CRISPRstrand: predicting repeat orientations to determine the crRNA-encoding strand at CRISPR loci.

ABSTRACT:

Motivation

The discovery of CRISPR-Cas systems almost 20 years ago rapidly changed our perception of the bacterial and archaeal immune systems. CRISPR loci consist of several repetitive DNA sequences called repeats, inter-spaced by stretches of variable length sequences called spacers. This CRISPR array is transcribed and processed into multiple mature RNA species (crRNAs). A single crRNA is integrated into an interference complex, together with CRISPR-associated (Cas) proteins, to bind and degrade invading nucleic acids. Although existing bioinformatics tools can recognize CRISPR loci by their characteristic repeat-spacer architecture, they generally output CRISPR arrays of ambiguous orientation and thus do not determine the strand from which crRNAs are processed. Knowledge of the

SUBMITTER: Alkhnbashi OS 

PROVIDER: S-EPMC4147912 | biostudies-literature | 2014 Sep

REPOSITORIES: biostudies-literature