Hi René, Unfortunately, the RefSeq Track doesn't have that level of detail. To search for tracks that contain the data you want we recommend using track search. Track search can be accessed from the gateway page ( http://genome.ucsc.edu/cgi-bin/hgGateway). Select the assembly of interest and then click on "track search".
For example, there are 5 tracks that reference "snoRNA" for hg19. Take a look at the track descriptions and the linked table schema to decide if that is the data you are interested in. You can then download it using the table browser. I hope that leads you in the right direction. If you have further questions, please don't hesitate to email the list: [email protected]. Vanessa Kirkup Swing UCSC Genome Bioinformatics Group ---------- Forwarded message ---------- From: René Böttcher <[email protected]> Date: Tue, Apr 10, 2012 at 7:50 AM Subject: Re: [Genome] extract ncRNA sequence data via table browser To: [email protected] Dear UCSC, I am working with non-coding RNAs and I was wondering whether there are type identifiers available for RefSeq non-coding genes. So based on the NR_* accession numbers, is it possible to determine which type of RNA is created? This would be a big help in subgrouping the genes list. The simplest solution would be similar to this: NR_12345 - snoRNA NR_67890 - miRNA NR_24680 - tRNA NR_13579 - rRNA If this information is not available for RefSeq, is it possibly available for the UCSC lincRNA database to distinguish lncRNAs and lincRNAs? So instead of the NR_* example above using the TCONS_* identifiers? Best regards, René _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
