Hello, To find information that is listed in the gene details page (associated sequences, etc), use the Table browser. Open up to the UCSC Genes track, leave the table as default (knownGene), and click on "describe table schema". The table will be defined, followed by linked tables, and again followed by a full track description with methods/sources.
Some useful tables are: knownGene - alignment data per transcript knownIsoforms - groups transcripts into genes (clusters) knownCanonical - the canonical splice variant of a gene kgXref - links in all associated IDs kgAlias - another ID linking table (RefSeqs included) refLink, knownToLocusLink - more linked data, including Locus link ID Please note that associated sequences are not necessarily contributing sequences to the mRna/Protein for the transcript. The actual sequence chosen for the mRna (and Protein, if coding) for a transcript is included in the kgXref table. All associated sequences are in the kgAlias table. For more detailed information about the source/linked sequences, please refer to the external data source(s). UCSC does not generate/modify mRna or Protein sequence. Jennifer Jackson UCSC Genome Bioinformatics Group jchl tu wrote: Hello, > Recently I want to do some works related to UCSC genes and the > evidence of UCSC gene is > mRNA, fully length cDNA and EST.... as we all know and I want to know > the exactly evidence > of UCSC gene see the evidence of UCSC gene "uc001aaa.2" is a cDNA > clone plus EST, My > question is how can I get this information of all UCSC gene dataset? > > Thank you :) > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
