Schema for xenoRefFlat
  Database: anoCar2    Primary Table: xenoRefFlat    Row Count: 322,947   Data last updated: 2020-08-17
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
geneName CHATvarchar(255) values Name of gene as it appears in genome browser.
name NM_001001541varchar(255) values Name of gene
chrom chrUn_GL343199varchar(255) values Reference sequence chromosome or scaffold
strand +char(1) values + or - for strand
txStart 3510788int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 3582665int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 3510788int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 3582665int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 11int(10) unsigned range Number of exons
exonStarts 3510788,3528676,3538189,354...longblob   Exon start positions (or end positions for minus strand item)
exonEnds 3510872,3528786,3538240,354...longblob   Exon end positions (or start positions for minus strand item)

Connected Tables and Joining Fields
        anoCar2.xenoMrna.qName (via xenoRefFlat.name)
      anoCar2.xenoRefGene.name (via xenoRefFlat.name)
      anoCar2.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
CHATNM_001001541chrUn_GL343199+3510788358266535107883582665113510788,3528676,3538189,3541128,3546259,3551084,3555074,3557322,3565308,3579228,3582479,3510872,3528786,3538240,3541312,3546433,3551243,3555179,3557436,3565422,3579366,3582665,
Prpf40aNM_001371017chrUn_GL343296+1023189104858210231891047623251023189,1026266,1030278,1031048,1032345,1033414,1033499,1034121,1034918,1035255,1035364,1036740,1037784,1039105,1039189,1041126, ...1023306,1026281,1030389,1031165,1032366,1033456,1033559,1034226,1034983,1035301,1035420,1036828,1037937,1039153,1039237,1041226, ...
hhNM_001038976chr1-88017235880398398801723588039839388017235,88038955,88039652,88017522,88038958,88039839,
Eef1b2NM_001108799chrUn_GL343208-6431516526876431516526836643151,643957,645208,645609,649908,652601,643302,644085,645275,645666,650009,652687,
NXPE1NM_001101712chrUn_GL343722-2539612586592539612586594253961,254348,258245,258410,254282,254381,258374,258659,
Nat9NM_001134835chr2+1157237111157266491157237111157266495115723711,115724480,115724531,115726376,115726559,115723823,115724513,115724618,115726457,115726649,
egl-8NM_001313095chr1-13488805213492129813488805213492129812134888052,134888124,134894691,134896779,134904018,134904315,134904947,134913155,134914170,134916776,134918347,134921253,134888079,134888247,134894856,134896878,134904142,134904396,134905090,134913212,134914205,134916827,134918560,134921298,
L3MBTL3NM_001076871chrUn_GL343365+5601835790985601835790987560183,563030,565756,566577,567521,572417,578984,560249,563114,565892,566654,567665,572531,579098,
GTF2H2C_2NM_001042490chr2-169331331694701616933133169470161416933133,16936551,16938023,16938636,16939193,16939666,16940080,16940821,16942140,16943755,16944782,16945248,16946472,16946960,16933229,16936655,16938108,16938701,16939301,16939670,16940167,16940891,16942247,16943806,16944869,16945287,16946548,16947016,
Adh5NM_001126120chrUn_GL343307-146958914765971469589147659771469589,1470472,1471983,1473022,1474734,1475454,1476498,1469723,1470608,1472244,1473242,1474820,1475565,1476597,

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