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Schema for knownGeneTxPep
  Database: hg19    Primary Table: knownGeneTxPep    Row Count: 63,691   Data last updated: 2013-06-14
Format description: A predicted peptide - linked to a predicted gene.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
name uc010nxq.1varchar(255) values Name of gene - same as in genePred
seq MSESINFSHNLGQLLSPPRCVVMPGMP...longblob   Peptide sequence

Connected Tables and Joining Fields
        hg19.bioCycPathway.kgID (via knownGeneTxPep.name)
      hg19.ceBlastTab.query (via knownGeneTxPep.name)
      hg19.dmBlastTab.query (via knownGeneTxPep.name)
      hg19.drBlastTab.query (via knownGeneTxPep.name)
      hg19.foldUtr3.name (via knownGeneTxPep.name)
      hg19.foldUtr5.name (via knownGeneTxPep.name)
      hg19.gnfAtlas2Distance.query (via knownGeneTxPep.name)
      hg19.gnfAtlas2Distance.target (via knownGeneTxPep.name)
      hg19.gnfU95Distance.query (via knownGeneTxPep.name)
      hg19.gnfU95Distance.target (via knownGeneTxPep.name)
      hg19.humanHprdP2P.query (via knownGeneTxPep.name)
      hg19.humanHprdP2P.target (via knownGeneTxPep.name)
      hg19.humanVidalP2P.query (via knownGeneTxPep.name)
      hg19.humanVidalP2P.target (via knownGeneTxPep.name)
      hg19.humanWankerP2P.query (via knownGeneTxPep.name)
      hg19.humanWankerP2P.target (via knownGeneTxPep.name)
      hg19.keggPathway.kgID (via knownGeneTxPep.name)
      hg19.kgAlias.kgID (via knownGeneTxPep.name)
      hg19.kgColor.kgID (via knownGeneTxPep.name)
      hg19.kgProtAlias.kgID (via knownGeneTxPep.name)
      hg19.kgProtMap2.qName (via knownGeneTxPep.name)
      hg19.kgSpAlias.kgID (via knownGeneTxPep.name)
      hg19.kgTargetAli.qName (via knownGeneTxPep.name)
      hg19.kgTxInfo.name (via knownGeneTxPep.name)
      hg19.kgXref.kgID (via knownGeneTxPep.name)
      hg19.knownAttrs.kgID (via knownGeneTxPep.name)
      hg19.knownBlastTab.query (via knownGeneTxPep.name)
      hg19.knownBlastTab.target (via knownGeneTxPep.name)
      hg19.knownCanonical.transcript (via knownGeneTxPep.name)
      hg19.knownCds.name (via knownGeneTxPep.name)
      hg19.knownGene.name (via knownGeneTxPep.name)
      hg19.knownGeneMrna.name (via knownGeneTxPep.name)
      hg19.knownGenePep.name (via knownGeneTxPep.name)
      hg19.knownGeneTxMrna.name (via knownGeneTxPep.name)
      hg19.knownIsoforms.transcript (via knownGeneTxPep.name)
      hg19.knownToAllenBrain.name (via knownGeneTxPep.name)
      hg19.knownToEnsembl.name (via knownGeneTxPep.name)
      hg19.knownToGnfAtlas2.name (via knownGeneTxPep.name)
      hg19.knownToHInv.name (via knownGeneTxPep.name)
      hg19.knownToHprd.name (via knownGeneTxPep.name)
      hg19.knownToKeggEntrez.name (via knownGeneTxPep.name)
      hg19.knownToLocusLink.name (via knownGeneTxPep.name)
      hg19.knownToLynx.name (via knownGeneTxPep.name)
      hg19.knownToMrna.name (via knownGeneTxPep.name)
      hg19.knownToMrnaSingle.name (via knownGeneTxPep.name)
      hg19.knownToMupit.name (via knownGeneTxPep.name)
      hg19.knownToNextProt.name (via knownGeneTxPep.name)
      hg19.knownToPfam.name (via knownGeneTxPep.name)
      hg19.knownToRefSeq.name (via knownGeneTxPep.name)
      hg19.knownToSuper.gene (via knownGeneTxPep.name)
      hg19.knownToTag.name (via knownGeneTxPep.name)
      hg19.knownToTreefam.name (via knownGeneTxPep.name)
      hg19.knownToU133.name (via knownGeneTxPep.name)
      hg19.knownToU133Plus2.name (via knownGeneTxPep.name)
      hg19.knownToU95.name (via knownGeneTxPep.name)
      hg19.knownToVisiGene.name (via knownGeneTxPep.name)
      hg19.knownToWikipedia.name (via knownGeneTxPep.name)
      hg19.mmBlastTab.query (via knownGeneTxPep.name)
      hg19.rnBlastTab.query (via knownGeneTxPep.name)
      hg19.scBlastTab.query (via knownGeneTxPep.name)
      hg19.ucscScop.ucscId (via knownGeneTxPep.name)
      knownGeneV39.bioCycPathway.kgID (via knownGeneTxPep.name)
      knownGeneV39.ceBlastTab.query (via knownGeneTxPep.name)
      knownGeneV39.dmBlastTab.query (via knownGeneTxPep.name)
      knownGeneV39.drBlastTab.query (via knownGeneTxPep.name)
      knownGeneV39.foldUtr3.name (via knownGeneTxPep.name)
      knownGeneV39.foldUtr5.name (via knownGeneTxPep.name)
      knownGeneV39.gnfAtlas2Distance.query (via knownGeneTxPep.name)
      knownGeneV39.gnfAtlas2Distance.target (via knownGeneTxPep.name)
      knownGeneV39.kgAlias.kgID (via knownGeneTxPep.name)
      knownGeneV39.kgColor.kgID (via knownGeneTxPep.name)
      knownGeneV39.kgProtAlias.kgID (via knownGeneTxPep.name)
      knownGeneV39.kgSpAlias.kgID (via knownGeneTxPep.name)
      knownGeneV39.kgTargetAli.qName (via knownGeneTxPep.name)
      knownGeneV39.kgXref.kgID (via knownGeneTxPep.name)
      knownGeneV39.knownAttrs.kgID (via knownGeneTxPep.name)
      knownGeneV39.knownBlastTab.query (via knownGeneTxPep.name)
      knownGeneV39.knownBlastTab.target (via knownGeneTxPep.name)
      knownGeneV39.knownCanonical.protein (via knownGeneTxPep.name)
      knownGeneV39.knownCanonical.transcript (via knownGeneTxPep.name)
      knownGeneV39.knownCds.name (via knownGeneTxPep.name)
      knownGeneV39.knownGene.name (via knownGeneTxPep.name)
      knownGeneV39.knownGeneMrna.name (via knownGeneTxPep.name)
      knownGeneV39.knownGenePep.name (via knownGeneTxPep.name)
      knownGeneV39.knownIsoforms.transcript (via knownGeneTxPep.name)
      knownGeneV39.knownToEnsembl.name (via knownGeneTxPep.name)
      knownGeneV39.knownToGnfAtlas2.name (via knownGeneTxPep.name)
      knownGeneV39.knownToHprd.name (via knownGeneTxPep.name)
      knownGeneV39.knownToLocusLink.name (via knownGeneTxPep.name)
      knownGeneV39.knownToMrna.name (via knownGeneTxPep.name)
      knownGeneV39.knownToMrnaSingle.name (via knownGeneTxPep.name)
      knownGeneV39.knownToMupit.name (via knownGeneTxPep.name)
      knownGeneV39.knownToPfam.name (via knownGeneTxPep.name)
      knownGeneV39.knownToRefSeq.name (via knownGeneTxPep.name)
      knownGeneV39.knownToSuper.gene (via knownGeneTxPep.name)
      knownGeneV39.knownToTag.name (via knownGeneTxPep.name)
      knownGeneV39.knownToU133.name (via knownGeneTxPep.name)
      knownGeneV39.knownToU95.name (via knownGeneTxPep.name)
      knownGeneV39.knownToVisiGene.name (via knownGeneTxPep.name)
      knownGeneV39.knownToWikipedia.name (via knownGeneTxPep.name)
      knownGeneV39.mmBlastTab.query (via knownGeneTxPep.name)
      knownGeneV39.rnBlastTab.query (via knownGeneTxPep.name)
      knownGeneV39.scBlastTab.query (via knownGeneTxPep.name)
      knownGeneV39.ucscScop.ucscId (via knownGeneTxPep.name)

Sample Rows
 
nameseq
uc010nxq.1MSESINFSHNLGQLLSPPRCVVMPGMPFPSIRSPELQKTTADLDHTLVSVPSVAESLHHPEITFLTAFCLPSFTRSRPLPDRQLHHCLALCPSFALPAGDGVCHGPGLQGSCYKGETQESVESRVLPG ...
uc001aal.1MVTEFIFLGLSDSQELQTFLFMLFFVFYGGIVFGNLLIVITVVSDSHLHSPMYFLLANLSLIDLSLSSVTAPKMITDFFSQRKVISFKGCLVQIFLLHFFGGSEMVILIAMGFDRYIAICKPLHYTTI ...
uc021oeg.2MLLPPGSLSRPRTFSSQPLQTKLMTLNGLFRPIPYVTAASADEATASQQPPQAQLHRYNGLFRPSSCLPAFSPGPELSQVDLTRPSSCFFAASPGPAPASWWPLQAQPLPPVSLYSPNVCLTADSSRP ...
uc009vjk.2MLLPPGSLSRPRTFSSQPLQTKLMTHNGLFRPIPYVTAASADEATASQQPPQAQLHRYNGLFRPSSCLPAFSPGPELSQVDLTRPSSCFFAASPGPAPASWWPLQAQPLPPVGLCSPNVCLTADSSRP ...
uc001aau.3MLLPPGSLSRPRTFSSQPLQTKLMTHNGLFRPIPYVTAASADEATASQQPPQAQLHRYNGLFRPSSCLPAFSPGPELSQVDLTRPSSCFFAASPGPAPASWWPLQAQPLPPVGLCSPNVCLTADSSRP ...
uc021oeh.1MAYLGPYPTSRQPPQMRLLPHNSLHRHSSIVTMASLDPAPASQPSLQALNFLKSTSPGPAPASWWPLQAQPLPPVGLCSPNVCLTADSSRPASTSLWTPQAKLPTFQQLLHTQLLPPSGLFRPSSCFT ...
uc021oei.1MASGRWAPLGPAWASRRPPQAQIVPKSVSPGLAPASRRPLQAQVVLKSAWKWAWKSSKSASLGPAPSSRRPLQVQNFLESASPGPAPPASQWPLSAQPSSWLSAAFPGPAFDFWQPLQAQNLISSRPL ...
uc010nxu.2MDGENHSVVSEFLFLGLTHSWEIQLLLLVFSSVLYVASITGNILIVFSVTTDPHLHSPMYFLLASLSFIDLGACSVTSPKMIYDLFRKRKVISFGGCIAQIFFIHVVGGVEMVLLIAMAFDRYVALCK ...
uc010nxv.2MDGENHSVVSEFLFLGLTHSWEIQLLLLVFSSVLYVASITGNILIVFSVTTDPHLHSPMYFLLASLSFIDLGACSVTSPKMIYDLFRKRKVISFGGCIAQIFFIHVVGGVEMVLLIAMAFDRYVALCK ...
uc001abe.4MAYLGPYPMSRQPPQMRLLPHNSLHRHSSIVTMASLDPAPASQPSLQALNFLKSTSPGPAHASLQPLQAQLLHLGGPSRPSLCLPSASTVPKSASQQILHAQHLPHCGPPKPSSQPFSSFYTPSSCHP ...

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