Schema for xenoRefFlat
  Database: danRer10    Primary Table: xenoRefFlat    Row Count: 139,228   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 HAO1varchar(255) values Name of gene as it appears in genome browser.
name NM_001199442varchar(255) values Name of gene
chrom chr17varchar(255) values Reference sequence chromosome or scaffold
strand +char(1) values + or - for strand
txStart 3879483int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 3908750int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 3879483int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 3908750int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 7int(10) unsigned range Number of exons
exonStarts 3879483,3886048,3892381,389...longblob   Exon start positions (or end positions for minus strand item)
exonEnds 3879620,3886196,3892624,389...longblob   Exon end positions (or start positions for minus strand item)

Connected Tables and Joining Fields
        danRer10.xenoMrna.qName (via xenoRefFlat.name)
      danRer10.xenoRefGene.name (via xenoRefFlat.name)
      danRer10.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
HAO1NM_001199442chr17+387948339087503879483390875073879483,3886048,3892381,3895581,3895706,3903499,3908599,3879620,3886196,3892624,3895699,3895712,3903590,3908750,
VPS16NM_001271150chr6+8871664889465188716648894648158871664,8872813,8873258,8873916,8875371,8880851,8883404,8883744,8887377,8887607,8887899,8890207,8892525,8892702,8894503,8871691,8872903,8873387,8874061,8875478,8880917,8883530,8883915,8887512,8887712,8888001,8890285,8892624,8892806,8894651,
RARBNM_001290216chr3-32935407329527213293540732952721732935407,32935573,32937495,32937800,32938068,32943323,32952577,32935496,32935735,32937700,32937977,32938125,32943464,32952721,
slc38a3NM_001030377chr6-531545465319501853154546531950181453154546,53156492,53156495,53161935,53167581,53169596,53171910,53174462,53176410,53183050,53186451,53189143,53194880,53194900,53154652,53156494,53156596,53162081,53167700,53169686,53171988,53174515,53176489,53183112,53186541,53189215,53194883,53195018,
tph2NM_001032677chr18-170011921701177017001192170117641317001192,17001445,17003665,17003674,17004050,17004250,17007695,17008063,17008089,17009309,17009551,17009829,17011680,17001367,17001579,17003667,17003768,17004177,17004386,17007892,17008065,17008155,17009411,17009731,17009901,17011770,
flot1.SNM_001088905chr19+7021101703376570211017033765117021101,7021226,7021395,7023167,7026363,7028394,7028537,7028579,7030256,7033322,7033603,7021141,7021302,7021487,7023310,7026483,7028487,7028539,7028733,7030439,7033457,7033765,
LOC586192NM_001170816chr24-199222841998266319922284199826631019922284,19935348,19938407,19938503,19938652,19942088,19943264,19965664,19982489,19982546,19922356,19935456,19938473,19938542,19938754,19942198,19943322,19965766,19982492,19982663,
APPNM_001204301chr9-352191113525014035219111352501401635219111,35221719,35223547,35223899,35224098,35226217,35226656,35226664,35229923,35237047,35239483,35242367,35242457,35245832,35 ...35219213,35221863,35223586,35224004,35224221,35226373,35226659,35226742,35230052,35237209,35239534,35242436,35242538,35245947,35 ...
NDUFB8NM_001177679chr12-48486502484928824848650248492882448486502,48486982,48492580,48492752,48486589,48487138,48492677,48492882,
FGF20NM_001192165chr14-10446531104564251044653110456425410446531,10453398,10453518,10456313,10446723,10453401,10453622,10456425,

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