Computational identification of biologically functional non-hairpin GC-helices in human Argonaute mRNA.

ABSTRACT:

Background

Perfectly formed duplex elements in RNA occur within folding units, often as a part of hairpin motifs which can be reliably predicted by various RNA folding algorithms. Double helices with consecutive Watson-Crick base-pairing may also be formed between distant RNA segments thereby facilitating long-range interactions of long-chain RNA that may be biologically functional. Here we addressed the potential formation of RNA duplex motifs by long-range RNA-RNA interactions of distantly located matching sequence elements of a single long-chain RNA.

Results

We generated a Python-based software tool that identifies consecutive RNA duplex elements at any given length and nucleotide content formed by distant sequences. The software tool, dubbed RNAslider, is built on the th

SUBMITTER: Dornseifer S 

PROVIDER: S-EPMC3626786 | biostudies-literature | 2013 Apr

REPOSITORIES: biostudies-literature