To whom it may concern: We are having a problem with the 3' UTR setting of the BioMart Central Portal interface. It feels like a bug in the underlying database, so we are hoping you would be able to diagnose/fix it.
We need to retrieve the 3' UTRs of yeast genes. I have tried to do this in a couple of ways: TRIAL 1: DATABASE: Ensembl Datasets: S cerevisiae genes Sequences: 3' UTR Upstream Flank: (blank) Downstream Flank (blank) Filters: (default) Header: Ensembl Gene ID and Associated Gene Name The result I got was: “Sequence unavailable” for all genes Then I attempted TRIAL 2: DATABASE: Ensembl Datasets: S cerevisiae genes Sequences: Flank-coding region (not ideal, though, as this is expected to yield longer sequences than those we're looking for) Upstream Flank: (blank) Downstream Flank: 100 (this is also a problem because although the median length of yeast 3' UTRs is 104 bp, they can be as long as ~1,000 bp, so we would be missing sequences) Filters: (default) Header: Ensembl Gene ID and Associated Gene Name This works, but with the above caveats. Thanks in advance for your help. Sincerely, Claudio Joazeiro, Ph.D. Assistant Professor Department of Cell Biology The Scripps Research Institute CB-163 10550 N Torrey Pines Rd La Jolla, CA 92037 Phone: (858) 784-7570 Fax: (858) 784-9779 _______________________________________________ Users mailing list [email protected] https://lists.biomart.org/mailman/listinfo/users
