Plot Rna Secondary Structure Data Into Image
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12.0 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.

   >2D
   ::::::[[[[[[[[[[[[,<<______________________>>,,,,,,,,,,,,,((
   CGAGUCAACUGGGCAGUCGCCGCUUCG--------CGAGAAGGGGAGGAAAGUCCGGGCU

thank you raghul

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

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12.0 years ago
Michael 54k

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?

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12.0 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/

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How about a link?

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