Schema for xenoRefFlat
  Database: hg16    Primary Table: xenoRefFlat    Row Count: 248,219   Data last updated: 2020-08-22
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
geneName Optcvarchar(255) values Name of gene as it appears in genome browser.
name NM_001107176varchar(255) values Name of gene
chrom chrUn_randomvarchar(255) values Reference sequence chromosome or scaffold
strand +char(1) values + or - for strand
txStart 2693794int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 2700797int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 2693794int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 2700797int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 6int(10) unsigned range Number of exons
exonStarts 2693794,2693958,2696467,269...longblob   Exon start positions (or end positions for minus strand item)
exonEnds 2693860,2694024,2696623,269...longblob   Exon end positions (or start positions for minus strand item)

Connected Tables and Joining Fields
        hg16.altGraphX.mrnaRefs (via xenoRefFlat.name)
      hg16.xenoMrna.qName (via xenoRefFlat.name)
      hg16.xenoRefGene.name (via xenoRefFlat.name)
      hg16.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
OptcNM_001107176chrUn_random+269379427007972693794270079762693794,2693958,2696467,2696875,2697436,2700707,2693860,2694024,2696623,2696879,2697637,2700797,
armc9NM_001097173chr2+23228218123239914823228218123239914813232282181,232283907,232302474,232302662,232307194,232326255,232329557,232343885,232344154,232345641,232349319,232358604,23239904 ...232282250,232284045,232302630,232302665,232307293,232326354,232329635,232344029,232344160,232345710,232349385,232358694,23239914 ...
nr4a1NM_001078835chr12+507343765073950450734379507389951250734376,50734477,50734511,50734682,50735168,50736080,50736544,50737101,50737402,50738735,50738848,50739458,50734406,50734489,50734595,50734907,50735255,50736210,50736603,50737310,50737578,50738815,50738995,50739504,
GRHL1NM_001076450chr2+101135791016414410113701101625742610113579,10116782,10120653,10121817,10122922,10124322,10125753,10126102,10127154,10147990,10152562,10153873,10155071,10157746,10 ...10113720,10116969,10120724,10121823,10123304,10124399,10125910,10126214,10127249,10148149,10152649,10154011,10155112,10157837,10 ...
hoxa10abNM_001130855chr7-26953786269555762695378926955576226953786,26955536,26954041,26955576,
hoxa2aaNM_001130854chr7-26882616268846202688261626884391526882616,26882815,26883108,26884186,26884520,26882691,26882955,26883363,26884396,26884620,
Olr1460NM_001000769chr19+61964094619643976196409461964397161964094,61964397,
Stxbp4NM_011505chr17+535428215371604053542821537119102353542821,53551343,53551630,53551734,53559532,53583166,53586166,53595234,53599087,53624896,53630076,53630684,53633048,53693310,53 ...53542956,53551450,53551673,53551809,53559596,53583263,53586258,53595324,53599151,53625075,53630193,53630734,53633184,53693366,53 ...
Idh3aNM_133160chr15+76165717761744637616571776174463876165717,76169740,76169993,76170394,76171667,76171728,76171874,76174310,76165795,76169926,76169996,76170528,76171692,76171768,76171939,76174463,
Olr46NM_001001001chr11+447445144753824474451447538214474451,4475382,

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