Skip to main content
Schema for knownGeneMrna
  Database: mm9    Primary Table: knownGeneMrna    Row Count: 55,419   Data last updated: 2011-03-03
Format description: The mRNA sequence that represents each UCSC Genes transcript.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
name uc007aet.1varchar(255) values Name of gene
seq ttagttaagagcactgactgctcttgc...longblob   mRNA sequence

Connected Tables and Joining Fields
        knownGeneV39.bioCycPathway.kgID (via knownGeneMrna.name)
      knownGeneV39.ceBlastTab.query (via knownGeneMrna.name)
      knownGeneV39.dmBlastTab.query (via knownGeneMrna.name)
      knownGeneV39.drBlastTab.query (via knownGeneMrna.name)
      knownGeneV39.foldUtr3.name (via knownGeneMrna.name)
      knownGeneV39.foldUtr5.name (via knownGeneMrna.name)
      knownGeneV39.gnfAtlas2Distance.query (via knownGeneMrna.name)
      knownGeneV39.gnfAtlas2Distance.target (via knownGeneMrna.name)
      knownGeneV39.kgAlias.kgID (via knownGeneMrna.name)
      knownGeneV39.kgColor.kgID (via knownGeneMrna.name)
      knownGeneV39.kgProtAlias.kgID (via knownGeneMrna.name)
      knownGeneV39.kgSpAlias.kgID (via knownGeneMrna.name)
      knownGeneV39.kgTargetAli.qName (via knownGeneMrna.name)
      knownGeneV39.kgXref.kgID (via knownGeneMrna.name)
      knownGeneV39.knownAttrs.kgID (via knownGeneMrna.name)
      knownGeneV39.knownBlastTab.query (via knownGeneMrna.name)
      knownGeneV39.knownBlastTab.target (via knownGeneMrna.name)
      knownGeneV39.knownCanonical.protein (via knownGeneMrna.name)
      knownGeneV39.knownCanonical.transcript (via knownGeneMrna.name)
      knownGeneV39.knownCds.name (via knownGeneMrna.name)
      knownGeneV39.knownGene.name (via knownGeneMrna.name)
      knownGeneV39.knownGeneMrna.name (via knownGeneMrna.name)
      knownGeneV39.knownGenePep.name (via knownGeneMrna.name)
      knownGeneV39.knownIsoforms.transcript (via knownGeneMrna.name)
      knownGeneV39.knownToEnsembl.name (via knownGeneMrna.name)
      knownGeneV39.knownToGnfAtlas2.name (via knownGeneMrna.name)
      knownGeneV39.knownToHprd.name (via knownGeneMrna.name)
      knownGeneV39.knownToLocusLink.name (via knownGeneMrna.name)
      knownGeneV39.knownToMrna.name (via knownGeneMrna.name)
      knownGeneV39.knownToMrnaSingle.name (via knownGeneMrna.name)
      knownGeneV39.knownToMupit.name (via knownGeneMrna.name)
      knownGeneV39.knownToPfam.name (via knownGeneMrna.name)
      knownGeneV39.knownToRefSeq.name (via knownGeneMrna.name)
      knownGeneV39.knownToSuper.gene (via knownGeneMrna.name)
      knownGeneV39.knownToTag.name (via knownGeneMrna.name)
      knownGeneV39.knownToU133.name (via knownGeneMrna.name)
      knownGeneV39.knownToU95.name (via knownGeneMrna.name)
      knownGeneV39.knownToVisiGene.name (via knownGeneMrna.name)
      knownGeneV39.knownToWikipedia.name (via knownGeneMrna.name)
      knownGeneV39.mmBlastTab.query (via knownGeneMrna.name)
      knownGeneV39.rnBlastTab.query (via knownGeneMrna.name)
      knownGeneV39.scBlastTab.query (via knownGeneMrna.name)
      knownGeneV39.ucscScop.ucscId (via knownGeneMrna.name)
      mm9.affyGnfU74ADistance.query (via knownGeneMrna.name)
      mm9.affyGnfU74ADistance.target (via knownGeneMrna.name)
      mm9.affyGnfU74BDistance.query (via knownGeneMrna.name)
      mm9.affyGnfU74BDistance.target (via knownGeneMrna.name)
      mm9.affyGnfU74CDistance.query (via knownGeneMrna.name)
      mm9.affyGnfU74CDistance.target (via knownGeneMrna.name)
      mm9.bioCycPathway.kgID (via knownGeneMrna.name)
      mm9.ccdsKgMap.geneId (via knownGeneMrna.name)
      mm9.ceBlastTab.query (via knownGeneMrna.name)
      mm9.dmBlastTab.query (via knownGeneMrna.name)
      mm9.drBlastTab.query (via knownGeneMrna.name)
      mm9.foldUtr3.name (via knownGeneMrna.name)
      mm9.foldUtr5.name (via knownGeneMrna.name)
      mm9.gnfAtlas2Distance.query (via knownGeneMrna.name)
      mm9.gnfAtlas2Distance.target (via knownGeneMrna.name)
      mm9.hgBlastTab.query (via knownGeneMrna.name)
      mm9.keggPathway.kgID (via knownGeneMrna.name)
      mm9.kgAlias.kgID (via knownGeneMrna.name)
      mm9.kgColor.kgID (via knownGeneMrna.name)
      mm9.kgProtAlias.kgID (via knownGeneMrna.name)
      mm9.kgProtMap2.qName (via knownGeneMrna.name)
      mm9.kgSpAlias.kgID (via knownGeneMrna.name)
      mm9.kgTargetAli.qName (via knownGeneMrna.name)
      mm9.kgTxInfo.name (via knownGeneMrna.name)
      mm9.kgXref.kgID (via knownGeneMrna.name)
      mm9.knownBlastTab.query (via knownGeneMrna.name)
      mm9.knownBlastTab.target (via knownGeneMrna.name)
      mm9.knownCanonical.protein (via knownGeneMrna.name)
      mm9.knownCanonical.transcript (via knownGeneMrna.name)
      mm9.knownGene.name (via knownGeneMrna.name)
      mm9.knownGenePep.name (via knownGeneMrna.name)
      mm9.knownIsoforms.transcript (via knownGeneMrna.name)
      mm9.knownToAllenBrain.name (via knownGeneMrna.name)
      mm9.knownToEnsembl.name (via knownGeneMrna.name)
      mm9.knownToGnfAtlas2.name (via knownGeneMrna.name)
      mm9.knownToKeggEntrez.name (via knownGeneMrna.name)
      mm9.knownToLocusLink.name (via knownGeneMrna.name)
      mm9.knownToPfam.name (via knownGeneMrna.name)
      mm9.knownToRefSeq.name (via knownGeneMrna.name)
      mm9.knownToSuper.gene (via knownGeneMrna.name)
      mm9.knownToVisiGene.name (via knownGeneMrna.name)
      mm9.rnBlastTab.query (via knownGeneMrna.name)
      mm9.scBlastTab.query (via knownGeneMrna.name)
      mm9.ucscScop.ucscId (via knownGeneMrna.name)

Sample Rows
 
nameseq
uc007aet.1ttagttaagagcactgactgctcttgcaaaggacccaggcttgagtagttcactgcaactctaattccagaagatctaatgtccatttttggcctcctcaagcactgcacacacatggtgcatagaca ...
uc007aeu.1gcggcggcgggcgagcgggcgctggagtaggagctggggagcggcgcggccggggaaggaagccagggcgaggcgaggaggtggcgggaggaggagacagcagggacaggtgtcagataaaggagtgc ...
uc007aev.1agttggttcggtccttctaactttatatggcttccagggattgaactcaggtcaacaggaactctggtcagtgctaacatgatgcctgtccagtattacagtaggtgttatgcaggagaagttttctg ...
uc007aew.1aagctcagcctttgctcagattctcctcttgatgaaacaaagggatttctgcacatgcttgagaaattgcaggtctcacccaaaatgagtgacacaccttctactagtttctccatgattcatctgac ...
uc007aex.2aataaatccaaagacatttgtttacgtgaaacaagcaggttgcatatccagtgacgtttatacagaccacacaaactatttactcttttcttcgtaaggaaaggttcaacttctggtctcacccaaaa ...
uc007aey.1ggggcgggtgtgggacttgggactcggaccactggctgggcgggggcctaaggactagggtccggtccgcccccgcctcgccattggccgcgtccataaagaaaagggccccgcggcccggggggaca ...
uc007aez.1cccatttagtgaagaaactgaaatatggcccactcacactgctggcgggtctgaagtgcggttggccccaacactcctcccaaagtatctatcaagagaatggtcagcagaagttagatctagttttt ...
uc007afa.1cccatttagtgaagaaactgaaatatggcccactcacactgctggcgggtctgaagtgcggttggccccaacactcctcccaaagtatctatcaagagaatggtcagcagaagttagatctagttttt ...
uc007afb.1cccatttagtgaagaaactgaaatatggcccactcacactgctggcgggtctgaagtgcggttggccccaacactcctcccaaagtatctatcaagagaatggtcagcagaagttagatctagtgagc ...
uc007afc.1cccatttagtgaagaaactgaaatatggcccactcacactgctggcgggtctgaagtgcggttggccccaacactcctcccaaagtatctatcaagagaatggtcagcagaagttagatctagtgagc ...

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