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Schema for foldUtr5
  Database: mm7    Primary Table: foldUtr5    Row Count: 27,606   Data last updated: 2005-11-15
Format description: Info about folding of RNA into secondary structure
On download server: MariaDB table dump directory
fieldexampleSQL type info description
name AB001539varchar(255) values mRNA accession
seq AGGACGCGGUUACUUUGUGGCGGCCAU...longblob   mRNA sequence (U's instead of T's)
fold .((((..((..((((.((((((((((....longblob   Parenthesis and .'s that describe folding
energy -18.5float range Estimated free energy of folding (negative)

Connected Tables and Joining Fields
        knownGeneV39.bioCycPathway.kgID (via foldUtr5.name)
      knownGeneV39.ceBlastTab.query (via foldUtr5.name)
      knownGeneV39.dmBlastTab.query (via foldUtr5.name)
      knownGeneV39.drBlastTab.query (via foldUtr5.name)
      knownGeneV39.foldUtr3.name (via foldUtr5.name)
      knownGeneV39.foldUtr5.name (via foldUtr5.name)
      knownGeneV39.gnfAtlas2Distance.query (via foldUtr5.name)
      knownGeneV39.gnfAtlas2Distance.target (via foldUtr5.name)
      knownGeneV39.kgAlias.kgID (via foldUtr5.name)
      knownGeneV39.kgColor.kgID (via foldUtr5.name)
      knownGeneV39.kgProtAlias.kgID (via foldUtr5.name)
      knownGeneV39.kgSpAlias.kgID (via foldUtr5.name)
      knownGeneV39.kgTargetAli.qName (via foldUtr5.name)
      knownGeneV39.kgXref.kgID (via foldUtr5.name)
      knownGeneV39.knownAttrs.kgID (via foldUtr5.name)
      knownGeneV39.knownBlastTab.query (via foldUtr5.name)
      knownGeneV39.knownBlastTab.target (via foldUtr5.name)
      knownGeneV39.knownCanonical.protein (via foldUtr5.name)
      knownGeneV39.knownCanonical.transcript (via foldUtr5.name)
      knownGeneV39.knownCds.name (via foldUtr5.name)
      knownGeneV39.knownGene.name (via foldUtr5.name)
      knownGeneV39.knownGeneMrna.name (via foldUtr5.name)
      knownGeneV39.knownGenePep.name (via foldUtr5.name)
      knownGeneV39.knownIsoforms.transcript (via foldUtr5.name)
      knownGeneV39.knownToEnsembl.name (via foldUtr5.name)
      knownGeneV39.knownToGnfAtlas2.name (via foldUtr5.name)
      knownGeneV39.knownToHprd.name (via foldUtr5.name)
      knownGeneV39.knownToLocusLink.name (via foldUtr5.name)
      knownGeneV39.knownToMrna.name (via foldUtr5.name)
      knownGeneV39.knownToMrnaSingle.name (via foldUtr5.name)
      knownGeneV39.knownToMupit.name (via foldUtr5.name)
      knownGeneV39.knownToPfam.name (via foldUtr5.name)
      knownGeneV39.knownToRefSeq.name (via foldUtr5.name)
      knownGeneV39.knownToSuper.gene (via foldUtr5.name)
      knownGeneV39.knownToTag.name (via foldUtr5.name)
      knownGeneV39.knownToU133.name (via foldUtr5.name)
      knownGeneV39.knownToU95.name (via foldUtr5.name)
      knownGeneV39.knownToVisiGene.name (via foldUtr5.name)
      knownGeneV39.knownToWikipedia.name (via foldUtr5.name)
      knownGeneV39.mmBlastTab.query (via foldUtr5.name)
      knownGeneV39.rnBlastTab.query (via foldUtr5.name)
      knownGeneV39.scBlastTab.query (via foldUtr5.name)
      knownGeneV39.ucscScop.ucscId (via foldUtr5.name)
      mm7.affyGnfU74ADistance.query (via foldUtr5.name)
      mm7.affyGnfU74ADistance.target (via foldUtr5.name)
      mm7.affyGnfU74BDistance.query (via foldUtr5.name)
      mm7.affyGnfU74BDistance.target (via foldUtr5.name)
      mm7.affyGnfU74CDistance.query (via foldUtr5.name)
      mm7.affyGnfU74CDistance.target (via foldUtr5.name)
      mm7.dmBlastTab.query (via foldUtr5.name)
      mm7.drBlastTab.query (via foldUtr5.name)
      mm7.dupSpMrna.mrnaID (via foldUtr5.name)
      mm7.foldUtr3.name (via foldUtr5.name)
      mm7.gnfAtlas2Distance.query (via foldUtr5.name)
      mm7.gnfAtlas2Distance.target (via foldUtr5.name)
      mm7.hgBlastTab.query (via foldUtr5.name)
      mm7.keggPathway.kgID (via foldUtr5.name)
      mm7.kgAlias.kgID (via foldUtr5.name)
      mm7.kgProtAlias.kgID (via foldUtr5.name)
      mm7.kgSpAlias.kgID (via foldUtr5.name)
      mm7.kgXref.kgID (via foldUtr5.name)
      mm7.knownBlastTab.query (via foldUtr5.name)
      mm7.knownBlastTab.target (via foldUtr5.name)
      mm7.knownCanonical.transcript (via foldUtr5.name)
      mm7.knownGene.name (via foldUtr5.name)
      mm7.knownGeneLink.name (via foldUtr5.name)
      mm7.knownGeneMrna.name (via foldUtr5.name)
      mm7.knownGenePep.name (via foldUtr5.name)
      mm7.knownIsoforms.transcript (via foldUtr5.name)
      mm7.knownToAllenBrain.name (via foldUtr5.name)
      mm7.knownToEnsembl.name (via foldUtr5.name)
      mm7.knownToGnfAtlas2.name (via foldUtr5.name)
      mm7.knownToKeggEntrez.name (via foldUtr5.name)
      mm7.knownToLocusLink.name (via foldUtr5.name)
      mm7.knownToPfam.name (via foldUtr5.name)
      mm7.knownToRefSeq.name (via foldUtr5.name)
      mm7.knownToVisiGene.name (via foldUtr5.name)
      mm7.rnBlastTab.query (via foldUtr5.name)
      mm7.scBlastTab.query (via foldUtr5.name)

Sample Rows
 
nameseqfoldenergy
AB001539AGGACGCGGUUACUUUGUGGCGGCCAUCUCUCUGCGCAUUACCUUCUUCUGGCUGGUUCACAGGUUUCCAAGGUUCGAAG.((((..((..((((.((((((((((.......................))))))..))))))))..))...))))....-18.5
AB001926GGCAGGGGCUUCCCUCUGGCUGCUCGGCUCGCCUCAUCUCUGCUUGCCGCAGACAUCCCUGACCCUGGGGCCCCUGCGUUGGGCUGCAGGAGGCC.(((((((((((..((.((.((((((((..((.........))..)))).)).)).))..))....)))))))))))....((((......))))-39.3
AB003503CCCGGGUUCGGCUCCGAGCGGGGAUGGAAUCGCCCCCGCAGCC..((((......)))).((((((.((....)).))))))....-16.8
AB004048UAGACCUCGGCGAACCCUUGCUCUCGACCACCCACCCACUUUCGGAACC........(((((..........))).))......((......))....-4.5
AB005654UGACGGGUGGCCUGGCGGUGAGCGGCGGCAGCGGCGGCGGGGAAGAUGGCGGCGUCCUCCCUGGAGCAGAAGCUGUCCCGCCUGGAAGCCAAGCUGAAGCAGGAGAACCGUGAGGCCCGCAGGAGGAU ......(((((((...((.((((((((((.((((.(((.((.((((...(((.((((........(((((((..(((.....((((((..(((..((((..((.((....((....)))).))..((((.. ...-127.6
AB005662GGCCUGGGCGGCGGCACGUCCUAAGGUAGCGGCUGCCUGAGGUGACAGCGGCCCGUGGAUUCGGGCCCCGGAACGAGCCGCGCUGGCGGCGGCGGCGGUAGCCGCG.(((((((((......)))))..)))).(((((((((...(....).(.((((((......)))))).)....((.(((((....)))))..))..))))))))).-58.5
AB006034CUCUCGAGCAGACUCCCCAAACACAGAC.....(((....))).............-1.1
AB006329CAGAGCCCCGUCUCUGUGCAGCUGGCCCCAGACAGCGCUAGCACC(((((......)))))....((((((.(......).))))))...-13.4
AB006330GACAGAAAGAGAAUCCAUUGGUUUAGAAGGUUUGGACCGACUUGACAGGUUCAGUUGGAGCCAGCCGAUCAUAGGUGGCCGCUGUGACAAAGGGAAACUGUGCUUUUCCAGCAUGCUUACUGACCCUG .......(((.((((((((.(((.....((.((((.((.((((((.((....)).))))))..))))))..))...((..((.(((((((....(((.....(((((.....)))))((((.....((((( ...-399.8
AB007407GGGUGGAGUAGGGCUGUCCCCUUGAUACCACAUUGGGAAAGGAAUGUUGGGGCCUGAGAGAGAGGCCAAGUCCAAGACUGGGUAGAAAACAUUAAGGGACUUGUUUGUUCCACCGCAAAAGGCUGUCC ..........((.(((((..........((((((.(((((.....((((((..(((((.......)))))...((((....)))).....))))))..(((((......))))).)).)))...((((((( ...-94.02

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