miRNA structure file (hairpin structure) from precursor miRNA sequences

Closed:miRNA structure file (hairpin structure) from precursor miRNA sequences

0

Entering edit mode

5.8 years ago

vkgaur25 ▴ 30

Hi, Probably this is a bit outside of the kinds of questions asked here but I am unable to find any suitable answer of my question so asking here. I have RNA-Seq data and I am looking for isomiRs . For alignment step I need a hairpin fasta file and a structure file (Mirna.str) . I know both of these are available at miRBase but here's the catch. I have my own lab produced annotation table for miRNA (i.e. I have fasta file for precursor miRNA) but I want to build structure files (.str) based on my miRNA database.

For example for -hsa-mir-192 structure would look like this (this is from miRBase)

enter image description here https://postimg.cc/image/652mmlxa5/

Does anyone know any tool or way to do this?

RNA-Seq • 180 views

ADD COMMENT • link updated 5.8 years ago by Tm ★ 1.1k • written 5.8 years ago by vkgaur25 ▴ 30

This thread is not open. No new answers may be added