Schema for refFlat
  Database: bosTau4    Primary Table: refFlat    Row Count: 15,110   Data last updated: 2020-08-20
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
geneName PISDvarchar(255) values Name of gene as it appears in genome browser.
name NM_001024475varchar(255) values Name of gene
chrom chr17varchar(255) values Reference sequence chromosome or scaffold
strand -char(1) values + or - for strand
txStart 73774768int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 73802148int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 73775765int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 73792327int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 9int(10) unsigned range Number of exons
exonStarts 73774768,73776360,73776699,...longblob   Exon start positions (or end positions for minus strand item)
exonEnds 73775990,73776521,73776846,...longblob   Exon end positions (or start positions for minus strand item)

Connected Tables and Joining Fields
        hgFixed.refLink.name (via refFlat.geneName)
      bosTau4.mrnaOrientInfo.name (via refFlat.name)
      bosTau4.refGene.name (via refFlat.name)
      bosTau4.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
PISDNM_001024475chr17-73774768738021487377576573792327973774768,73776360,73776699,73776997,73777278,73778732,73792151,73795572,73802092,73775990,73776521,73776846,73777136,73777515,73778898,73792327,73795652,73802148,
RPL6NM_001031756chr17+65070596650745306507059865074491665070596,65070919,65072151,65072831,65073706,65074338,65070832,65071018,65072295,65072880,65073891,65074530,
SNCANM_001034041chr6+36504249366510643650580636650506636504249,36505781,36513853,36520542,36648197,36650473,36504279,36505927,36513895,36520685,36648281,36651064,
PSMB10NM_001034040chr18-34439815344423673443986734442264834439815,34440103,34440882,34441051,34441443,34441695,34441884,34442208,34439979,34440255,34440941,34441167,34441584,34441793,34441972,34442367,
COL1A1NM_001034039chr19+376348303765158537634948376513585137634830,37636539,37636881,37637026,37637151,37638094,37638380,37638575,37638810,37639369,37639540,37639926,37640067,37640228,37 ...37635051,37636734,37636916,37637062,37637253,37638163,37638425,37638629,37638864,37639423,37639594,37639980,37640112,37640282,37 ...
PTCD3NM_001046034chr11-504979015052906750498428505290452450497901,50498790,50499395,50501188,50501881,50502830,50503017,50504205,50505166,50505488,50507538,50508264,50509472,50510029,50 ...50498507,50498949,50499437,50501337,50501967,50502921,50503096,50504312,50505195,50505578,50507589,50508409,50509558,50510090,50 ...
MTF1NM_001035080chr3+11524866311528259211525049211528145311115248663,115250441,115259572,115260646,115263360,115263890,115267040,115274751,115275575,115279756,115281022,115248701,115250900,115259811,115260778,115263434,115264027,115267118,115274848,115276171,115279820,115282592,
PALMDNM_001035079chr3-46515499465751834651581046575031846515499,46520013,46522874,46523106,46523278,46543451,46549159,46574986,46515854,46521108,46522988,46523140,46523393,46543576,46549240,46575183,
MRPS11NM_001035078chr21+19110589191214761911061619121193619110589,19110811,19116516,19118729,19120339,19121085,19110681,19110937,19116615,19118859,19120405,19121476,
MRPS6NM_001040584chrUn.004.306-1518991520861518991519441151899,152086,

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