Question: How to predict protein domains from a list of mRNA sequences?
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gravatar for Minstein
13 months ago by
Minstein130
Minstein130 wrote:

I have a list of mRNA (mature mRNA) sequences. I performed the transcriptome assembly, so some of the mRNA sequences have not been annotated before.

My aim is to annotate domains for all the potential amino acid sequences from these mRNAs. Some obstacles exist:

  • A de novo protein domain prediction tool is needed.
  • One mRNA always has more than one open reading frame.

I am wondering whether there exists an integrated tool or website that can calculate all the potential domains when I just input the mRNA sequences.

Thank you in advance!

sequence genome • 341 views
ADD COMMENTlink written 13 months ago by Minstein130

Have a look at Trinotate and dammit, two annotation pipelines. See also

Domain Prediction Tool

ADD REPLYlink modified 13 months ago • written 13 months ago by h.mon28k
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