Schema for xenoRefFlat
  Database: xenTro1    Primary Table: xenoRefFlat    Row Count: 582,134   Data last updated: 2020-09-02
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type description
geneName FBXO4varchar(255) Name of gene as it appears in genome browser.
name NM_001034617varchar(255) Name of gene
chrom scaffold_794varchar(255) Reference sequence chromosome or scaffold
strand -char(1) + or - for strand
txStart 448057int(10) unsigned Transcription start position (or end position for minus strand item)
txEnd 451260int(10) unsigned Transcription end position (or start position for minus strand item)
cdsStart 448057int(10) unsigned Coding region start (or end position for minus strand item)
cdsEnd 451260int(10) unsigned Coding region end (or start position for minus strand item)
exonCount 6int(10) unsigned Number of exons
exonStarts 448057,448174,448743,448761...longblob Exon start positions (or end positions for minus strand item)
exonEnds 448126,448225,448746,448835...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)
      xenTro1.xenoRefGene.name (via xenoRefFlat.name)
      xenTro1.xenoRefSeqAli.qName (via xenoRefFlat.name)

Sample Rows
 
geneNamenamechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEnds
FBXO4NM_001034617scaffold_794-4480574512604480574512606448057,448174,448743,448761,449474,451092,448126,448225,448746,448835,449685,451260,
SIGMAR1NM_001034655scaffold_1685-22521238262252123826322521,22950,23624,22730,23043,23826,
SIGMAR1NM_001034655scaffold_4097-397361063973610633973,4719,5904,4182,4812,6106,
LSM14ANM_001034654scaffold_129+1583534160226015835341601993141583534,1589373,1593186,1593302,1593433,1595059,1596669,1597252,1597357,1600397,1600542,1601969,1602052,1602227,1583655,1589543,1593300,1593305,1593559,1595233,1596831,1597345,1597413,1600503,1600644,1601993,1602112,1602260,
PPP1CBNM_001034653scaffold_178+131853013529311318534135293171318530,1336945,1343659,1346760,1350204,1351523,1352826,1318586,1337079,1343762,1346834,1350354,1351658,1352931,
LOC100285919NM_001158808scaffold_87+219487421955112194874219551132194874,2194955,2195487,2194913,2195063,2195511,
LOC100285919NM_001158808scaffold_87-222037722228642220377222286442220377,2220482,2222675,2222825,2220401,2220524,2222783,2222864,
abcd1NM_001111186scaffold_82+131516913376291315169133762981315169,1315882,1328694,1330062,1332200,1333811,1335341,1337542,1315871,1315885,1328862,1330146,1332296,1333957,1335387,1337629,
GPR155NM_001132499scaffold_1952-751116291162911629167511,7587,8041,15322,15881,16175,7570,7633,8179,15345,15885,16291,
UBR2NM_001184801scaffold_27696+220023982398239832200,2257,2306,2246,2280,2398,

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