Schema for xenoRefFlat
  Database: rheMac2    Primary Table: xenoRefFlat    Row Count: 350,277   Data last updated: 2016-02-16
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
geneName Hs1bp3varchar(255) values Name of gene as it appears in genome browser.
name NM_021429varchar(255) values Name of gene
chrom chr13varchar(255) values Reference sequence chromosome or scaffold
strand -char(1) values + or - for strand
txStart 20543469int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 20571022int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 20543469int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 20571022int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 7int(10) unsigned range Number of exons
exonStarts 20543469,20543616,20548364,...longblob   Exon start positions (or end positions for minus strand item)
exonEnds 20543562,20543728,20548498,...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)
      rheMac2.xenoMrna.qName (via xenoRefFlat.name)
      rheMac2.xenoRefGene.name (via xenoRefFlat.name)
      rheMac2.xenoRefSeqAli.qName (via xenoRefFlat.name)

Sample Rows
 
geneNamenamechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEnds
Hs1bp3NM_021429chr13-20543469205710222054346920571022720543469,20543616,20548364,20550283,20564128,20566580,20570861,20543562,20543728,20548498,20550397,20564250,20566788,20571022,
Rilpl1NM_021430chr11-12475389812481383012475461412481383010124753898,124754529,124754569,124754612,124766723,124768153,124782329,124783197,124804868,124813623,124753960,124754544,124754590,124754759,124766816,124768321,124782545,124783316,124805019,124813830,
VN2R603NM_001099590chr15+1091765361091771201091765361091771204109176536,109176604,109176888,109177030,109176581,109176727,109177028,109177120,
rbx1NM_001083544chr10+84860869848790238486086984879023584860869,84863375,84864468,84875204,84878936,84860947,84863454,84864470,84875273,84879023,
Aup1NM_001079899chr13-747569987476001174757144747599671274756998,74757285,74757592,74757816,74758072,74758276,74758589,74758758,74759092,74759469,74759706,74759917,74757181,74757404,74757708,74757936,74758175,74758343,74758663,74758831,74759277,74759627,74759837,74760011,
B3GALNT1NM_033169chr2+1265945281266166711266140411266150379126594528,126594964,126595000,126595344,126597611,126614007,126615591,126615905,126616110,126594630,126594969,126595083,126595430,126597706,126615556,126615837,126616093,126616671,
B3GALNT1NM_033168chr13+698460156984924169846317698479031469846015,69846281,69846349,69846450,69846901,69847034,69847771,69848037,69848055,69848076,69848326,69848465,69848663,69849029,69846101,69846331,69846449,69846575,69846974,69847484,69848024,69848045,69848063,69848253,69848426,69848647,69848687,69849241,
B3GALNT1NM_033168chr2+1265940711266166711266140411266150378126594071,126594534,126594999,126595344,126614007,126615591,126615905,126616110,126594211,126594537,126595083,126595430,126615556,126615837,126616093,126616671,
VSX1NM_204769chr10-58269106582756205827006058275620658269106,58270060,58271266,58272398,58273016,58275548,58269133,58270119,58271447,58272522,58273040,58275620,
Olr300NM_001000237chr7-82440104825531228244010482553122282440104,82553062,82440206,82553122,

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