LaSSO, a strategy for genome-wide mapping of intronic lariats and branch points using RNA-seq.

ABSTRACT: Both canonical and alternative splicing of RNAs are governed by intronic sequence elements and produce transient lariat structures fastened by branch points within introns. To map precisely the location of branch points on a genomic scale, we developed LaSSO (Lariat Sequence Site Origin), a data-driven algorithm which utilizes RNA-seq data. Using fission yeast cells lacking the debranching enzyme Dbr1, LaSSO not only accurately identified canonical splicing events, but also pinpointed novel, but rare, exon-skipping events, which may reflect aberrantly spliced transcripts. Compromised intron turnover perturbed gene regulation at multiple levels, including splicing and protein translation. Notably, Dbr1 function was also critical for the expression of mitochondrial genes and for the processi

SUBMITTER: Bitton DA 

PROVIDER: S-EPMC4079972 | biostudies-literature | 2014 Jul

REPOSITORIES: biostudies-literature