Schema for xenoRefFlat
  Database: ce2    Primary Table: xenoRefFlat    Row Count: 33,808   Data last updated: 2020-08-21
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
geneName Cdk5varchar(255) values Name of gene as it appears in genome browser.
name NM_057732varchar(255) values Name of gene
chrom chrIIIvarchar(255) values Reference sequence chromosome or scaffold
strand -char(1) values + or - for strand
txStart 13465136int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 13465813int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 13465136int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 13465807int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 3int(10) unsigned range Number of exons
exonStarts 13465136,13465634,13465770,longblob   Exon start positions (or end positions for minus strand item)
exonEnds 13465589,13465723,13465813,longblob   Exon end positions (or start positions for minus strand item)

Connected Tables and Joining Fields
        ce2.xenoRefGene.name (via xenoRefFlat.name)
      ce2.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
Cdk5NM_057732chrIII-13465136134658131346513613465807313465136,13465634,13465770,13465589,13465723,13465813,
ALDH6B1NM_001368739chrII+11729518117308811172951811730881311729518,11730074,11730578,11730004,11730260,11730881,
LOC107863089NM_001324851chrII-735036973523197350369735231957350369,7350993,7351087,7351385,7352217,7350972,7351041,7351177,7351892,7352319,
DHX15NM_001031159chrIII-558927855913975589278559139765589278,5589385,5589393,5589816,5591214,5591301,5589338,5589386,5589749,5591181,5591268,5591397,
LOC107793898NM_001325569chrX-995326299544249953262995442449953262,9953586,9953809,9954376,9953541,9953655,9953932,9954424,
CHR11NM_111515chrIII-670766267093506707662670935056707662,6707833,6708686,6709191,6709269,6707821,6708409,6708959,6709221,6709350,
PHB3NM_123442chrI+207143520722732071435207227322071435,2071991,2071756,2072273,
Actr1bNM_001039028chrII+15120200151229501512020015122950415120200,15120369,15121845,15122671,15120288,15120801,15121893,15122950,
Spt-INM_165967chrII+52055570005205557000452055,52216,56814,56895,52140,52527,56838,57000,
rab8NM_001123503chrI-368338936839843683389368398433683389,3683721,3683829,3683662,3683782,3683984,

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