Dear Tom, I feel that you need Ensembl expertise to help with this question. Forwarding to the list and cc'ing Thomas and Rhoda
a On Sat, Mar 24, 2012 at 6:48 PM, Tom A <[email protected]> wrote: > Dear Arek, > > As a part of my work I need to retrieve unspliced and mature sequences for > all RNA types I can find. I have tried biomart resources and mRNA/pre-mRNA > works great. However in case of rRNA and miRNA I always get the same > sequence no matter if I choose cDNA or transcript_exon_intron. In case of > miRNA I presume the sequence is always the pre-mRNA one? (and the actual > miRNA should be pulled from miRBase). In case of rRNA I am not sure why > there is no data. > > Secondly in case of all the other types of RNA what types would have the > unspliced transcripts and which would not (misc-RNA, snoRNA, snRNA, lincRNA > and MT-r/tRNA)? Also are all unspliced sequences derived from alignments > and predictions or are they actually experimentally verified? I presume > that if ensembl does not have this data it would be hard to find anywhere > else. > > Thanks very much for your help. > Tom > -- Arek Kasprzyk, MD, MSc, PhD BioMart Project Lead
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