Schema for xenoRefGene
  Database: bosTau2    Primary Table: xenoRefGene    Row Count: 625,088   Data last updated: 2020-08-20
Format description: A gene prediction.
On download server: MariaDB table dump directory
fieldexampleSQL type description
name NR_169664varchar(255) Name of gene
chrom scaffold95881varchar(255) Reference sequence chromosome or scaffold
strand -char(1) + or - for strand
txStart 175int(10) unsigned Transcription start position (or end position for minus strand item)
txEnd 268int(10) unsigned Transcription end position (or start position for minus strand item)
cdsStart 268int(10) unsigned Coding region start (or end position for minus strand item)
cdsEnd 268int(10) unsigned Coding region end (or start position for minus strand item)
exonCount 1int(10) unsigned Number of exons
exonStarts 175,longblob Exon start positions (or end positions for minus strand item)
exonEnds 268,longblob Exon end positions (or start positions for minus strand item)

Connected Tables and Joining Fields
        bosTau2.all_est.qName (via xenoRefGene.name)
      bosTau2.all_mrna.qName (via xenoRefGene.name)
      bosTau2.refGene.name (via xenoRefGene.name)
      bosTau2.refSeqAli.qName (via xenoRefGene.name)
      bosTau2.xenoMrna.qName (via xenoRefGene.name)
      bosTau2.xenoRefFlat.name (via xenoRefGene.name)
      bosTau2.xenoRefSeqAli.qName (via xenoRefGene.name)
      hgFixed.gbCdnaInfo.acc (via xenoRefGene.name)
      hgFixed.gbMiscDiff.acc (via xenoRefGene.name)
      hgFixed.gbSeq.acc (via xenoRefGene.name)
      hgFixed.gbWarn.acc (via xenoRefGene.name)
      hgFixed.imageClone.acc (via xenoRefGene.name)

Sample Rows
 
namechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEnds
NR_169664scaffold95881-1752682682681175,268,
NR_169675scaffold95881-1752682682681175,268,
NM_001134769scaffold63133-6888136888131688,813,
NR_161447scaffold10099-202421217212172121762024,5438,11082,20174,20911,21025,2181,5543,11167,20251,20995,21217,
NR_161445chr8+14261219142677941426779414267794614261219,14262882,14266034,14267196,14267406,14267705,14261302,14263047,14266139,14267347,14267422,14267794,
NR_161445chrBin0-16357928163580181635801816358018216357928,16357985,16357976,16358018,
NR_161445chrBin0-2473207612473208882473208882473208881247320761,247320888,
NR_161445scaffold10099-203021217212172121762030,5438,11082,20174,20911,21025,2181,5543,11167,20251,20995,21217,
NR_161446chrBin0-16357928163580181635801816358018216357928,16357985,16357976,16358018,
NR_161446scaffold10099-202421217212172121762024,5438,11082,20174,20911,21025,2181,5543,11167,20251,20995,21217,

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