Question: extraction upstream sequence of precursor microrna
0
gravatar for najibveto
10 weeks 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 weeks ago by shoujun.gu270 • written 10 weeks ago by najibveto30
2
gravatar for shoujun.gu
10 weeks ago by
shoujun.gu270
Rockville/MD
shoujun.gu270 wrote:

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

ADD COMMENTlink written 10 weeks ago by shoujun.gu270

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 weeks ago by najibveto30
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