Schema for xenoRefFlat
  Database: droVir2    Primary Table: xenoRefFlat    Row Count: 277,208   Data last updated: 2020-08-18
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
geneName Rs5-8s1varchar(255) values Name of gene as it appears in genome browser.
name NR_003280varchar(255) values Name of gene
chrom scaffold_10001varchar(255) values Reference sequence chromosome or scaffold
strand +char(1) values + or - for strand
txStart 149int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 231int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 231int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 231int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 1int(10) unsigned range Number of exons
exonStarts 149,longblob   Exon start positions (or end positions for minus strand item)
exonEnds 231,longblob   Exon end positions (or start positions for minus strand item)

Connected Tables and Joining Fields
        droVir2.xenoMrna.qName (via xenoRefFlat.name)
      droVir2.xenoRefGene.name (via xenoRefFlat.name)
      droVir2.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
Rs5-8s1NR_003280scaffold_10001+1492312312311149,231,
Rn5-8sNR_045133scaffold_10001+1492312312311149,231,
tbxt.2.SNM_001085559scaffold_13049+16995445170044311699544517004431516995445,17003210,17004061,17004227,17004314,16995534,17003334,17004163,17004284,17004431,
XB980013.LNM_001085558scaffold_12875+896538689659438965386896594338965386,8965602,8965883,8965503,8965638,8965943,
XB980013.LNM_001085558scaffold_12928-498143249848794981432498487924981432,4984747,4981492,4984879,
NR_076642scaffold_10001+7101078107810782710,1036,785,1078,
NR_076255scaffold_10001+7401078107810782740,1036,785,1078,
NR_076561scaffold_10001+7401078107810782740,1036,788,1078,
NR_076641scaffold_10001+7401078107810782740,1036,785,1078,
NR_076986scaffold_10001+7401078107810782740,1036,785,1078,

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