Hi Carsten, Unfortunately, I think the process you've done is the only way to do it (as far as our tools go). Some of our tracks (UCSC Genes, RefSeq Genes, etc) do have an option to output protein sequence from the Table Browser if you select output format = sequence (and then select protein on the next page). But this is not an option for Human mRNAs/all_mrna.
Please let us know if you have any additional questions: [email protected] - Greg Roe UCSC Genome Bioinformatics Group On 12/4/11 4:10 AM, Carsten Raabe wrote: > Hi there, > > I do have question with regards to the human all_mRNA data. I am > interested in the predicted proteins that relate to the mRNAs that are > contained within the all_mRNA database. > > Here is what I did. I extracted via the table browser the corresponding > CDS annotations for the all mRNA data. Subsequently I did a script that > extracted the CDS out of the entire mRNA sequence and then translated > the open frame into aminoacids. Is there a way to directly download the > predicted protein of the all_mRNA data via the server ? > > Thanks a lot in advance, > > Carsten > > Keep up the great work it is of tremendous help ! > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
