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 - chainMelGal5Link.txt.gz 2019-01-20 15:08 4.8G chainCotJap2Link.txt.gz 2019-01-20 12:21 3.5G chainSerCan1Link.txt.gz 2019-01-20 18:00 2.8G chainCalAnn1Link.txt.gz 2019-01-20 10:19 2.8G chainAnaPla1Link.txt.gz 2019-01-20 08:54 2.8G chainGeoFor1Link.txt.gz 2019-01-20 14:16 2.7G chainCucCan1Link.txt.gz 2019-01-20 12:39 2.6G chainPseHum1Link.txt.gz 2019-01-20 17:24 2.6G chainCorBra1Link.txt.gz 2019-01-20 11:50 2.6G chainFalChe1Link.txt.gz 2019-01-20 13:15 2.6G chainFalPer1Link.txt.gz 2019-01-20 13:29 2.6G chainZonAlb1Link.txt.gz 2019-01-20 18:59 2.5G chainTytAlb1Link.txt.gz 2019-01-20 18:45 2.5G chainCorCor1Link.txt.gz 2019-01-20 12:05 2.5G chainMerNub1Link.txt.gz 2019-01-20 15:42 2.4G chainFicAlb2Link.txt.gz 2019-01-20 13:43 2.4G chainApaVit1Link.txt.gz 2019-01-20 09:12 2.3G chainColLiv1Link.txt.gz 2019-01-20 11:24 2.3G chainAcaChl1Link.txt.gz 2019-01-20 08:27 2.3G chainColStr1Link.txt.gz 2019-01-20 11:37 2.2G chainMesUni1Link.txt.gz 2019-01-20 15:55 2.1G chainBucRhi1Link.txt.gz 2019-01-20 10:07 2.1G chainPicPub1Link.txt.gz 2019-01-20 17:12 2.1G chainLepDis1Link.txt.gz 2019-01-20 14:50 2.1G chainCapCar1Link.txt.gz 2019-01-20 10:34 2.1G chainCarCri1Link.txt.gz 2019-01-20 10:45 2.0G chainMelUnd1Link.txt.gz 2019-01-20 15:30 2.0G chainChaVoc2Link.txt.gz 2019-01-20 10:56 2.0G chainPhaCar1Link.txt.gz 2019-01-20 16:41 2.0G chainOpiHoa1Link.txt.gz 2019-01-20 16:16 2.0G chainEurHel1Link.txt.gz 2019-01-20 13:03 2.0G chainChlUnd1Link.txt.gz 2019-01-20 11:10 2.0G chainAquChr2Link.txt.gz 2019-01-20 09:33 1.9G chainTauEry1Link.txt.gz 2019-01-20 18:26 1.9G chainHalLeu1Link.txt.gz 2019-01-20 14:39 1.9G chainPhaLep1Link.txt.gz 2019-01-20 16:53 1.9G chainEgrGar1Link.txt.gz 2019-01-20 12:52 1.9G chainHalAlb1Link.txt.gz 2019-01-20 14:29 1.9G chainAmaVit1Link.txt.gz 2019-01-20 08:42 1.8G chainBalPav1Link.txt.gz 2019-01-20 09:53 1.8G chainNipNip1Link.txt.gz 2019-01-20 16:06 1.8G chainPteGut1Link.txt.gz 2019-01-20 17:38 1.8G chainGavSte1Link.txt.gz 2019-01-20 14:05 1.8G chainPelCri1Link.txt.gz 2019-01-20 16:27 1.8G chainFulGla1Link.txt.gz 2019-01-20 13:55 1.7G chainAptFor1Link.txt.gz 2019-01-20 09:24 1.7G chainPygAde1Link.txt.gz 2019-01-20 17:47 1.7G chainAraMac1Link.txt.gz 2019-01-20 09:44 1.7G chainStrCam1Link.txt.gz 2019-01-20 18:13 1.6G chainPhoRub1Link.txt.gz 2019-01-20 17:03 1.6G chainTinGut2Link.txt.gz 2019-01-20 18:35 1.2G chainMelGal5.txt.gz 2019-01-20 14:59 971M multiz77way.txt.gz 2019-01-20 19:09 785M chainCotJap2.txt.gz 2019-01-20 12:14 702M chainChrPic2Link.txt.gz 2019-01-20 11:18 586M chainPelSin1Link.txt.gz 2019-01-20 16:34 556M chainCheMyd1Link.txt.gz 2019-01-20 11:04 555M chainAnaPla1.txt.gz 2019-01-20 08:49 538M chainCalAnn1.txt.gz 2019-01-20 10:14 515M chainSerCan1.txt.gz 2019-01-20 17:55 501M chainTytAlb1.txt.gz 2019-01-20 18:40 494M chainMerNub1.txt.gz 2019-01-20 15:37 490M chainTaeGut2Link.txt.gz 2019-01-20 18:20 486M chainCucCan1.txt.gz 2019-01-20 12:34 482M chainGeoFor1.txt.gz 2019-01-20 14:11 481M chainApaSpi1Link.txt.gz 2019-01-20 09:06 466M chainCorBra1.txt.gz 2019-01-20 11:45 465M chainApaVit1.txt.gz 2019-01-20 09:08 456M chainAcaChl1.txt.gz 2019-01-20 08:23 450M chainPseHum1.txt.gz 2019-01-20 17:20 442M chainFalChe1.txt.gz 2019-01-20 13:10 441M chainFalPer1.txt.gz 2019-01-20 13:24 441M chainZonAlb1.txt.gz 2019-01-20 18:54 437M chainAmaVit1.txt.gz 2019-01-20 08:38 436M chainCorCor1.txt.gz 2019-01-20 12:01 435M chainFicAlb2.txt.gz 2019-01-20 13:38 432M chainMesUni1.txt.gz 2019-01-20 15:50 429M chainColStr1.txt.gz 2019-01-20 11:33 426M chainCapCar1.txt.gz 2019-01-20 10:30 421M chainBucRhi1.txt.gz 2019-01-20 10:03 416M chainColLiv1.txt.gz 2019-01-20 11:20 412M chainCarCri1.txt.gz 2019-01-20 10:41 406M chainEurHel1.txt.gz 2019-01-20 12:59 400M chainPhaCar1.txt.gz 2019-01-20 16:37 399M chainLepDis1.txt.gz 2019-01-20 14:46 398M chainPicPub1.txt.gz 2019-01-20 17:08 394M chainChlUnd1.txt.gz 2019-01-20 11:06 392M chainAraMac1.txt.gz 2019-01-20 09:41 389M chainTauEry1.txt.gz 2019-01-20 18:22 383M chainOpiHoa1.txt.gz 2019-01-20 16:12 374M chainHalAlb1.txt.gz 2019-01-20 14:26 371M chainPteGut1.txt.gz 2019-01-20 17:34 371M chainMelUnd1.txt.gz 2019-01-20 15:26 370M chainPhaLep1.txt.gz 2019-01-20 16:49 367M chainChaVoc2.txt.gz 2019-01-20 10:52 366M chainBalPav1.txt.gz 2019-01-20 09:50 359M chainGavSte1.txt.gz 2019-01-20 14:01 358M chainFulGla1.txt.gz 2019-01-20 13:52 345M chainEgrGar1.txt.gz 2019-01-20 12:49 342M chainPelCri1.txt.gz 2019-01-20 16:24 341M chainNipNip1.txt.gz 2019-01-20 16:02 339M chainAquChr2.txt.gz 2019-01-20 09:30 339M chainHalLeu1.txt.gz 2019-01-20 14:36 336M chainAptFor1.txt.gz 2019-01-20 09:20 319M chainPhoRub1.txt.gz 2019-01-20 17:00 315M chainPygAde1.txt.gz 2019-01-20 17:44 310M chainAllMis1Link.txt.gz 2019-01-20 08:35 279M chainAllSin1Link.txt.gz 2019-01-20 08:37 278M chainStrCam1.txt.gz 2019-01-20 18:10 265M chainTinGut2.txt.gz 2019-01-20 18:33 217M chainPytBiv1Link.txt.gz 2019-01-20 17:54 206M chainHg38Link.txt.gz 2018-11-14 11:33 134M xenoMrna.txt.gz 2018-11-14 11:34 121M chainAnoCar2Link.txt.gz 2019-01-20 09:04 117M chainChrPic2.txt.gz 2019-01-20 11:17 105M chainPelSin1.txt.gz 2019-01-20 16:33 102M chainCheMyd1.txt.gz 2019-01-20 11:03 98M chainXenTro9Link.txt.gz 2019-01-20 18:54 98M chainApaSpi1.txt.gz 2019-01-20 09:05 92M chainDanRer11Link.txt.gz 2019-01-20 12:48 91M chainThaSir1Link.txt.gz 2019-01-20 18:33 86M chainNanPar1Link.txt.gz 2019-01-20 16:02 74M chainTaeGut2.txt.gz 2019-01-20 18:19 71M chainXenLae2Link.txt.gz 2019-01-20 18:53 64M chainMm10Link.txt.gz 2018-11-14 11:34 63M phastConsElements77way.txt.gz 2019-01-20 19:24 61M multiz77waySummary.txt.gz 2019-01-20 19:12 57M chainPetMar3Link.txt.gz 2019-01-20 16:36 54M windowmaskerSdust.txt.gz 2018-11-14 11:34 53M chainAngJap1Link.txt.gz 2019-01-20 09:04 49M chainOreNil3Link.txt.gz 2019-01-20 16:23 44M netPicPub1.txt.gz 2019-01-20 19:21 43M netAraMac1.txt.gz 2019-01-20 19:14 42M netSerCan1.txt.gz 2019-01-20 19:22 42M chainGasAcu1Link.txt.gz 2019-01-20 14:01 41M netFicAlb2.txt.gz 2019-01-20 19:18 41M netZonAlb1.txt.gz 2019-01-20 19:23 41M netGeoFor1.txt.gz 2019-01-20 19:18 41M netPseHum1.txt.gz 2019-01-20 19:21 40M netCalAnn1.txt.gz 2019-01-20 19:15 40M netColStr1.txt.gz 2019-01-20 19:16 40M netAcaChl1.txt.gz 2019-01-20 19:12 40M netAmaVit1.txt.gz 2019-01-20 19:13 39M netCorBra1.txt.gz 2019-01-20 19:16 39M netTinGut2.txt.gz 2019-01-20 19:23 39M netCorCor1.txt.gz 2019-01-20 19:16 38M chainLetCam1Link.txt.gz 2019-01-20 14:58 38M netApaVit1.txt.gz 2019-01-20 19:13 38M netBucRhi1.txt.gz 2019-01-20 19:14 37M netMelUnd1.txt.gz 2019-01-20 19:19 37M netMerNub1.txt.gz 2019-01-20 19:20 37M netMesUni1.txt.gz 2019-01-20 19:20 36M netTaeGut2.txt.gz 2019-01-20 19:23 36M netCucCan1.txt.gz 2019-01-20 19:17 36M chainOryLat2Link.txt.gz 2019-01-20 16:23 35M netColLiv1.txt.gz 2019-01-20 19:16 35M all_est.txt.gz 2018-11-14 11:32 35M netEurHel1.txt.gz 2019-01-20 19:17 35M chainPytBiv1.txt.gz 2019-01-20 17:53 35M chainTetNig2Link.txt.gz 2019-01-20 18:32 34M netCapCar1.txt.gz 2019-01-20 19:15 34M phyloP77way.txt.gz 2019-01-20 19:24 34M netPteGut1.txt.gz 2019-01-20 19:22 33M netChlUnd1.txt.gz 2019-01-20 19:15 33M netChrPic2.txt.gz 2019-01-20 19:16 33M chainMayZeb1Link.txt.gz 2019-01-20 14:58 32M netTauEry1.txt.gz 2019-01-20 19:23 32M netLepDis1.txt.gz 2019-01-20 19:19 32M netCheMyd1.txt.gz 2019-01-20 19:15 32M netAnaPla1.txt.gz 2019-01-20 19:14 32M netApaSpi1.txt.gz 2019-01-20 19:13 32M netPelSin1.txt.gz 2019-01-20 19:21 31M netTytAlb1.txt.gz 2019-01-20 19:23 31M netPhaCar1.txt.gz 2019-01-20 19:21 31M netPhaLep1.txt.gz 2019-01-20 19:21 31M netBalPav1.txt.gz 2019-01-20 19:14 31M netOpiHoa1.txt.gz 2019-01-20 19:20 31M netFalPer1.txt.gz 2019-01-20 19:18 31M chainFr3Link.txt.gz 2019-01-20 13:51 31M netFalChe1.txt.gz 2019-01-20 19:17 31M netEgrGar1.txt.gz 2019-01-20 19:17 30M netCarCri1.txt.gz 2019-01-20 19:15 30M netAllSin1.txt.gz 2019-01-20 19:13 30M netChaVoc2.txt.gz 2019-01-20 19:15 30M netGavSte1.txt.gz 2019-01-20 19:18 29M netFulGla1.txt.gz 2019-01-20 19:18 29M chainMm39Link.txt.gz 2020-11-25 01:25 29M netStrCam1.txt.gz 2019-01-20 19:22 29M netPelCri1.txt.gz 2019-01-20 19:20 29M netHalAlb1.txt.gz 2019-01-20 19:19 29M netAllMis1.txt.gz 2019-01-20 19:13 29M netPhoRub1.txt.gz 2019-01-20 19:21 29M netNipNip1.txt.gz 2019-01-20 19:20 28M netHalLeu1.txt.gz 2019-01-20 19:19 28M chainAllSin1.txt.gz 2019-01-20 08:36 27M netAquChr2.txt.gz 2019-01-20 19:14 27M phastCons77way.txt.gz 2019-01-20 19:24 27M netPygAde1.txt.gz 2019-01-20 19:22 27M netCotJap2.txt.gz 2019-01-20 19:17 27M netAptFor1.txt.gz 2019-01-20 19:13 27M chainDanRer11.txt.gz 2019-01-20 12:48 25M chainAllMis1.txt.gz 2019-01-20 08:35 25M chainXenTro9.txt.gz 2019-01-20 18:53 24M netMelGal5.txt.gz 2019-01-20 19:19 23M chainAnoCar2.txt.gz 2019-01-20 09:04 21M intronEst.txt.gz 2018-11-14 11:33 19M multiz77wayFrames.txt.gz 2019-01-20 19:12 19M chainHg38.txt.gz 2018-11-14 11:33 19M rmsk.txt.gz 2018-11-14 11:34 17M chainNanPar1.txt.gz 2019-01-20 16:02 17M chainThaSir1.txt.gz 2019-01-20 18:32 16M netPytBiv1.txt.gz 2019-01-20 19:22 16M netAnoCar2.txt.gz 2019-01-20 19:12 15M netThaSir1.txt.gz 2019-01-20 19:23 12M chainAngJap1.txt.gz 2019-01-20 09:04 12M chainXenLae2.txt.gz 2019-01-20 18:53 12M chainPetMar3.txt.gz 2019-01-20 16:36 11M ncbiRefSeqPepTable.txt.gz 2020-05-10 03:27 10M xenoRefSeqAli.txt.gz 2018-11-14 11:35 10M netHg38.txt.gz 2018-11-14 11:32 10M ensPep.txt.gz 2021-05-25 14:35 10M netXenLae2.txt.gz 2019-01-20 19:23 9.2M netXenTro9.txt.gz 2019-01-20 19:23 9.1M chainLetCam1.txt.gz 2019-01-20 14:58 8.7M netNanPar1.txt.gz 2019-01-20 19:20 8.3M netMm10.txt.gz 2018-11-14 11:33 8.1M simpleRepeat.txt.gz 2018-11-14 11:34 8.0M chainGasAcu1.txt.gz 2019-01-20 14:01 7.5M chainMm10.txt.gz 2018-11-14 11:33 7.5M netDanRer11.txt.gz 2019-01-20 19:17 7.5M chainOreNil3.txt.gz 2019-01-20 16:23 7.4M estOrientInfo.txt.gz 2018-11-14 11:34 7.1M chainOryLat2.txt.gz 2019-01-20 16:23 6.9M netAngJap1.txt.gz 2019-01-20 19:14 6.8M netMm39.txt.gz 2020-11-25 01:26 6.1M xenoRefGene.txt.gz 2018-11-14 11:35 5.9M netOreNil3.txt.gz 2019-01-20 19:20 5.8M netGasAcu1.txt.gz 2019-01-20 19:18 5.6M chainMayZeb1.txt.gz 2019-01-20 14:58 5.5M netOryLat2.txt.gz 2019-01-20 19:20 5.5M netMayZeb1.txt.gz 2019-01-20 19:19 5.4M xenoRefFlat.txt.gz 2018-11-14 11:35 5.3M chainFr3.txt.gz 2019-01-20 13:51 5.2M netTetNig2.txt.gz 2019-01-20 19:23 5.0M chainTetNig2.txt.gz 2019-01-20 18:32 4.8M netFr3.txt.gz 2019-01-20 19:18 4.8M ncbiRefSeqPsl.txt.gz 2020-05-10 03:27 4.6M netPetMar3.txt.gz 2019-01-20 19:21 4.6M netLetCam1.txt.gz 2019-01-20 19:19 4.3M chainMm39.txt.gz 2020-11-25 01:24 4.0M ncbiRefSeq.txt.gz 2020-05-10 03:27 3.2M ncbiRefSeqPredicted.txt.gz 2020-05-10 03:27 2.8M ensGene.txt.gz 2021-05-25 14:32 2.6M all_mrna.txt.gz 2018-11-14 11:32 1.9M ncbiRefSeqLink.txt.gz 2020-05-10 03:27 1.7M augustusGene.txt.gz 2018-11-14 11:32 1.6M genscan.txt.gz 2018-11-14 11:32 1.5M seqNcbiRefSeq.txt.gz 2020-05-10 03:27 952K nestedRepeats.txt.gz 2018-11-14 11:32 930K refSeqAli.txt.gz 2018-11-14 11:34 736K refGene.txt.gz 2018-11-14 11:34 687K ncbiRefSeqCurated.txt.gz 2020-05-10 03:27 683K refFlat.txt.gz 2018-11-14 11:34 631K mrnaOrientInfo.txt.gz 2018-11-14 11:34 563K cpgIslandExtUnmasked.txt.gz 2018-11-14 11:34 534K cpgIslandExt.txt.gz 2018-11-14 11:34 461K ensGtp.txt.gz 2021-05-25 14:32 416K ncbiRefSeqCds.txt.gz 2020-05-10 03:27 346K ensemblToGeneName.txt.gz 2021-05-25 14:32 168K crispr10KRanges.txt.gz 2018-11-14 11:34 126K ensemblSource.txt.gz 2021-05-25 14:35 125K trackDb.txt.gz 2024-08-29 15:19 99K gold.txt.gz 2018-11-14 11:33 43K microsat.txt.gz 2018-11-14 11:34 22K tableList.txt.gz 2024-11-24 03:05 15K tableDescriptions.txt.gz 2024-11-23 02:04 12K gap.txt.gz 2018-11-14 11:34 12K history.txt.gz 2018-11-14 11:33 7.1K extFile.txt.gz 2019-01-20 19:08 6.5K chromAlias.txt.gz 2019-02-10 03:41 5.4K ucscToINSDC.txt.gz 2018-11-14 11:34 4.3K ucscToRefSeq.txt.gz 2018-11-14 11:34 4.1K cytoBandIdeo.txt.gz 2018-11-14 11:34 3.3K chromInfo.txt.gz 2018-11-14 11:34 3.2K xenoRefSeqAli.sql 2018-11-14 11:35 2.1K ncbiRefSeqPsl.sql 2020-05-10 03:27 2.1K netMm39.sql 2020-11-25 01:26 2.1K refSeqAli.sql 2018-11-14 11:34 2.1K intronEst.sql 2018-11-14 11:33 2.1K xenoMrna.sql 2018-11-14 11:34 2.1K all_mrna.sql 2018-11-14 11:32 2.1K all_est.sql 2018-11-14 11:32 2.1K netDanRer11.sql 2019-01-20 19:17 2.1K netZonAlb1.sql 2019-01-20 19:23 2.1K netXenTro9.sql 2019-01-20 19:23 2.1K netXenLae2.sql 2019-01-20 19:23 2.1K netTytAlb1.sql 2019-01-20 19:23 2.1K netTinGut2.sql 2019-01-20 19:23 2.1K netThaSir1.sql 2019-01-20 19:23 2.1K netTetNig2.sql 2019-01-20 19:23 2.1K netTauEry1.sql 2019-01-20 19:23 2.1K netTaeGut2.sql 2019-01-20 19:22 2.1K netStrCam1.sql 2019-01-20 19:22 2.1K netSerCan1.sql 2019-01-20 19:22 2.1K netPytBiv1.sql 2019-01-20 19:22 2.1K netPygAde1.sql 2019-01-20 19:22 2.1K netPteGut1.sql 2019-01-20 19:22 2.1K netPseHum1.sql 2019-01-20 19:21 2.1K netPicPub1.sql 2019-01-20 19:21 2.1K netPhoRub1.sql 2019-01-20 19:21 2.1K netPhaLep1.sql 2019-01-20 19:21 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