ABOUT Mir1954 coordinate

[Yabin Guo]

To whom it may concern,
I'm search the info for Mir1954 (NR_035479) in the mouse genome. I found it in both your server and NCBI, but the coordinates are so different (see below). May you please explain this to me?

http://genome.ucsc.edu/cgi-bin/hgGene?hgsid=334773881&db=mm10&hgg_gene=uc029udz.1&hgg_chrom=chr2&hgg_start=113423522&hgg_end=113423560

http://www.ncbi.nlm.nih.gov/gene/?term=NR_035479

Thanks so much.
Best,
Yabin

UTSW Mol. Biol.

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UT Southwestern Medical Center
The future of medicine, today.

[Brian Lee]

Dear Yabin,

Thank you for using the UCSC Genome Browser and your question about the difference in coordinate alignments of UCSC versus NCBI for a microRNA in the mouse genome.

The UCSC Browser aligns RNAs using our own algorithms resulting in different coordinates from NCBI. You may want to see this previously answered mailing list question for more information: https://lists.soe.ucsc.edu/pipermail/genome/2009-October/020381.html

Thank you again for your inquiry and using the UCSC Genome Browser. If you have further questions, please feel free to contact the mailing list again at gen...@soe.ucsc.edu.

All the best,

Brian Lee

UCSC Genome Bioinformatics Group

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