Nascent-seq Indicates Widespread Cotranscriptional Pre-mRNA Splicing in Drosophila

Overview

Journal Genes Dev

Specialty Molecular Biology

Date 2011 Dec 14

PMID 22156210

Citations 161

Authors

Yevgenia L Khodor

Joseph Rodriguez

Katharine C Abruzzi

Chih-Hang Anthony Tang

Michael T Marr 2nd

Michael Rosbash

Affiliations

Soon will be listed here.

Abstract

To determine the prevalence of cotranscriptional splicing in Drosophila, we sequenced nascent RNA transcripts from Drosophila S2 cells as well as from Drosophila heads. Eighty-seven percent of the introns assayed manifest >50% cotranscriptional splicing. The remaining 13% are cotranscriptionally spliced poorly or slowly, with ∼3% being almost completely retained in nascent pre-mRNA. Although individual introns showed slight but statistically significant differences in splicing efficiency, similar global levels of splicing were seen from both sources. Importantly, introns with low cotranscriptional splicing efficiencies are present in the same primary transcript with efficiently spliced introns, indicating that splicing is intron-specific. The analysis also indicates that cotranscriptional splicing is less efficient for first introns, longer introns, and introns annotated as alternative. Finally, S2 cells expressing the slow RpII215(C4) mutant show substantially less intron retention than wild-type S2 cells.

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