Schema for refFlat
  Database: gorGor5    Primary Table: refFlat    Row Count: 468   Data last updated: 2020-08-21
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
geneName MIRLET7Cvarchar(255) values Name of gene as it appears in genome browser.
name NR_106288varchar(255) values Name of gene
chrom CYUI01015003v1varchar(255) values Reference sequence chromosome or scaffold
strand -char(1) values + or - for strand
txStart 11283558int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 11283666int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 11283666int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 11283666int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 1int(10) unsigned range Number of exons
exonStarts 11283558,longblob   Exon start positions (or end positions for minus strand item)
exonEnds 11283666,longblob   Exon end positions (or start positions for minus strand item)

Connected Tables and Joining Fields
        hgFixed.refLink.name (via refFlat.geneName)
      gorGor5.mrnaOrientInfo.name (via refFlat.name)
      gorGor5.refGene.name (via refFlat.name)
      gorGor5.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
MIRLET7CNR_106288CYUI01015003v1-11283558112836661128366611283666111283558,11283666,
MIR92BNR_106333CYUI01015057v1-630948263095906309590630959016309482,6309590,
TRIM5NM_001279549CYUI01015496v1+1408831562261408831562267140883,141891,142626,153325,154954,155352,155639,141300,141987,142857,153348,155055,155379,156226,
RHDNM_001279597CYUI01006721v1-47341101247341101224734,10823,4885,11012,
NDUFB11NM_001279697CYUI01014941v1-18358227183605751835822718360575318358227,18358524,18360368,18358351,18358655,18360575,
NDUFC2NM_001279694CYUI01015190v1+108150010912781081500109127841081500,1088124,1088157,1091228,1081666,1088156,1088269,1091278,
NDUFA9NM_001279701CYUI01015151v1+4669835470686146698354706861114669835,4675000,4675534,4678453,4679740,4683250,4689184,4690467,4703377,4705012,4706690,4669895,4675171,4675632,4678545,4679882,4683353,4689252,4690544,4703473,4705079,4706861,
PTGDSNM_001279691CYUI01015266v1-121415112173551214151121734961214151,1214721,1214942,1215702,1215868,1217235,1214174,1214823,1215059,1215778,1216008,1217355,
MIR376CNR_106350CYUI01014949v1+17088609170887191708871917088719117088609,17088719,
MIR361NR_106349CYUI01014915v1+16291807162919191629191916291919116291807,16291919,

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