Schema for sangerGene
  Database: ce4    Primary Table: sangerGene    Row Count: 30,497   Data last updated: 2007-07-26
Format description: GenePred table with proteinID field for WormBase Genes.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
name Y74C9A.3.1varchar(255) values Name of gene
chrom chrIvarchar(255) values Reference sequence chromosome or scaffold
strand -char(1) values + or - for strand
txStart 4131int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 10232int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 4220int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 10148int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 5int(10) unsigned range Number of exons
exonStarts 4131,5194,6036,9726,10094,longblob   Exon start positions (or end positions for minus strand item)
exonEnds 4358,5296,6327,9846,10232,longblob   Exon end positions (or start positions for minus strand item)
proteinID Q9N4D9varchar(40) values Swiss-Prot protein ID

Connected Tables and Joining Fields
        ce4.kimExpDistance.query (via sangerGene.name)
      ce4.kimExpDistance.target (via sangerGene.name)
      ce4.mmBlastTab.query (via sangerGene.name)
      ce4.orfToGene.name (via sangerGene.name)
      ce4.sangerBlastTab.query (via sangerGene.name)
      ce4.sangerBlastTab.target (via sangerGene.name)
      ce4.sangerCanonical.transcript (via sangerGene.name)
      ce4.sangerGeneToWBGeneID.sangerGene (via sangerGene.name)
      ce4.sangerIsoforms.transcript (via sangerGene.name)
      ce4.sangerLinks.orfName (via sangerGene.name)
      ce4.sangerPep.name (via sangerGene.name)
      ce4.sangerToRefSeq.name (via sangerGene.name)
      ce4.sangerCanonical.protein (via sangerGene.proteinID)
      ce4.sangerLinks.protName (via sangerGene.proteinID)
      go.goaPart.dbObjectId (via sangerGene.proteinID)
      knownGeneV39.kgProtAlias.alias (via sangerGene.proteinID)
      knownGeneV39.kgSpAlias.spID (via sangerGene.proteinID)
      knownGeneV39.kgXref.spID (via sangerGene.proteinID)
      proteome.spOldNew.acc (via sangerGene.proteinID)
      proteome.spReactomeEvent.spID (via sangerGene.proteinID)
      proteome.spReactomeId.spID (via sangerGene.proteinID)
      uniProt.accToKeyword.acc (via sangerGene.proteinID)
      uniProt.accToTaxon.acc (via sangerGene.proteinID)
      uniProt.citation.acc (via sangerGene.proteinID)
      uniProt.comment.acc (via sangerGene.proteinID)
      uniProt.description.acc (via sangerGene.proteinID)
      uniProt.displayId.acc (via sangerGene.proteinID)
      uniProt.extDbRef.acc (via sangerGene.proteinID)
      uniProt.feature.acc (via sangerGene.proteinID)
      uniProt.gene.acc (via sangerGene.proteinID)
      uniProt.geneLogic.acc (via sangerGene.proteinID)
      uniProt.info.acc (via sangerGene.proteinID)
      uniProt.otherAcc.acc (via sangerGene.proteinID)
      uniProt.protein.acc (via sangerGene.proteinID)
      visiGene.gene.uniProt (via sangerGene.proteinID)

Sample Rows
 
namechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEndsproteinID
Y74C9A.3.1chrI-41311023242201014854131,5194,6036,9726,10094,4358,5296,6327,9846,10232,Q9N4D9
Y74C9A.3chrI-42201014842201014854220,5194,6036,9726,10094,4358,5296,6327,9846,10148,Q9N4D9
Y74C9A.3.2chrI-42201023042201014854220,5194,6036,9726,10094,4358,5296,6327,9846,10230,Q9N4D9
Y74C9A.2.3chrI+11494167931164016585511494,11617,14950,16472,16701,11561,11689,15160,16585,16793,Q9N4D8
Y74C9A.2.1chrI+11498168281164016585411498,11617,14950,16472,11561,11689,15160,16828,Q9N4D8
Y74C9A.2.4chrI+11498167901164016585411498,11617,14950,16472,11557,11689,15160,16790,Q9N4D8
Y74C9A.2.5chrI+11504167901164016585411504,11622,14950,16472,11561,11689,15160,16790,Q9N4D8
Y74C9A.2.2chrI+11615168311164016585311615,14950,16472,11689,15160,16831,Q9N4D8
Y74C9A.2.6chrI+11617168041164016585311617,14950,16472,11689,15160,16804,Q9N4D8
Y74C9A.2chrI+11640165851164016585311640,14950,16472,11689,15160,16585,Q9N4D8

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