This directory contains a dump of the UCSC genome annotation database for the Nov. 2014 (Turkey_5.0/melGal5) assembly of the turkey genome (melGal5, Turkey Genome 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/112 http://www.ncbi.nlm.nih.gov/genome/assembly/226861 http://www.ncbi.nlm.nih.gov/bioproject/62397 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=melGal5 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/melGal5/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/melGal5/database/ . For a single file, e.g. gc5BaseBw.txt.gz rsync -avzP rsync://hgdownload.cse.ucsc.edu/goldenPath/melGal5/database/gc5BaseBw.txt.gz . Or with wget, all files: wget --timestamping 'ftp://hgdownload.cse.ucsc.edu/goldenPath/melGal5/database/*' With wget, a single file: wget --timestamping 'ftp://hgdownload.cse.ucsc.edu/goldenPath/melGal5/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 melGal5 < chromInfo.sql ## load data from the txt.gz file $ zcat chromInfo.txt.gz | hgsql melGal5 --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 2017-03-06 16:49 14M xenoRefSeqAli.sql 2017-03-06 16:49 2.1K xenoRefGene.txt.gz 2017-03-06 16:49 7.8M xenoRefGene.sql 2017-03-06 16:49 1.9K xenoRefFlat.txt.gz 2017-03-06 16:49 7.0M xenoRefFlat.sql 2017-03-06 16:49 1.7K windowmaskerSdust.txt.gz 2017-03-06 16:47 54M windowmaskerSdust.sql 2017-03-06 16:46 1.5K ucscToRefSeq.txt.gz 2017-03-06 16:46 2.1M ucscToRefSeq.sql 2017-03-06 16:46 1.4K ucscToINSDC.txt.gz 2017-03-06 16:46 2.0M ucscToINSDC.sql 2017-03-06 16:46 1.4K trackDb.txt.gz 2024-07-25 09:34 73K trackDb.sql 2024-07-25 09:34 2.1K tableList.txt.gz 2024-12-01 03:06 4.7K tableList.sql 2024-12-01 03:06 1.6K tableDescriptions.txt.gz 2024-11-30 02:03 7.3K tableDescriptions.sql 2024-11-30 02:03 1.5K simpleRepeat.txt.gz 2017-03-06 16:45 7.1M simpleRepeat.sql 2017-03-06 16:45 1.9K seqNcbiRefSeq.txt.gz 2021-02-10 16:00 590K seqNcbiRefSeq.sql 2021-02-10 16:00 1.6K rmsk.txt.gz 2017-03-06 16:45 14M rmsk.sql 2017-03-06 16:45 1.9K refSeqAli.txt.gz 2017-03-06 16:45 9.8K refSeqAli.sql 2017-03-06 16:45 2.1K refLink.txt.gz 2017-03-06 16:44 11M refLink.sql 2017-03-06 16:44 1.7K refGene.txt.gz 2017-03-06 16:44 9.0K refGene.sql 2017-03-06 16:44 1.9K refFlat.txt.gz 2017-03-06 16:44 8.1K refFlat.sql 2017-03-06 16:44 1.7K netXenTro7.txt.gz 2017-03-06 16:44 4.9M netXenTro7.sql 2017-03-06 16:44 2.1K netTaeGut2.txt.gz 2017-03-06 16:43 33M netTaeGut2.sql 2017-03-06 16:42 2.1K netRn6.txt.gz 2017-03-06 16:42 6.1M netRn6.sql 2017-03-06 16:42 2.1K netMonDom5.txt.gz 2017-03-06 16:42 7.2M netMonDom5.sql 2017-03-06 16:42 2.1K netMm10.txt.gz 2017-03-06 16:42 7.8M netMm10.sql 2017-03-06 16:41 2.1K netHg38.txt.gz 2017-03-06 16:41 9.5M netHg38.sql 2017-03-06 16:41 2.1K netGeoFor1.txt.gz 2017-03-06 16:40 36M netGeoFor1.sql 2017-03-06 16:39 2.1K netGalGal6.txt.gz 2019-01-20 20:08 20M netGalGal6.sql 2019-01-20 20:08 2.1K netGalGal5.txt.gz 2017-03-06 16:39 17M netGalGal5.sql 2017-03-06 16:38 2.1K netFalPer1.txt.gz 2017-03-06 16:37 30M netFalPer1.sql 2017-03-06 16:37 2.1K netDanRer10.txt.gz 2017-03-06 16:37 3.8M netDanRer10.sql 2017-03-06 16:37 2.1K nestedRepeats.txt.gz 2017-03-06 16:37 460K nestedRepeats.sql 2017-03-06 16:37 1.9K ncbiRefSeqPsl.txt.gz 2021-02-10 15:35 2.9M ncbiRefSeqPsl.sql 2021-02-10 15:35 2.1K ncbiRefSeqPredicted.txt.gz 2021-02-10 15:35 2.3M ncbiRefSeqPredicted.sql 2021-02-10 15:35 2.0K ncbiRefSeqPepTable.txt.gz 2021-02-10 16:00 6.6M ncbiRefSeqPepTable.sql 2021-02-10 16:00 1.4K ncbiRefSeqOther.txt.gz 2021-02-10 16:00 75 ncbiRefSeqOther.sql 2021-02-10 16:00 1.3K ncbiRefSeqLink.txt.gz 2021-02-10 15:35 1.1M ncbiRefSeqLink.sql 2021-02-10 15:35 2.0K ncbiRefSeqCurated.txt.gz 2021-02-10 15:35 8.5K ncbiRefSeqCurated.sql 2021-02-10 15:35 2.0K ncbiRefSeqCds.txt.gz 2021-02-10 16:00 203K ncbiRefSeqCds.sql 2021-02-10 16:00 1.4K ncbiRefSeq.txt.gz 2021-02-10 15:35 2.3M ncbiRefSeq.sql 2021-02-10 15:35 2.0K mrnaOrientInfo.txt.gz 2017-03-06 16:37 7.7K mrnaOrientInfo.sql 2017-03-06 16:37 1.8K microsat.txt.gz 2017-03-06 16:20 26K microsat.sql 2017-03-06 16:20 1.5K intronEst.txt.gz 2017-03-06 16:16 554K intronEst.sql 2017-03-06 16:16 2.1K history.txt.gz 2017-03-06 13:48 793 history.sql 2017-03-06 13:48 1.6K hgFindSpec.txt.gz 2024-07-25 09:34 1.3K hgFindSpec.sql 2024-07-25 09:34 1.8K grp.txt.gz 2017-03-06 16:37 213 grp.sql 2017-03-06 16:37 1.3K gold.txt.gz 2017-03-06 16:36 3.7M gold.sql 2017-03-06 16:36 1.7K genscan.txt.gz 2017-03-06 16:25 1.7M genscan.sql 2017-03-06 16:25 1.7K gc5BaseBw.txt.gz 2017-03-06 16:23 66 gc5BaseBw.sql 2017-03-06 16:23 1.3K gbStatus.txt.gz 2017-03-06 16:23 3.4M gbStatus.sql 2017-03-06 16:22 1.9K gbExtFile.txt.gz 2017-03-06 16:20 768 gbExtFile.sql 2017-03-06 16:20 1.4K gap.txt.gz 2017-03-06 16:15 774K gap.sql 2017-03-06 16:15 1.6K extNcbiRefSeq.txt.gz 2021-02-10 16:00 91 extNcbiRefSeq.sql 2021-02-10 16:00 1.5K estOrientInfo.txt.gz 2017-03-06 15:45 224K estOrientInfo.sql 2017-03-06 15:45 1.8K ensemblToGeneName.txt.gz 2021-06-01 15:42 82K ensemblToGeneName.sql 2021-06-01 15:42 1.4K ensemblSource.txt.gz 2021-06-01 15:46 87K ensemblSource.sql 2021-06-01 15:46 1.4K ensPep.txt.gz 2021-06-01 15:46 9.8M ensPep.sql 2021-06-01 15:46 1.3K ensGtp.txt.gz 2021-06-01 15:42 303K ensGtp.sql 2021-06-01 15:42 1.4K ensGene.txt.gz 2021-06-01 15:42 2.0M ensGene.sql 2021-06-01 15:42 1.9K cytoBandIdeo.txt.gz 2017-03-06 15:42 1.0M cytoBandIdeo.sql 2017-03-06 15:42 1.5K cpgIslandExtUnmasked.txt.gz 2017-03-06 14:35 760K cpgIslandExtUnmasked.sql 2017-03-06 14:35 1.7K cpgIslandExt.txt.gz 2017-03-06 14:22 566K cpgIslandExt.sql 2017-03-06 14:22 1.7K chromInfo.txt.gz 2017-03-06 13:55 958K chromInfo.sql 2017-03-06 13:55 1.4K chromAlias.txt.gz 2018-02-18 07:21 2.7M chromAlias.sql 2018-02-18 07:21 1.4K chainXenTro7Link.txt.gz 2017-03-06 13:52 22M chainXenTro7Link.sql 2017-03-06 13:51 1.5K chainXenTro7.txt.gz 2017-03-06 16:36 6.5M chainXenTro7.sql 2017-03-06 16:36 1.7K chainTaeGut2Link.txt.gz 2017-03-06 16:28 230M chainTaeGut2Link.sql 2017-03-06 16:25 1.5K chainTaeGut2.txt.gz 2017-03-06 13:50 21M chainTaeGut2.sql 2017-03-06 13:50 1.7K chainRn6Link.txt.gz 2017-03-06 13:49 25M chainRn6Link.sql 2017-03-06 13:48 1.5K chainRn6.txt.gz 2017-03-06 13:48 5.4M chainRn6.sql 2017-03-06 13:48 1.7K chainMonDom5Link.txt.gz 2017-03-06 16:24 42M chainMonDom5Link.sql 2017-03-06 16:23 1.5K chainMonDom5.txt.gz 2017-03-06 16:23 12M chainMonDom5.sql 2017-03-06 16:23 1.7K chainMm10Link.txt.gz 2017-03-06 16:21 47M chainMm10Link.sql 2017-03-06 16:20 1.5K chainMm10.txt.gz 2017-03-06 16:20 7.4M chainMm10.sql 2017-03-06 16:20 1.7K chainHg38Link.txt.gz 2017-03-06 16:17 97M chainHg38Link.sql 2017-03-06 16:16 1.5K chainHg38.txt.gz 2017-03-06 16:15 19M chainHg38.sql 2017-03-06 16:15 1.7K chainGeoFor1Link.txt.gz 2017-03-06 15:53 643M chainGeoFor1Link.sql 2017-03-06 15:45 1.5K chainGeoFor1.txt.gz 2017-03-06 15:43 99M chainGeoFor1.sql 2017-03-06 15:42 1.7K chainGalGal6Link.txt.gz 2019-01-20 19:50 4.8G chainGalGal6Link.sql 2019-01-20 19:44 1.5K chainGalGal6.txt.gz 2019-01-20 19:41 948M chainGalGal6.sql 2019-01-20 19:40 1.7K chainGalGal5Link.txt.gz 2017-03-06 14:54 1.4G chainGalGal5Link.sql 2017-03-06 14:35 1.5K chainGalGal5.txt.gz 2017-03-06 14:25 301M chainGalGal5.sql 2017-03-06 14:22 1.7K chainFalPer1Link.txt.gz 2017-03-06 14:01 600M chainFalPer1Link.sql 2017-03-06 13:55 1.5K chainFalPer1.txt.gz 2017-03-06 13:53 84M chainFalPer1.sql 2017-03-06 13:52 1.7K chainDanRer10Link.txt.gz 2017-03-06 13:51 20M chainDanRer10Link.sql 2017-03-06 13:50 1.6K chainDanRer10.txt.gz 2017-03-06 13:50 5.8M chainDanRer10.sql 2017-03-06 13:49 1.7K bigFiles.txt.gz 2024-12-01 03:06 95 bigFiles.sql 2024-12-01 03:06 1.4K augustusGene.txt.gz 2017-03-06 13:48 1.6M augustusGene.sql 2017-03-06 13:48 1.9K all_mrna.txt.gz 2017-03-06 13:48 25K all_mrna.sql 2017-03-06 13:48 2.1K all_est.txt.gz 2017-03-06 13:48 779K all_est.sql 2017-03-06 13:48 2.1K