Question

Plot Rna Secondary Structure Data Into Image

1

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12.4 years ago

Raghul ▴ 200

Hi to all,

I obtained a secondary structure file predicted from a non-coding rna. I am giving a portion of it , I want to convert this data into RNA image. Are there any webservers available to upload this text file and convert into an image for better visualization.

   &gt;2D
   ::::::[[[[[[[[[[[[,&lt;&lt;______________________&gt;&gt;,,,,,,,,,,,,,((
   CGAGUCAACUGGGCAGUCGCCGCUUCG--------CGAGAAGGGGAGGAAAGUCCGGGCU

thank you raghul

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ADD COMMENT • link updated 11.4 years ago by Biostar 20 • written 12.4 years ago by Raghul ▴ 200

0

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For some reason, the portion that you posted is not formatted properly (not your fault, problem with this site).

ADD REPLY • link 12.4 years ago by Neilfws 49k

score 2 · Answer 1 · 2012-07-19

2

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12.4 years ago

Michael 55k

How about RNAplot it's a command line tool or RNAfold server, but that takes the sequence, not the shape data. Or why not make a RNA movie?

ADD COMMENT • link 12.4 years ago by Michael 55k

score 2 · Answer 2 · 2012-07-19

2

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12.4 years ago

Pappu ★ 2.1k

Try centroidfold: http://www.ncrna.org/centroidfold/ or mfold http://mfold.rna.albany.edu/?q=mfold/ Alternatively you can download vienna RNA modeling package. You can just google for the url.

This website compares/benchmark the secondary structure prediction servers: http://iimcb.genesilico.pl/comparna/