Schema for xenoRefFlat
  Database: equCab3    Primary Table: xenoRefFlat    Row Count: 301,814   Data last updated: 2019-07-17
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
geneName pdi-2varchar(255) values Name of gene as it appears in genome browser.
name NM_001129628varchar(255) values Name of gene
chrom chr4varchar(255) values Reference sequence chromosome or scaffold
strand -char(1) values + or - for strand
txStart 101561250int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 101572573int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 101561250int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 101572573int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 4int(10) unsigned range Number of exons
exonStarts 101561250,101569597,1015697...longblob   Exon start positions (or end positions for minus strand item)
exonEnds 101561391,101569669,1015697...longblob   Exon end positions (or start positions for minus strand item)

Connected Tables and Joining Fields
        equCab3.xenoRefGene.name (via xenoRefFlat.name)
      equCab3.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
pdi-2NM_001129628chr4-1015612501015725731015612501015725734101561250,101569597,101569747,101572499,101561391,101569669,101569793,101572573,
slc1a7aNM_001130622chr2+6257938630279262579386302792106257938,6264599,6282866,6292031,6294357,6298298,6299138,6301199,6302149,6302710,6258037,6264679,6283082,6292074,6294505,6298387,6299371,6301394,6302284,6302792,
IFNGR1NM_001131272chr10-83733240837515958373325283751595683733240,83733787,83735515,83737508,83739417,83751556,83733363,83733804,83735574,83737646,83739588,83751595,
LYPD2NM_205545chr9-83668015836685428366801583668542283668015,83668475,83668171,83668542,
XFG 5-1NM_001100925chr1-28744662932876266293428744,29219,65700,66229,29051,29253,65893,66293,
znf184NM_001171529chr1-28744663142874466314628744,28877,29390,65840,65918,66254,28774,29102,29501,65885,66051,66314,
znf268.SNM_001094891chr1-28744663802874466380728744,28799,29051,65786,65959,66050,66086,28762,28931,29171,65875,66050,66062,66380,
BZW1NM_001207069chr18+760212027603432776021240760326672176021202,76021928,76024638,76026434,76027378,76028069,76028904,76029169,76029801,76030483,76032071,76032635,76033029,76033174,76 ...76021242,76022001,76024815,76026529,76027444,76028205,76029014,76029340,76029948,76030622,76032194,76033001,76033151,76033225,76 ...
ZNF717NM_001132579chr1-28747704042874770308728747,29354,65699,66440,66789,69946,70274,29342,29537,66395,66451,67046,70026,70404,
ZNF847PNR_036753chr1-28748661446614466144328748,49316,66113,28890,49325,66144,

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