Schema for refFlat
  Database: dm6    Primary Table: refFlat    Row Count: 36,533   Data last updated: 2020-08-19
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
geneName FERvarchar(255) values Name of gene as it appears in genome browser.
name NM_001382200varchar(255) values Name of gene
chrom chr3Rvarchar(255) values Reference sequence chromosome or scaffold
strand -char(1) values + or - for strand
txStart 9367602int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 9370361int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 9368240int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 9370178int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 7int(10) unsigned range Number of exons
exonStarts 9367602,9368455,9368698,936...longblob   Exon start positions (or end positions for minus strand item)
exonEnds 9368392,9368638,9368827,936...longblob   Exon end positions (or start positions for minus strand item)

Connected Tables and Joining Fields
        hgFixed.refLink.name (via refFlat.geneName)
      dm6.mrnaOrientInfo.name (via refFlat.name)
      dm6.refGene.name (via refFlat.name)
      dm6.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
FERNM_001382200chr3R-936760293703619368240937017879367602,9368455,9368698,9368896,9369054,9369335,9370052,9368392,9368638,9368827,9368983,9369268,9369710,9370361,
CG9467NM_001382202chr3R-979776898010269798438980073029797768,9800668,9800590,9801026,
CG9467NM_001382203chr3R-979776898010269798288980073029797768,9800668,9800590,9801026,
CG46467NM_001382173chr3R+987468099888769875140987535079874680,9930363,9943480,9943676,9982278,9986647,9986896,9876223,9930545,9943587,9943894,9982370,9986833,9988876,
Nuak1NM_001382099chr3R+102643051030289810291246103022991310264305,10291099,10291572,10291836,10292115,10293193,10296733,10297439,10297768,10298245,10298448,10299633,10301943,10264878,10291452,10291772,10292054,10292713,10294318,10297109,10297697,10297897,10298375,10298591,10299752,10302898,
Nuak1NM_001382103chr3R+102643051030289810291246103022991510264305,10291099,10291572,10291836,10292115,10293193,10295320,10296733,10297439,10297768,10298245,10298448,10299001,10299633,10 ...10264878,10291452,10291772,10292054,10292713,10294318,10296061,10297109,10297697,10297897,10298375,10298591,10299058,10299752,10 ...
Nuak1NM_001382098chr3R+102643051030846710291246103077201410264305,10291099,10291572,10291836,10292115,10293193,10296733,10297439,10297768,10298245,10298448,10299633,10303309,10307422,10264878,10291452,10291772,10292054,10292713,10294318,10297109,10297697,10297897,10298375,10298591,10299752,10307366,10308467,
Nuak1NM_001382101chr3R+102643051030846710291246103074771610264305,10291099,10291572,10291836,10292115,10293193,10295320,10296733,10297439,10297768,10298245,10298448,10299001,10299633,10 ...10264878,10291452,10291772,10292054,10292713,10294318,10296061,10297109,10297697,10297897,10298375,10298591,10299058,10299752,10 ...
Nuak1NM_001382102chr3R+102643051030846710291246103074771410264305,10291099,10291572,10291836,10292115,10293193,10296733,10297439,10297768,10298245,10298448,10299633,10303309,10307422,10264878,10291452,10291772,10292054,10292713,10294318,10297109,10297697,10297897,10298375,10298591,10299752,10307366,10308467,
Nuak1NM_001382104chr3R+102845891030289810291246103022991410284589,10291099,10291572,10291836,10292115,10293193,10295320,10296733,10297439,10297768,10298245,10298448,10299633,10301943,10284712,10291452,10291772,10292054,10292713,10294318,10296061,10297109,10297697,10297897,10298375,10298591,10299752,10302898,

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