Mature mirna coordinates

[moriah]

Hi all,

Where can I get coordinates on hg18 of all mature mirna. I've searched the mirbase and ucsc and all I could find was the pre-mir coordinates....

Thanks!

[vebaev]

You can get the matures and map them onto hg18 and easy get their coordinated. If there is non-real mappings you can get only those which are cross-referencing/overlapping with precursor coordinates I guess....

Other way is to look in miRbase there is miRNA.dat file with have coordinates of matures in the precursors. Having precursor coodrinates (gff) you can calculate genomic positions of matures...

I cant remember now any easyer way unfortunately..

[kbhit]

A tool that should help

I created a tool that will get you the global coordinates. Please contact me using the email address in the readme file if you have any questions.

http://cm.jefferson.edu/index.html

Tool name: miRNACoord (click on Tools & Downloadables to see it)