Hi Hsin-Pai,
We are pleased to hear that you find the UCSC Genome Browser website
such a useful tool.
The Gene Sorter is based on the data from the UCSC Genes track, which
contains little microRNA data.
Instead, enter your microRNA of interest (e.g. miR-21 or microRNA 21) in
the "position/search" box of the hg18 (Human Mar. 2006 assembly) Genome
Browser, and you will be taken to a list of search results that match
your search term.
Below are a couple of tracks that contain microRNA data in hg18. Please
see the provided link to the description page for more detailed
information about the track.
sno/miRNA (C/D and H/ACA Box snoRNAs, scaRNAs, and microRNAs from
snoRNABase and miRBase)
http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg18&g=wgRna
RNA Genes (Non-coding RNA Genes (dark) and Pseudogenes (light))
http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg18&g=rnaGene
I hope this information is helpful. Please don't hesitate to contact the
mail list again if you have any further questions.
Katrina Learned
UCSC Genome Bioinformatics Group
On hg18, if
Hsin-Pai Li wrote:
> Dear Sir/ Madam,
>
>
>
> I am a frequent user of UCSC genome search. This website is one of the most
> useful and user friendly websites to search for the gene sequence, in
> particular, the upstream promoter region. Recently, I would like to search
> the upstream sequence of a miR gene, so I typed e.g. miR-21; however, the
> "gene sorter" of UCSC genome search indicated "error" when I entered miR-21,
> miRNA 21, microRNA 21, etc.It seems that USCS website does not have miR
> database for the time being.
>
>
>
> I wonder whether UCSC is going to expand its data base and include miR
> sequence (coding region/ gene) in the near future.
>
>
>
> Thank you for your attention!
>
>
>
> Hsin-Pai Li
>
> Assistant Professor
>
> Chang Gung University
>
> Taiwan
>
> _______________________________________________
> Genome maillist - [email protected]
> https://lists.soe.ucsc.edu/mailman/listinfo/genome
>
_______________________________________________
Genome maillist - [email protected]
https://lists.soe.ucsc.edu/mailman/listinfo/genome
