gz 2019-01-20 19:23 5.0M netTetNig2.sql 2019-01-20 19:23 2.1K netTauEry1.txt.gz 2019-01-20 19:23 32M netTauEry1.sql 2019-01-20 19:23 2.1K netTaeGut2.txt.gz 2019-01-20 19:23 36M netTaeGut2.sql 2019-01-20 19:22 2.1K netStrCam1.txt.gz 2019-01-20 19:22 29M netStrCam1.sql 2019-01-20 19:22 2.1K netSerCan1.txt.gz 2019-01-20 19:22 42M netSerCan1.sql 2019-01-20 19:22 2.1K netPytBiv1.txt.gz 2019-01-20 19:22 16M netPytBiv1.sql 2019-01-20 19:22 2.1K netPygAde1.txt.gz 2019-01-20 19:22 27M netPygAde1.sql 2019-01-20 19:22 2.1K netPteGut1.txt.gz 2019-01-20 19:22 33M netPteGut1.sql 2019-01-20 19:22 2.1K netPseHum1.txt.gz 2019-01-20 19:21 40M netPseHum1.sql 2019-01-20 19:21 2.1K netPicPub1.txt.gz 2019-01-20 19:21 43M netPicPub1.sql 2019-01-20 19:21 2.1K netPhoRub1.txt.gz 2019-01-20 19:21 29M netPhoRub1.sql 2019-01-20 19:21 2.1K netPhaLep1.txt.gz 2019-01-20 19:21 31M netPhaLep1.sql 2019-01-20 19:21 2.1K netPhaCar1.txt.gz 2019-01-20 19:21 31M netPhaCar1.sql 2019-01-20 19:21 2.1K netPetMar3.txt.gz 2019-01-20 19:21 4.6M netPetMar3.sql 2019-01-20 19:21 2.1K netPelSin1.txt.gz 2019-01-20 19:21 31M netPelSin1.sql 2019-01-20 19:20 2.1K netPelCri1.txt.gz 2019-01-20 19:20 29M netPelCri1.sql 2019-01-20 19:20 2.1K netOryLat2.txt.gz 2019-01-20 19:20 5.5M netOryLat2.sql 2019-01-20 19:20 2.1K netOreNil3.txt.gz 2019-01-20 19:20 5.8M netOreNil3.sql 2019-01-20 19:20 2.1K netOpiHoa1.txt.gz 2019-01-20 19:20 31M netOpiHoa1.sql 2019-01-20 19:20 2.1K netNipNip1.txt.gz 2019-01-20 19:20 28M netNipNip1.sql 2019-01-20 19:20 2.1K netNanPar1.txt.gz 2019-01-20 19:20 8.3M netNanPar1.sql 2019-01-20 19:20 2.1K netMm39.txt.gz 2020-11-25 01:26 6.1M netMm39.sql 2020-11-25 01:26 2.1K netMm10.txt.gz 2018-11-14 11:33 8.1M netMm10.sql 2018-11-14 11:33 2.1K netMesUni1.txt.gz 2019-01-20 19:20 36M netMesUni1.sql 2019-01-20 19:20 2.1K netMerNub1.txt.gz 2019-01-20 19:20 37M netMerNub1.sql 2019-01-20 19:19 2.1K netMelUnd1.txt.gz 2019-01-20 19:19 37M netMelUnd1.sql 2019-01-20 19:19 2.1K netMelGal5.txt.gz 2019-01-20 19:19 23M netMelGal5.sql 2019-01-20 19:19 2.1K netMayZeb1.txt.gz 2019-01-20 19:19 5.4M netMayZeb1.sql 2019-01-20 19:19 2.1K netLetCam1.txt.gz 2019-01-20 19:19 4.3M netLetCam1.sql 2019-01-20 19:19 2.1K netLepDis1.txt.gz 2019-01-20 19:19 32M netLepDis1.sql 2019-01-20 19:19 2.1K netHg38.txt.gz 2018-11-14 11:32 10M netHg38.sql 2018-11-14 11:32 2.1K netHalLeu1.txt.gz 2019-01-20 19:19 28M netHalLeu1.sql 2019-01-20 19:19 2.1K netHalAlb1.txt.gz 2019-01-20 19:19 29M netHalAlb1.sql 2019-01-20 19:19 2.1K netGeoFor1.txt.gz 2019-01-20 19:18 41M netGeoFor1.sql 2019-01-20 19:18 2.1K netGavSte1.txt.gz 2019-01-20 19:18 29M netGavSte1.sql 2019-01-20 19:18 2.1K netGasAcu1.txt.gz 2019-01-20 19:18 5.6M netGasAcu1.sql 2019-01-20 19:18 2.1K netFulGla1.txt.gz 2019-01-20 19:18 29M netFulGla1.sql 2019-01-20 19:18 2.1K netFr3.txt.gz 2019-01-20 19:18 4.8M netFr3.sql 2019-01-20 19:18 2.1K netFicAlb2.txt.gz 2019-01-20 19:18 41M netFicAlb2.sql 2019-01-20 19:18 2.1K netFalPer1.txt.gz 2019-01-20 19:18 31M netFalPer1.sql 2019-01-20 19:18 2.1K netFalChe1.txt.gz 2019-01-20 19:17 31M netFalChe1.sql 2019-01-20 19:17 2.1K netEurHel1.txt.gz 2019-01-20 19:17 35M netEurHel1.sql 2019-01-20 19:17 2.1K netEgrGar1.txt.gz 2019-01-20 19:17 30M netEgrGar1.sql 2019-01-20 19:17 2.1K netDanRer11.txt.gz 2019-01-20 19:17 7.5M netDanRer11.sql 2019-01-20 19:17 2.1K netCucCan1.txt.gz 2019-01-20 19:17 36M netCucCan1.sql 2019-01-20 19:17 2.1K netCotJap2.txt.gz 2019-01-20 19:17 27M netCotJap2.sql 2019-01-20 19:17 2.1K netCorCor1.txt.gz 2019-01-20 19:16 38M netCorCor1.sql 2019-01-20 19:16 2.1K netCorBra1.txt.gz 2019-01-20 19:16 39M netCorBra1.sql 2019-01-20 19:16 2.1K netColStr1.txt.gz 2019-01-20 19:16 40M netColStr1.sql 2019-01-20 19:16 2.1K netColLiv1.txt.gz 2019-01-20 19:16 35M netColLiv1.sql 2019-01-20 19:16 2.1K netChrPic2.txt.gz 2019-01-20 19:16 33M netChrPic2.sql 2019-01-20 19:16 2.1K netChlUnd1.txt.gz 2019-01-20 19:15 33M netChlUnd1.sql 2019-01-20 19:15 2.1K netCheMyd1.txt.gz 2019-01-20 19:15 32M netCheMyd1.sql 2019-01-20 19:15 2.1K netChaVoc2.txt.gz 2019-01-20 19:15 30M netChaVoc2.sql 2019-01-20 19:15 2.1K netCarCri1.txt.gz 2019-01-20 19:15 30M netCarCri1.sql 2019-01-20 19:15 2.1K netCapCar1.txt.gz 2019-01-20 19:15 34M netCapCar1.sql 2019-01-20 19:15 2.1K netCalAnn1.txt.gz 2019-01-20 19:15 40M netCalAnn1.sql 2019-01-20 19:15 2.1K netBucRhi1.txt.gz 2019-01-20 19:14 37M netBucRhi1.sql 2019-01-20 19:14 2.1K netBalPav1.txt.gz 2019-01-20 19:14 31M netBalPav1.sql 2019-01-20 19:14 2.1K netAraMac1.txt.gz 2019-01-20 19:14 42M netAraMac1.sql 2019-01-20 19:14 2.1K netAquChr2.txt.gz 2019-01-20 19:14 27M netAquChr2.sql 2019-01-20 19:14 2.1K netAptFor1.txt.gz 2019-01-20 19:13 27M netAptFor1.sql 2019-01-20 19:13 2.1K netApaVit1.txt.gz 2019-01-20 19:13 38M netApaVit1.sql 2019-01-20 19:13 2.1K netApaSpi1.txt.gz 2019-01-20 19:13 32M netApaSpi1.sql 2019-01-20 19:12 2.1K netAnoCar2.txt.gz 2019-01-20 19:12 15M netAnoCar2.sql 2019-01-20 19:12 2.1K netAngJap1.txt.gz 2019-01-20 19:14 6.8M netAngJap1.sql 2019-01-20 19:14 2.1K netAnaPla1.txt.gz 2019-01-20 19:14 32M netAnaPla1.sql 2019-01-20 19:14 2.1K netAmaVit1.txt.gz 2019-01-20 19:13 39M netAmaVit1.sql 2019-01-20 19:13 2.1K netAllSin1.txt.gz 2019-01-20 19:13 30M netAllSin1.sql 2019-01-20 19:13 2.1K netAllMis1.txt.gz 2019-01-20 19:13 29M netAllMis1.sql 2019-01-20 19:13 2.1K netAcaChl1.txt.gz 2019-01-20 19:12 40M netAcaChl1.sql 2019-01-20 19:12 2.1K nestedRepeats.txt.gz 2018-11-14 11:32 930K nestedRepeats.sql 2018-11-14 11:32 1.9K ncbiRefSeqPsl.txt.gz 2020-05-10 03:27 4.6M ncbiRefSeqPsl.sql 2020-05-10 03:27 2.1K ncbiRefSeqPredicted.txt.gz 2020-05-10 03:27 2.8M ncbiRefSeqPredicted.sql 2020-05-10 03:27 2.0K ncbiRefSeqPepTable.txt.gz 2020-05-10 03:27 10M ncbiRefSeqPepTable.sql 2020-05-10 03:27 1.4K ncbiRefSeqOther.txt.gz 2020-05-10 03:27 75 ncbiRefSeqOther.sql 2020-05-10 03:27 1.3K ncbiRefSeqLink.txt.gz 2020-05-10 03:27 1.7M ncbiRefSeqLink.sql 2020-05-10 03:27 2.0K ncbiRefSeqCurated.txt.gz 2020-05-10 03:27 683K ncbiRefSeqCurated.sql 2020-05-10 03:27 2.0K ncbiRefSeqCds.txt.gz 2020-05-10 03:27 346K ncbiRefSeqCds.sql 2020-05-10 03:27 1.3K ncbiRefSeq.txt.gz 2020-05-10 03:27 3.2M ncbiRefSeq.sql 2020-05-10 03:27 1.9K multiz77waySummary.txt.gz 2019-01-20 19:12 57M multiz77waySummary.sql 2019-01-20 19:12 1.6K multiz77wayFrames.txt.gz 2019-01-20 19:12 19M multiz77wayFrames.sql 2019-01-20 19:12 1.7K multiz77way.txt.gz 2019-01-20 19:09 785M multiz77way.sql 2019-01-20 19:08 1.5K mrnaOrientInfo.txt.gz 2018-11-14 11:34 563K mrnaOrientInfo.sql 2018-11-14 11:34 1.8K microsat.txt.gz 2018-11-14 11:34 22K microsat.sql 2018-11-14 11:34 1.5K intronEst.txt.gz 2018-11-14 11:33 19M intronEst.sql 2018-11-14 11:33 2.1K history.txt.gz 2018-11-14 11:33 7.1K history.sql 2018-11-14 11:33 1.6K hgFindSpec.txt.gz 2024-08-29 15:19 1.3K hgFindSpec.sql 2024-08-29 15:19 1.8K grp.txt.gz 2018-11-14 11:34 213 grp.sql 2018-11-14 11:34 1.3K grcIncidentDb.txt.gz 2019-09-22 03:19 77 grcIncidentDb.sql 2019-09-22 03:19 1.3K gold.txt.gz 2018-11-14 11:33 43K gold.sql 2018-11-14 11:33 1.7K genscan.txt.gz 2018-11-14 11:32 1.5M genscan.sql 2018-11-14 11:32 1.7K gc5BaseBw.txt.gz 2018-11-14 11:34 66 gc5BaseBw.sql 2018-11-14 11:34 1.3K gap.txt.gz 2018-11-14 11:34 12K gap.sql 2018-11-14 11:34 1.6K extNcbiRefSeq.txt.gz 2020-05-10 03:27 91 extNcbiRefSeq.sql 2020-05-10 03:27 1.4K extFile.txt.gz 2019-01-20 19:08 6.5K extFile.sql 2019-01-20 19:08 1.4K estOrientInfo.txt.gz 2018-11-14 11:34 7.1M estOrientInfo.sql 2018-11-14 11:34 1.8K ensemblToGeneName.txt.gz 2021-05-25 14:32 168K ensemblToGeneName.sql 2021-05-25 14:32 1.4K ensemblSource.txt.gz 2021-05-25 14:35 125K ensemblSource.sql 2021-05-25 14:35 1.4K ensPep.txt.gz 2021-05-25 14:35 10M ensPep.sql 2021-05-25 14:35 1.3K ensGtp.txt.gz 2021-05-25 14:32 416K ensGtp.sql 2021-05-25 14:32 1.4K ensGene.txt.gz 2021-05-25 14:32 2.6M ensGene.sql 2021-05-25 14:32 1.9K cytoBandIdeo.txt.gz 2018-11-14 11:34 3.3K cytoBandIdeo.sql 2018-11-14 11:34 1.5K crispr10KTargets.txt.gz 2018-11-14 11:34 69 crispr10KTargets.sql 2018-11-14 11:34 1.3K crispr10KRanges.txt.gz 2018-11-14 11:34 126K crispr10KRanges.sql 2018-11-14 11:34 1.5K cpgIslandExtUnmasked.txt.gz 2018-11-14 11:34 534K cpgIslandExtUnmasked.sql 2018-11-14 11:34 1.7K cpgIslandExt.txt.gz 2018-11-14 11:34 461K cpgIslandExt.sql 2018-11-14 11:34 1.7K chromInfo.txt.gz 2018-11-14 11:34 3.2K chromInfo.sql 2018-11-14 11:34 1.4K chromAlias.txt.gz 2019-02-10 03:41 5.4K chromAlias.sql 2019-02-10 03:41 1.4K chainZonAlb1Link.txt.gz 2019-01-20 18:59 2.5G chainZonAlb1Link.sql 2019-01-20 18:56 1.5K chainZonAlb1.txt.gz 2019-01-20 18:54 437M chainZonAlb1.sql 2019-01-20 18:54 1.7K chainXenTro9Link.txt.gz 2019-01-20 18:54 98M chainXenTro9Link.sql 2019-01-20 18:54 1.5K chainXenTro9.txt.gz 2019-01-20 18:53 24M chainXenTro9.sql 2019-01-20 18:53 1.7K chainXenLae2Link.txt.gz 2019-01-20 18:53 64M chainXenLae2Link.sql 2019-01-20 18:53 1.5K chainXenLae2.txt.gz 2019-01-20 18:53 12M chainXenLae2.sql 2019-01-20 18:53 1.7K chainTytAlb1Link.txt.gz 2019-01-20 18:45 2.5G chainTytAlb1Link.sql 2019-01-20 18:41 1.5K chainTytAlb1.txt.gz 2019-01-20 18:40 494M chainTytAlb1.sql 2019-01-20 18:39 1.7K chainTinGut2Link.txt.gz 2019-01-20 18:35 1.2G chainTinGut2Link.sql 2019-01-20 18:34 1.5K chainTinGut2.txt.gz 2019-01-20 18:33 217M chainTinGut2.sql 2019-01-20 18:33 1.7K chainThaSir1Link.txt.gz 2019-01-20 18:33 86M chainThaSir1Link.sql 2019-01-20 18:32 1.5K chainThaSir1.txt.gz 2019-01-20 18:32 16M chainThaSir1.sql 2019-01-20 18:32 1.7K chainTetNig2Link.txt.gz 2019-01-20 18:32 34M chainTetNig2Link.sql 2019-01-20 18:32 1.5K chainTetNig2.txt.gz 2019-01-20 18:32 4.8M chainTetNig2.sql 2019-01-20 18:32 1.7K chainTauEry1Link.txt.gz 2019-01-20 18:26 1.9G chainTauEry1Link.sql 2019-01-20 18:23 1.5K chainTauEry1.txt.gz 2019-01-20 18:22 383M chainTauEry1.sql 2019-01-20 18:21 1.7K chainTaeGut2Link.txt.gz 2019-01-20 18:20 486M chainTaeGut2Link.sql 2019-01-20 18:19 1.5K chainTaeGut2.txt.gz 2019-01-20 18:19 71M chainTaeGut2.sql 2019-01-20 18:19 1.7K 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