Schema for xenoRefFlat
  Database: cb3    Primary Table: xenoRefFlat    Row Count: 131,831   Data last updated: 2020-08-18
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
geneName LOC101213074varchar(255) values Name of gene as it appears in genome browser.
name NM_001280743varchar(255) values Name of gene
chrom chrXvarchar(255) values Reference sequence chromosome or scaffold
strand -char(1) values + or - for strand
txStart 8000578int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 8001670int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 8000578int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 8001670int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 4int(10) unsigned range Number of exons
exonStarts 8000578,8001169,8001272,800...longblob   Exon start positions (or end positions for minus strand item)
exonEnds 8001136,8001223,8001383,800...longblob   Exon end positions (or start positions for minus strand item)

Connected Tables and Joining Fields
        cb3.xenoMrna.qName (via xenoRefFlat.name)
      cb3.xenoRefGene.name (via xenoRefFlat.name)
      cb3.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
LOC101213074NM_001280743chrX-800057880016708000578800167048000578,8001169,8001272,8001526,8001136,8001223,8001383,8001670,
TIPKNM_001280724chrIII-10674516106794141067451610679414410674516,10678032,10678200,10679363,10674663,10678170,10678368,10679414,
Myo1cNM_001080775chrII-193839219395651938392193956551938392,1939101,1939274,1939442,1939520,1938545,1939167,1939349,1939484,1939565,
Myo1cNM_001080775chrIII-937183993776799371839937767979371839,9371962,9375172,9375349,9375983,9377411,9377526,9371881,9372085,9375265,9375448,9376121,9377480,9377679,
Myo1cNM_001080775chrV+5841015870695841015870695584101,584245,585332,586740,586913,584143,584273,585379,586812,587069,
LOC100483480NM_001304901chrI-605650160568016056501605680126056501,6056705,6056660,6056801,
PABPN1NM_004643chrI-340123034015773401230340157723401230,3401424,3401320,3401577,
MLLT10NM_004641chrIII-900193690068829001936900688249001936,9006523,9006729,9006837,9001960,9006610,9006828,9006882,
DDX39BNM_004640chrII+341476434163713414764341637143414764,3415043,3415367,3415861,3414998,3415307,3415487,3416371,
RAB7ANM_004637chrII+10919688109202411091968810920241410919688,10919836,10919993,10920211,10919793,10919902,10920143,10920241,

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