Schema for xenoRefFlat
  Database: bosTau2    Primary Table: xenoRefFlat    Row Count: 625,088   Data last updated: 2020-08-20
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type description
geneName Olr1341varchar(255) Name of gene as it appears in genome browser.
name NM_001000482varchar(255) Name of gene
chrom scaffold478varchar(255) Reference sequence chromosome or scaffold
strand -char(1) + or - for strand
txStart 450608int(10) unsigned Transcription start position (or end position for minus strand item)
txEnd 450752int(10) unsigned Transcription end position (or start position for minus strand item)
cdsStart 450608int(10) unsigned Coding region start (or end position for minus strand item)
cdsEnd 450752int(10) unsigned Coding region end (or start position for minus strand item)
exonCount 1int(10) unsigned Number of exons
exonStarts 450608,longblob Exon start positions (or end positions for minus strand item)
exonEnds 450752,longblob Exon end positions (or start positions for minus strand item)

Connected Tables and Joining Fields
        bosTau2.xenoMrna.qName (via xenoRefFlat.name)
      bosTau2.xenoRefGene.name (via xenoRefFlat.name)
      bosTau2.xenoRefSeqAli.qName (via xenoRefFlat.name)
      hgFixed.gbCdnaInfo.acc (via xenoRefFlat.name)
      hgFixed.gbSeq.acc (via xenoRefFlat.name)
      hgFixed.imageClone.acc (via xenoRefFlat.name)

Sample Rows
 
geneNamenamechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEnds
Olr1341NM_001000482scaffold478-4506084507524506084507521450608,450752,
Usp17ldNM_001001559chrBin0-35359394353600543535939435360054335359394,35359661,35359979,35359622,35359952,35360054,
TSPAN2NM_005725chr3+242147082425578424214766242535552124214708,24231908,24242434,24243700,24245173,24246602,24250059,24253489,24253845,24253877,24254088,24254419,24254619,24254790,24 ...24214835,24232011,24242532,24243775,24245272,24246674,24250143,24253827,24253866,24254057,24254402,24254598,24254706,24254805,24 ...
CD164NM_006016chr9-230130802302557523015415230255421923013080,23013362,23013495,23013615,23013898,23013929,23013979,23014308,23014434,23014589,23014688,23014723,23014821,23015141,23 ...23013345,23013377,23013600,23013883,23013918,23013947,23014078,23014348,23014550,23014661,23014701,23014809,23015030,23015192,23 ...
Lgals3bpNM_139096chr19-46228657462346874622865946234687646228657,46228890,46229082,46231755,46233688,46234494,46228884,46229043,46229703,46231872,46233819,46234687,
Arid1bNM_001085355scaffold2630-59194593965919459396159194,59396,
NR_108504chrBin0-1401061051401062061401062061401062062140106105,140106164,140106147,140106206,
NR_108497scaffold71940+3048458458452304,827,405,845,
nipsnap2NM_001160597chr17-39490917394976073949091739497607839490917,39492554,39493790,39494530,39494822,39496976,39497301,39497498,39490982,39492638,39493884,39494647,39494854,39497070,39497339,39497607,
pfd4NM_001160606chr13-62660286626630526266028662663052362660286,62661992,62662944,62660412,62662133,62663052,

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