Comprehensive analysis of Saccharomyces cerevisiae intron structures in vivo.

ABSTRACT: Pre-mRNA secondary structures are hypothesized to regulate RNA processing pathways, but such structures have been difficult to visualize in vivo. Here, we characterize Saccharomyces cerevisiae pre-mRNA structures through transcriptome-wide dimethyl sulfate probing, enriching for low-abundance pre-mRNA through splicing inhibition. We cross-validate structures found from phylogenetic and mutational studies and identify structures within the majority of measured introns (79 of 88). We find widespread formation of 'zipper stems' between the 5' splice site and branch point, 'downstream stems' between the branch point and the 3' splice site, and previously uncharacterized long stems that distinguish pre-mRNA from spliced mRNA. Multi-dimensional chemical mapping reveals intron structures that ind

SUBMITTER: Rangan R 

PROVIDER: S-EPMC12350175 | biostudies-literature | 2025 Aug

REPOSITORIES: biostudies-literature