Question: Plot Rna Secondary Structure Data Into Image
1
gravatar for Raghul
6.8 years ago by
Raghul200
Italy
Raghul200 wrote:

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

• 3.0k views
ADD COMMENTlink modified 5.9 years ago by Biostar ♦♦ 20 • written 6.8 years ago by Raghul200

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

ADD REPLYlink written 6.8 years ago by Neilfws48k
2
gravatar for Michael Dondrup
6.8 years ago by
Bergen, Norway
Michael Dondrup46k wrote:

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 COMMENTlink written 6.8 years ago by Michael Dondrup46k
2
gravatar for Pappu
6.8 years ago by
Pappu1.9k
Pappu1.9k wrote:

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/

ADD COMMENTlink modified 6.8 years ago • written 6.8 years ago by Pappu1.9k

How about a link?

ADD REPLYlink written 6.8 years ago by Michael Dondrup46k
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