Question: extraction upstream sequence of precursor microrna
0
gravatar for najibveto
10 days ago by
najibveto30
Korea, Republic Of
najibveto30 wrote:

hello i have several microrna with their mature sequences, it is from atlantic salmon and i need to get the precursor sequence for each microrna also i need the upstream sequence of 1000 not for each precursor to study possible binding sites for promoter studies. the atlantic salmon have a genome and it is annotated. is it possible to do it using some tools or should i do it manually for each microrna? thanks a lot for your help.

ADD COMMENTlink modified 10 days ago by shoujun.gu220 • written 10 days ago by najibveto30
1
gravatar for shoujun.gu
10 days ago by
shoujun.gu220
Rockville/MD
shoujun.gu220 wrote:

check this: http://bedtools.readthedocs.io/en/latest/content/tools/getfasta.html

ADD COMMENTlink written 10 days ago by shoujun.gu220

thanks a lot for your help, however i didn't use bedtools before and also is it possible to blast and extract using bedtools? because the microrna are new in Atlantic salmon.

ADD REPLYlink written 10 days ago by najibveto30
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 730 users visited in the last hour