Schema for xenoRefFlat
  Database: loxAfr3    Primary Table: xenoRefFlat    Row Count: 359,460   Data last updated: 2020-08-19
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
geneName capn8.1.Lvarchar(255) values Name of gene as it appears in genome browser.
name NM_001088543varchar(255) values Name of gene
chrom scaffold_16varchar(255) values Reference sequence chromosome or scaffold
strand -char(1) values + or - for strand
txStart 50310196int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 50324573int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 50310196int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 50324573int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 9int(10) unsigned range Number of exons
exonStarts 50310196,50313206,50315258,...longblob   Exon start positions (or end positions for minus strand item)
exonEnds 50310337,50313290,50315405,...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)
      loxAfr3.xenoMrna.qName (via xenoRefFlat.name)
      loxAfr3.xenoRefGene.name (via xenoRefFlat.name)
      loxAfr3.xenoRefSeqAli.qName (via xenoRefFlat.name)

Sample Rows
 
geneNamenamechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEnds
capn8.1.LNM_001088543scaffold_16-50310196503245735031019650324573950310196,50313206,50315258,50317593,50320065,50321287,50323468,50323490,50324457,50310337,50313290,50315405,50317653,50320152,50321452,50323471,50323629,50324573,
VN2R556NM_001099565scaffold_1-1032728811032810131032728811032809719103272881,103272937,103273045,103273285,103273536,103275457,103279142,103279512,103280716,103272935,103273045,103273278,103273489,103273695,103275523,103279187,103279575,103281013,
LOC613206NR_149024scaffold_6+33842504338427573384275733842757233842504,33842673,33842652,33842757,
Rps24NM_207635scaffold_36+10990186109905821099019210990582110990186,10990582,
Rps24NM_207635scaffold_9-67968220679686026796822067968602167968220,67968602,
HBB2NM_001082260scaffold_116-248743024889102487435248870152487430,2488293,2488644,2488762,2488850,2487564,2488516,2488701,2488836,2488910,
Awd2NM_001126184scaffold_31-17418209174215031741820917421503217418209,17421389,17418323,17421503,
Awd2NM_001126184scaffold_31-17426514174312661742651417431266317426514,17427254,17431152,17426578,17427364,17431266,
Naip2NM_001126182scaffold_7+734507177347639973450717734763991973450717,73450991,73455758,73457698,73457771,73457935,73458127,73458491,73458617,73458867,73459215,73459327,73459377,73459470,73 ...73450990,73451173,73455811,73457755,73457909,73458082,73458484,73458570,73458755,73458948,73459287,73459342,73459449,73459477,73 ...
c14orf119NM_001016929scaffold_104+178081817811481780818178114821780818,1780986,1780974,1781148,

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