Question: miRNA -identification animal
0
gravatar for Nandhini devi
4.7 years ago by
India
Nandhini devi0 wrote:

Currently I am predicting miRNA in animal.. when I perform BLASTx, i dont know how to select the non-coding protein? plz help me.. Do we have any other softwares or tools to remove coding protein??

blast • 1.5k views
ADD COMMENTlink modified 4.7 years ago by givebonustome0 • written 4.7 years ago by Nandhini devi0
0
gravatar for David Fredman
4.7 years ago by
David Fredman980
University of Bergen, Norway
David Fredman980 wrote:

Sorry but this question is confusing on so many levels that it's barely understandable.

Predicting miRNAs.. the precursors? Or do you mean miRNA targets, and how exactly are you trying to predict them?
There's no such thing as non-coding or coding protein. Do you mean non-coding transcripts?
Blastx works on the assumtion that you try to map coding mRNA to a protein database. What would be the purpose of removing proteins in that context? What are you trying to achieve?

ADD COMMENTlink modified 4.7 years ago • written 4.7 years ago by David Fredman980

ya.. First of all I am trying to predict the precursors and then the miRNA target. I dont have much knowledge in this area of prediction. I am new to this and I read many papers such as miRNA prediction using EST like that.. I am following the miRNA prediction using EST. what exactly I want means I want to retain the non-protein coding sequences from the blastn result against the EST of particular animal.. Because miRNA is the non-protein-coding small RNAs.

ADD REPLYlink written 4.7 years ago by Nandhini devi0
0
gravatar for givebonustome
4.7 years ago by
givebonustome0 wrote:

There's no such thing as non-coding or coding protein. Do you mean non-coding transcripts? I think it's OK


----
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ADD COMMENTlink modified 3.4 years ago • written 4.7 years ago by givebonustome0

Ok. In case of non-coding transcripts means how can I find that from blastx result orelse simply how can I filter those?

ADD REPLYlink written 4.7 years ago by Nandhini devi0
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