Abstract
Transcripts of most mammalian genes display alternative cleavage and polyadenylation (APA). Sites of APA (pAs) located in the 3’‐most exon typically lead to mRNA isoforms with different 3’ untranslated regions (3’UTRs), and those located in upstream introns or exons also cause different coding sequences. We previously reported a general trend of relative upregulation of promoter‐distal pA isoforms during cell differentiation and embryonic development. Here we examined different cell differentiation systems with 3’READS, a recently developed deep sequencing method to analyze APA isoform expression. We identified cell type‐specific, and differentiation‐specific APA events, and examined ontologies of genes regulated at the APA level. We analyzed how APA is related to overall gene expression. We have found that APA is an important layer of gene regulation, impacting cell identity and differentiation state. In addition, to understand the role of core cleavage and polyadenylation factors (called C/P factors) in APA, we carried out a global knockdown of expression of C/P factors and examined how APA changes in response to C/P factor perturbation is related to APA regulation in cell differentiation.
Sign-in/Register to access full text options 
Talk to us
Join us for a 30 min session where you can share your feedback and ask us any queries you have
Schedule a callDisclaimer: All third-party content on this website/platform is and will remain the property of their respective owners and is provided on "as is" basis without any warranties, express or implied. Use of third-party content does not indicate any affiliation, sponsorship with or endorsement by them. Any references to third-party content is to identify the corresponding services and shall be considered fair use under The CopyrightLaw.
