Schema for xenoRefFlat
  Database: priPac1    Primary Table: xenoRefFlat    Row Count: 238,292   Data last updated: 2020-08-22
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
geneName RPL32varchar(255) values Name of gene as it appears in genome browser.
name NM_001001636varchar(255) values Name of gene
chrom chrUnvarchar(255) values Reference sequence chromosome or scaffold
strand +char(1) values + or - for strand
txStart 51782802int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 51783303int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 51782802int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 51783303int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 2int(10) unsigned range Number of exons
exonStarts 51782802,51783156,longblob   Exon start positions (or end positions for minus strand item)
exonEnds 51782979,51783303,longblob   Exon end positions (or start positions for minus strand item)

Connected Tables and Joining Fields
        hgFixed.gbCdnaInfo.acc (via xenoRefFlat.name)
      hgFixed.gbSeq.acc (via xenoRefFlat.name)
      hgFixed.imageClone.acc (via xenoRefFlat.name)
      priPac1.xenoMrna.qName (via xenoRefFlat.name)
      priPac1.xenoRefGene.name (via xenoRefFlat.name)
      priPac1.xenoRefSeqAli.qName (via xenoRefFlat.name)

Sample Rows
 
geneNamenamechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEnds
RPL32NM_001001636chrUn+51782802517833035178280251783303251782802,51783156,51782979,51783303,
B-H2NM_078662chrUn-1323932331323933981323932331323933981132393233,132393398,
plc-1NM_001136455chrUn-15381022315382505015381022315382505037153810223,153811246,153811554,153812134,153812255,153812982,153813093,153813542,153814182,153814307,153814479,153815187,15381585 ...153810316,153811321,153811602,153812191,153812351,153813051,153813261,153813566,153814260,153814403,153814566,153815238,15381592 ...
CEBPZOSNM_001322376chrUn-1034311121034313221034313221034313221103431112,103431322,
CEBPZOSNM_001322376chrUn+11046204110464861104648611046486111046204,11046486,
CEBPZOSNM_001322376chrUn+588942558897905889790588979025889425,5889667,5889560,5889790,
WDR13NR_029427chrUn-1337467251337469081337469081337469081133746725,133746908,
ABCF3NM_018358chrUn-1293494391293669111293494391293669116129349439,129349615,129349959,129351058,129351275,129366812,129349505,129349699,129349998,129351166,129351413,129366911,
LARP6NM_018357chrUn+11046214110464851104648511046485111046214,11046485,
LARP6NM_018357chrUn+588942458897905889790588979035889424,5889526,5889666,5889486,5889557,5889790,

Note: all start coordinates in our database are 0-based, not 1-based. See explanation here.