Schema for sangerGene
  Database: ce2    Primary Table: sangerGene    Row Count: 23,076   Data last updated: 2004-05-20
Format description: GenePred table with proteinID field for WormBase Genes.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
name Y74C9A.6varchar(255) values Name of gene
chrom chrIvarchar(255) values Reference sequence chromosome or scaffold
strand -char(1) values + or - for strand
txStart 3781int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 3904int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 0int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 0int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 1int(10) unsigned range Number of exons
exonStarts 3781,longblob   Exon start positions (or end positions for minus strand item)
exonEnds 3904,longblob   Exon end positions (or start positions for minus strand item)
proteinID  varchar(40) values Swiss-Prot protein ID

Connected Tables and Joining Fields
        ce2.dmBlastTab.query (via sangerGene.name)
      ce2.hgBlastTab.query (via sangerGene.name)
      ce2.kimExpDistance.query (via sangerGene.name)
      ce2.kimExpDistance.target (via sangerGene.name)
      ce2.orfToGene.name (via sangerGene.name)
      ce2.sangerBlastTab.query (via sangerGene.name)
      ce2.sangerBlastTab.target (via sangerGene.name)
      ce2.sangerCanonical.transcript (via sangerGene.name)
      ce2.sangerIsoforms.transcript (via sangerGene.name)
      ce2.sangerLinks.orfName (via sangerGene.name)
      ce2.sangerPep.name (via sangerGene.name)
      ce2.sangerToKim.name (via sangerGene.name)
      ce2.sangerToPfam.name (via sangerGene.name)
      ce2.sangerToRefSeq.name (via sangerGene.name)
      ce2.sangerCanonical.protein (via sangerGene.proteinID)
      ce2.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.6chrI-378139040013781,3904,
Y74C9A.3chrI-42201014842201014854220,5194,6036,9726,10094,4358,5296,6327,9846,10148,Q9N4D9
Y74C9A.2chrI+11640165851164016585311640,14950,16472,11689,15160,16585,Q9N4D8
Y74C9A.4achrI-179102677817910267781217910,18005,19014,20270,20847,21012,24650,24928,25272,26370,26589,26732,17958,18115,19241,20478,20964,21139,24845,25090,25472,26524,26681,26778,Q9N4D7
Y74C9A.4bchrI-179102677817910267781217910,18005,19014,20270,20847,21012,24650,24928,25272,26370,26589,26732,17958,18115,19241,20478,20964,21139,24845,25090,25472,26524,26690,26778,Q95Y41
Y74C9A.5chrI-28279349052827934905828279,28915,29099,29768,31768,32411,32598,34694,28405,29026,29367,30424,32072,32542,32765,34905,NULL
Y74C9A.1chrI+43732446774373244677543732,44029,44280,44371,44520,43961,44234,44324,44468,44677,Q9N4D5
Y48G1C.4chrI+49920543604992054360749920,50814,52282,52465,53265,53390,53943,50016,51030,52410,52572,53337,53695,54360,Q9BL79
Y48G1C.5chrI-553366402155336640211055336,55889,56123,56536,56871,59044,62773,63796,63903,64017,55450,56047,56293,56687,57053,60236,62974,63856,63972,64021,Q9BL78
Y48G1C.2chrI+726488034472648803441072648,72940,73604,74624,75170,75950,76948,77712,79312,80305,72897,73017,73766,74808,75490,76112,77153,77799,79447,80344,Q9BL77

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