Multiple Sequence Alignments Enhance Boundary Definition of RNA Structures.

ABSTRACT: Self-contained structured domains of RNA sequences have often distinct molecular functions. Determining the boundaries of structured domains of a non-coding RNA (ncRNA) is needed for many ncRNA gene finder programs that predict RNA secondary structures in aligned genomes because these methods do not necessarily provide precise information about the boundaries or the location of the RNA structure inside the predicted ncRNA. Even without having a structure prediction, it is of interest to search for structured domains, such as for finding common RNA motifs in RNA-protein binding assays. The precise definition of the boundaries are essential for downstream analyses such as RNA structure modelling, e.g., through covariance models, and RNA structure clustering for the search of common motifs. S

SUBMITTER: Sabarinathan R 

PROVIDER: S-EPMC6315940 | biostudies-literature | 2018 Dec

REPOSITORIES: biostudies-literature