Schema for refFlat
  Database: gorGor6    Primary Table: refFlat    Row Count: 449   Data last updated: 2020-05-06
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
geneName MIR27Bvarchar(255) values Name of gene as it appears in genome browser.
name NR_106325varchar(255) values Name of gene
chrom chr9varchar(255) values Reference sequence chromosome or scaffold
strand +char(1) values + or - for strand
txStart 66219469int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 66219577int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 66219577int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 66219577int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 1int(10) unsigned range Number of exons
exonStarts 66219469,longblob   Exon start positions (or end positions for minus strand item)
exonEnds 66219577,longblob   Exon end positions (or start positions for minus strand item)

Connected Tables and Joining Fields
        hgFixed.refLink.name (via refFlat.geneName)
      gorGor6.mrnaOrientInfo.name (via refFlat.name)
      gorGor6.refGene.name (via refFlat.name)
      gorGor6.refSeqAli.qName (via refFlat.name)
      hgFixed.gbCdnaInfo.acc (via refFlat.name)
      hgFixed.gbSeq.acc (via refFlat.name)
      hgFixed.imageClone.acc (via refFlat.name)
      hgFixed.refLink.mrnaAcc (via refFlat.name)
      hgFixed.refSeqStatus.mrnaAcc (via refFlat.name)
      hgFixed.refSeqSummary.mrnaAcc (via refFlat.name)
      knownGeneV39.kgXref.refseq (via refFlat.name)
      knownGeneV39.knownToRefSeq.value (via refFlat.name)

Sample Rows
 
geneNamenamechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEnds
MIR27BNR_106325chr9+66219469662195776621957766219577166219469,66219577,
MIR30CNR_106324chr6-69725763697258766972587669725876169725763,69725876,
MIR301ANR_162074chr5+22714102227141602271416022714160122714102,22714160,
MIR196BNR_162073chr7-27810697278107552781075527810755127810697,27810755,
AZIN2NM_001293723chr1+288980202893748828899106289371391128898020,28898247,28899034,28900802,28908896,28910130,28911398,28913552,28914913,28934857,28937000,28898151,28898365,28899211,28900976,28909069,28910265,28911564,28913715,28915026,28935072,28937488,
MIR361NR_106349chrX-79700782797008947970089479700894179700782,79700894,
MIR518FNR_128579chr19+44475960444760764447607644476076144475960,44476076,
MIR523NR_128578chr19+44474337444744564447445644474456144474337,44474456,
PEG10NM_001291092chr7-77342093773554687734725877355190277342093,77355185,77348459,77355468,
PEG10NM_001291091chr7-77342093773554687734611077355190277342093,77355185,77348459,77355468,

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