Question: Tools for prediction of protein functionality from AA sequence along
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gravatar for kristoffer.vittingseerup
4 weeks ago by
European Union
kristoffer.vittingseerup1.6k wrote:

I have my amino acid sequence of a transcript of interest in bioinformatic tools which can predict different types of annotation and/or functionality based on the sequence alone! Some of the classic would be Pfam and InterScanPro but I'm looking for new ideas :-)

Cheers Kristoffer

rna-seq assembly gene • 148 views
ADD COMMENTlink modified 4 weeks ago by Juke-342.0k • written 4 weeks ago by kristoffer.vittingseerup1.6k
2

BLASTP (and associated alternative algorithms (PSI-BLAST etc). My personal favourite is HHPred (or HMMER).

Don't think you can do much better than InterProScan though personally.

ADD REPLYlink written 4 weeks ago by jrj.healey11k
1
gravatar for Juke-34
4 weeks ago by
Juke-342.0k
Sweden
Juke-342.0k wrote:

In the functional annotation part that I teach I list few tools/approaches that can be of interest for you. Have a look here at the slide 25. Note that Trinotate is now automated.

ADD COMMENTlink written 4 weeks ago by Juke-342.0k
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