Hello, This is just nomenclature not being perfect, some schema's are used for many datasets. For this case you are right, the sequence is the mRna for the coding part of the gene - the protein.
Hope this helps, Jennifer ------------------------------------------------ Jennifer Jackson UCSC Genome Bioinformatics Group ----- "Dr. med. Peter Robinson" <[email protected]> wrote: > From: "Dr. med. Peter Robinson" <[email protected]> > To: [email protected] > Sent: Tuesday, September 29, 2009 1:47:07 PM GMT -08:00 US/Canada Pacific > Subject: [Genome] Schema for knownGeneMrna > > Hi UCSC gurus, > > the description of the knownGeneMrna given via the web page > http://genome.ucsc.edu/cgi-bin/hgTables appears to be wrong, in that > the seq > field is defined to hold a peptide sequence, whereas the table > contains the > mRNA (actually cDNA) sequences of the knownGenes. > -cheers Peter > > > > Database: hg18 Primary Table: knownGeneMrna Row Count: 66,803 > Format description: A predicted peptide - linked to a predicted gene. > field example SQL type info description > name uc001aaa.2 varchar(255) values Name of gene - same as in > genePred > seq gcagggctctcttgcttagagtggtgg... longblob Peptide sequence > > > -- > Dr. med. Peter Robinson > Institut für Medizinische Genetik > Charité - Universitätsmedizin Berlin > Augustenburger Platz 1 > 13353 Berlin > Germany > voice: 49-30-450569124 > fax: 49-30-450569915 > email: [email protected] > http://compbio.charite.de/ > http://www.human-phenotype-ontology.org > > > > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
