TmiRUSite and TmiROSite scripts: searching for mRNA fragments with miRNA binding sites with encoded amino acid residues

Olga Berillo, Mireille Régnier, INRIA/LIX team AMIB 1 rue Honoré d'Estienne d'Orves 91120 Palaiseau, France, Anatoly Ivashchenko

2014

Full text Open access: Hybrid Metadata (CSL-JSON)

DOI 10.6026/97320630010472

Data confidence 70 medium

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Abstract

UNLABELLED: microRNAs are small RNA molecules that inhibit the translation of target genes. microRNA binding sites are located in the untranslated regions as well as in the coding domains. We describe TmiRUSite and TmiROSite scripts developed using python as tools for the extraction of nucleotide sequences for miRNA binding sites with their encoded amino acid residue sequences. The scripts allow for retrieving a set of additional sequences at left and at right from the binding site. The scripts presents all received data in table formats that are easy to analyse further. The predicted data finds utility in molecular and evolutionary biology studies. They find use in studying miRNA binding sites in animals and plants. AVAILABILITY: TmiRUSite and TmiROSite scripts are available for free from authors upon request and at https: //sites.google.com/site/malaheenee/downloads for download.