Integrative analysis of RNA binding proteins identifies DDX55 as a novel regulator of 3'UTR isoform diversity.

ABSTRACT:

Background

The 3' untranslated regions (3'UTRs) of mRNAs play a critical role in controlling gene expression and function because they contain binding sites for microRNAs and RNA binding proteins (RBPs) that alter mRNA stability, localization, and translation. Most mRNA 3' ends contain multiple polyadenylation sites (PAS) that can be utilized in condition-specific manners, a process known as alternative polyadenylation (APA). However, the mechanisms driving the regulation of APA remain poorly characterized.

Results

By integrating a large set of over 500 RNA binding protein (RBP) depletion and binding experiments across two cell lines generated by the ENCODE consortium, we uncovered many RBPs in each cell type whose depletion leads to widespread alteration of 3'UTR patterns.

SUBMITTER: Gazzara MR 

PROVIDER: S-EPMC12606947 | biostudies-literature | 2025 Nov

REPOSITORIES: biostudies-literature