Schema for ensGene
  Database: otoGar3    Primary Table: ensGene    Row Count: 28,565   Data last updated: 2021-05-25
Format description: A gene prediction with some additional info.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 585smallint(5) unsigned range Indexing field to speed chromosome range queries.
name ENSOGAT00000025923.1varchar(255) values Name of gene (usually transcript_id from GTF)
chrom AAQR03191568varchar(255) values Reference sequence chromosome or scaffold
strand -char(1) values + or - for strand
txStart 3357int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 3768int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 3357int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 3768int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 1int(10) unsigned range Number of exons
exonStarts 3357,longblob   Exon start positions (or end positions for minus strand item)
exonEnds 3768,longblob   Exon end positions (or start positions for minus strand item)
score 0int(11) range score
name2 ENSOGAG00000029164.1varchar(255) values Alternate name (e.g. gene_id from GTF)
cdsStartStat cmplenum('none', 'unk', 'incmpl', 'cmpl') values Status of CDS start annotation (none, unknown, incomplete, or complete)
cdsEndStat cmplenum('none', 'unk', 'incmpl', 'cmpl') values Status of CDS end annotation (none, unknown, incomplete, or complete)
exonFrames 0,longblob   Reading frame of the start of the CDS region of the exon, in the direction of transcription (0,1,2), or -1 if there is no CDS region.

Connected Tables and Joining Fields
        knownGeneV39.knownToEnsembl.value (via ensGene.name)
      otoGar3.ensGtp.transcript (via ensGene.name)
      otoGar3.ensPep.name (via ensGene.name)
      otoGar3.ensemblSource.name (via ensGene.name)
      otoGar3.ensemblToGeneName.name (via ensGene.name)

Sample Rows
 
binnamechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEndsscorename2cdsStartStatcdsEndStatexonFrames
585ENSOGAT00000025923.1AAQR03191568-335737683357376813357,3768,0ENSOGAG00000029164.1cmplcmpl0,
585ENSOGAT00000024106.1AAQR03191568-415352394153523924153,4850,4202,5239,0ENSOGAG00000029978.1incmplcmpl2,0,
585ENSOGAT00000034367.1AAQR03191568+559059715590597115590,5971,0ENSOGAG00000028067.1cmplcmpl0,
585ENSOGAT00000033896.1AAQR03191568-12320127011232012701112320,12701,0ENSOGAG00000032631.1cmplcmpl0,
585ENSOGAT00000030696.1AAQR03191568+13052141381305214138213052,14089,13441,14138,0ENSOGAG00000030176.1cmplincmpl0,2,
585ENSOGAT00000034094.1AAQR03191568+14523149341452314934114523,14934,0ENSOGAG00000028032.1cmplcmpl0,
585ENSOGAT00000012717.2AAQR03191595+15722177741572217774515722,16565,16799,17364,17750,15909,16670,16853,17516,17774,0ENSOGAG00000012714.2cmplincmpl0,1,1,1,0,
585ENSOGAT00000008990.2AAQR03191690-589896695898966985898,6027,7240,7973,8441,9023,9158,9623,5947,6171,7353,8125,8827,9126,9281,9669,0ENSOGAG00000008986.2incmplcmpl2,2,0,1,2,1,1,0,
585ENSOGAT00000032614.1AAQR03191862-603469796034697916034,6979,0ENSOGAG00000031074.1cmplcmpl0,
585ENSOGAT00000011884.2AAQR03191958-611024611024161,1024,0ENSOGAG00000029330.1cmplcmpl0,

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