Schema for xenoRefFlat
  Database: ce11    Primary Table: xenoRefFlat    Row Count: 33,497   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 LOC103632090varchar(255) values Name of gene as it appears in genome browser.
name NM_001346596varchar(255) values Name of gene
chrom chrVvarchar(255) values Reference sequence chromosome or scaffold
strand -char(1) values + or - for strand
txStart 1263337int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 1263838int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 1263337int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 1263542int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 3int(10) unsigned range Number of exons
exonStarts 1263337,1263509,1263757,longblob   Exon start positions (or end positions for minus strand item)
exonEnds 1263394,1263602,1263838,longblob   Exon end positions (or start positions for minus strand item)

Connected Tables and Joining Fields
        ce11.xenoMrna.qName (via xenoRefFlat.name)
      ce11.xenoRefGene.name (via xenoRefFlat.name)
      ce11.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
LOC103632090NM_001346596chrV-126333712638381263337126354231263337,1263509,1263757,1263394,1263602,1263838,
LOC106578080NM_001315011chrIV-708374070846587083740708465837083740,7084142,7084403,7083848,7084183,7084658,
LOC106608436NM_001314480chrIV-999615299965399996152999653919996152,9996539,
OGDHLNM_001347826chrIV-469848147017754698481470149074698481,4699462,4700301,4700965,4701211,4701466,4701649,4698592,4699774,4700436,4701031,4701436,4701520,4701775,
OGDHLNM_001347825chrIV-469848147017754698481470177574698481,4699462,4700301,4700965,4701211,4701466,4701649,4698592,4699774,4700436,4701031,4701436,4701622,4701775,
CrtNM_001043610chrV-609937261003896099372610038956099372,6099511,6100009,6100185,6100353,6099417,6100000,6100066,6100278,6100389,
H2BC5NM_001046246chrV-885300188533148853005885331418853001,8853314,
Gspt2NM_001109319chrV-11110453111122351111045311112235411110453,11111112,11111580,11111905,11110546,11111457,11111847,11112235,
gnpda2NM_001102854chrIII+13389499133907041338949913390704413389499,13389834,13390073,13390410,13389631,13390023,13390076,13390704,
isoc2.SNM_001095229chrIV-12208320122085391220832012208539112208320,12208539,

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