Question

All Possible Protein Sequence From A Nucleotide Sequence

2

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11.9 years ago

Nicolas Rosewick 10k

Hello,

Which tool can I use to find all possible protein sequence from a nucleotide sequence ? In all the 3 possible frames ?

Thanks,

N.

nucleotide protein translation • 3.8k views

ADD COMMENT • link updated 11.9 years ago by Giovanni M Dall'Olio 28k • written 11.9 years ago by Nicolas Rosewick 10k

score 3 · Answer 1 · 2012-05-29

3

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11.9 years ago

Giovanni M Dall'Olio 28k

You can also use the transeq and sixpack tools from the EMBOSS package. They have both a web and a command line interface, so you can choose whathever you prefer.

ADD COMMENT • link 11.9 years ago by Giovanni M Dall'Olio 28k

score 2 · Answer 2 · 2012-05-29

2

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11.9 years ago

Michael Kuhn 5.0k

The NCBI ORF Finder works well to find all six possible translations.

ADD COMMENT • link 11.9 years ago by Michael Kuhn 5.0k

score 1 · Answer 3 · 2012-05-29

1

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11.9 years ago

cdsouthan ★ 1.9k

This old Expasy tool does the same job with slightly different display options

http://web.expasy.org/translate/

Remember to BLASTX against protein databases first. You can then see the correct frame direction and you can even fix frameshifts

ADD COMMENT • link 11.9 years ago by cdsouthan ★ 1.9k