Schema for xenoRefFlat
  Database: felCat3    Primary Table: xenoRefFlat    Row Count: 716,810   Data last updated: 2020-08-21
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type description
geneName LMO3varchar(255) Name of gene as it appears in genome browser.
name NM_001001395varchar(255) Name of gene
chrom scaffold_206705varchar(255) Reference sequence chromosome or scaffold
strand -char(1) + or - for strand
txStart 2011int(10) unsigned Transcription start position (or end position for minus strand item)
txEnd 6765int(10) unsigned Transcription end position (or start position for minus strand item)
cdsStart 2011int(10) unsigned Coding region start (or end position for minus strand item)
cdsEnd 6765int(10) unsigned Coding region end (or start position for minus strand item)
exonCount 4int(10) unsigned Number of exons
exonStarts 2011,2048,3561,6559,longblob Exon start positions (or end positions for minus strand item)
exonEnds 2047,2082,3687,6765,longblob Exon end positions (or start positions for minus strand item)

Connected Tables and Joining Fields
        felCat3.xenoMrna.qName (via xenoRefFlat.name)
      felCat3.xenoRefGene.name (via xenoRefFlat.name)
      felCat3.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
LMO3NM_001001395scaffold_206705-201167652011676542011,2048,3561,6559,2047,2082,3687,6765,
ARID4BNR_135074scaffold_129862-6407397397391640,739,
RFTN2NM_001266607scaffold_162147-739374987393749817393,7498,
RFTN2NM_001266607scaffold_206809+83711838258371183825183711,83825,
HSPA5NM_001266596scaffold_146132+47798493634779849363647798,47929,48121,48364,48565,48961,47923,48103,48349,48502,48943,49363,
CELF4NM_001353703scaffold_86211+56104810481048656,131,257,331,659,767,101,140,315,620,756,1048,
CELF4NM_001353706scaffold_86211+56104810481048656,131,257,331,659,767,101,140,315,620,756,1048,
HDAC9NM_001204145scaffold_163386-8731314943987313149439387313,112823,149298,87367,112877,149439,
HDAC9NM_001204145scaffold_191222+36865377123686537712236865,37496,37078,37712,
kstNM_206265scaffold_155657+602972696029726926029,7236,6086,7269,

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