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Schema for knownGenePep
  Database: rn3    Primary Table: knownGenePep    Row Count: 7,528   Data last updated: 2004-03-24
Format description: A predicted peptide - linked to a predicted gene.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
name AB000098varchar(255) values Name of gene - same as in genePred
seq MAVSLLLRGGRIRALKAALLEAKVFRG...longblob   Peptide sequence

Connected Tables and Joining Fields
        knownGeneV39.bioCycPathway.kgID (via knownGenePep.name)
      knownGeneV39.ceBlastTab.query (via knownGenePep.name)
      knownGeneV39.dmBlastTab.query (via knownGenePep.name)
      knownGeneV39.drBlastTab.query (via knownGenePep.name)
      knownGeneV39.foldUtr3.name (via knownGenePep.name)
      knownGeneV39.foldUtr5.name (via knownGenePep.name)
      knownGeneV39.gnfAtlas2Distance.query (via knownGenePep.name)
      knownGeneV39.gnfAtlas2Distance.target (via knownGenePep.name)
      knownGeneV39.kgAlias.kgID (via knownGenePep.name)
      knownGeneV39.kgColor.kgID (via knownGenePep.name)
      knownGeneV39.kgProtAlias.kgID (via knownGenePep.name)
      knownGeneV39.kgSpAlias.kgID (via knownGenePep.name)
      knownGeneV39.kgTargetAli.qName (via knownGenePep.name)
      knownGeneV39.kgXref.kgID (via knownGenePep.name)
      knownGeneV39.knownAttrs.kgID (via knownGenePep.name)
      knownGeneV39.knownBlastTab.query (via knownGenePep.name)
      knownGeneV39.knownBlastTab.target (via knownGenePep.name)
      knownGeneV39.knownCanonical.protein (via knownGenePep.name)
      knownGeneV39.knownCanonical.transcript (via knownGenePep.name)
      knownGeneV39.knownCds.name (via knownGenePep.name)
      knownGeneV39.knownGene.name (via knownGenePep.name)
      knownGeneV39.knownGeneMrna.name (via knownGenePep.name)
      knownGeneV39.knownGenePep.name (via knownGenePep.name)
      knownGeneV39.knownIsoforms.transcript (via knownGenePep.name)
      knownGeneV39.knownToEnsembl.name (via knownGenePep.name)
      knownGeneV39.knownToGnfAtlas2.name (via knownGenePep.name)
      knownGeneV39.knownToHprd.name (via knownGenePep.name)
      knownGeneV39.knownToLocusLink.name (via knownGenePep.name)
      knownGeneV39.knownToMrna.name (via knownGenePep.name)
      knownGeneV39.knownToMrnaSingle.name (via knownGenePep.name)
      knownGeneV39.knownToMupit.name (via knownGenePep.name)
      knownGeneV39.knownToPfam.name (via knownGenePep.name)
      knownGeneV39.knownToRefSeq.name (via knownGenePep.name)
      knownGeneV39.knownToSuper.gene (via knownGenePep.name)
      knownGeneV39.knownToTag.name (via knownGenePep.name)
      knownGeneV39.knownToU133.name (via knownGenePep.name)
      knownGeneV39.knownToU95.name (via knownGenePep.name)
      knownGeneV39.knownToVisiGene.name (via knownGenePep.name)
      knownGeneV39.knownToWikipedia.name (via knownGenePep.name)
      knownGeneV39.mmBlastTab.query (via knownGenePep.name)
      knownGeneV39.rnBlastTab.query (via knownGenePep.name)
      knownGeneV39.scBlastTab.query (via knownGenePep.name)
      knownGeneV39.ucscScop.ucscId (via knownGenePep.name)
      rn3.dmBlastTab.query (via knownGenePep.name)
      rn3.drBlastTab.query (via knownGenePep.name)
      rn3.dupSpMrna.mrnaID (via knownGenePep.name)
      rn3.gnfAtlas2Distance.query (via knownGenePep.name)
      rn3.gnfAtlas2Distance.target (via knownGenePep.name)
      rn3.hgBlastTab.query (via knownGenePep.name)
      rn3.keggPathway.kgID (via knownGenePep.name)
      rn3.kgAlias.kgID (via knownGenePep.name)
      rn3.kgProtAlias.kgID (via knownGenePep.name)
      rn3.kgSpAlias.kgID (via knownGenePep.name)
      rn3.kgXref.kgID (via knownGenePep.name)
      rn3.knownBlastTab.query (via knownGenePep.name)
      rn3.knownBlastTab.target (via knownGenePep.name)
      rn3.knownCanonical.transcript (via knownGenePep.name)
      rn3.knownGene.name (via knownGenePep.name)
      rn3.knownGeneLink.name (via knownGenePep.name)
      rn3.knownGeneMrna.name (via knownGenePep.name)
      rn3.knownIsoforms.transcript (via knownGenePep.name)
      rn3.knownToEnsembl.name (via knownGenePep.name)
      rn3.knownToGnfAtlas2.name (via knownGenePep.name)
      rn3.knownToLocusLink.name (via knownGenePep.name)
      rn3.knownToPfam.name (via knownGenePep.name)
      rn3.knownToRefSeq.name (via knownGenePep.name)
      rn3.knownToSuper.gene (via knownGenePep.name)
      rn3.scBlastTab.query (via knownGenePep.name)

Sample Rows
 
nameseq
AB000098MAVSLLLRGGRIRALKAALLEAKVFRGELASTVPLSTESENNKKAAGPTSKTESVFKDVVGAEERAKLLDTHTAAALSKSSPPPSSYPSVENTGGAVAGLPLTDLSRKTLVAFPQKVTPPPHAWASDS ...
AB000107MELPLSQHSFCKLLLLVVSSLLLWEKAASIPACLAEEGGCWNPLVETFNSAIHKAETLYDLANQIHVELYQNKFSSEQFSSLNSQVIRKDKTALRAGSYCHSTLINTPNKENEHINIEIKEYVKTLIN ...
AB000113MLWQALRRFGQKLVRRRLLELGMGETRLARCLSTLDLVALGVGSTLGAGVYVLAGEVAKEKAGPSIVICFLVAALSSVLAGLCYAEFGARVPGSGSAYLYSYVTVGELWAFTTGWNLILSYVIGTASV ...
AB000199MADSAQVPALVYLVTGGCGFLGEHIVRMLLEWEPRLRELRVFDLHLSSWLEELKTGPVQVTAIQGDVTQAHEVAAAMAGSHVVIHTAGLVDVFGKASPETIHKVNVQGTQNVIDACVQTGTRLLVYTS ...
AB000215MVLYTTPFPNSCLSALHAVSWALIFPCYWLVDRLVASFIPTTYEKRQRADDPCYLQLFCTVLFTPVYLALLVAALPFAFLGFIFWSPLQSARRPYSYSRLEDKSPAGGAALLSEWKGTGAGKSFCFAT ...
AB000216MAGTYSSTLKTLEDLTLDSGYGAGDSCRSLSLSSSKSNSQALNSSAPQHRGAAWWCYSGSMNSRHNSWDTVNTVLPEDPEVADLFSRCPRLPELEEFPWTEGDVARVLRKSVGGRRLPSFSAEAVRRL ...
AB000280MEGERAPLLGSRRAAAAAGVFAGRRAACGAVLLAELLERAAFYGVTANLVLFLNGAPFNWEGAQASQALLLFMGLTYLGSPFGGWLADARLGRARAILLSLALYLLGMLAFPLLAAPRSRSFLCGDPH ...
AB000362MASDEGKLFVGGLSFDTNEQALEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQAGKSSDNRSRGYRGGSAGGRGFFRGGRSRGRGFSRGGGDRGYGGGRF ...
AB000489MASTLAPITSTLAAVTASAPPKYDNLWMLILGFIIAFVLAFSVGANDVANSFGTAVGSGVVTLKQACILASIFETVGSALLGAKVSETIRKGLIDVEKYNATQDLLMAGSVSAMFGSAVWQLVASFLK ...
AB000491MALDGPEQMELEEGKAGSGLRQYYLSKIEELQLIVNDKSQNLRRLQAQRNELNAKVRLLREELQLLQEQGSYVGEVVRAMDKKKVLVKVHPEGKFVVDVDKNIDINDVTPNCRVALRNDSYTLHKILP ...

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