Pseudoexon activation in disease by non-splice site deep intronic sequence variation — wild type pseudoexons constitute high-risk sites in the human genome

Ulrika S.S. Petersen, Thomas K. Doktor, Brage S. Andresen*

*Kontaktforfatter for dette arbejde

Publikation: Bidrag til tidsskriftTidsskriftartikelForskningpeer review

Abstrakt

Accuracy of pre-messenger RNA (pre-mRNA) splicing is crucial for normal gene expression. Complex regulation supports the spliceosomal distinction between authentic exons and the many seemingly functional splice sites delimiting pseudoexons. Pseudoexons are nonfunctional intronic sequences that can be activated for aberrant inclusion in mRNA, which may cause disease. Pseudoexon activation is very challenging to predict, in particular when activation occurs by sequence variants that alter the splicing regulatory environment without directly affecting splice sites. As pseudoexon inclusion often evades detection due to activation of nonsense-mediated mRNA decay, and because conventional diagnostic procedures miss deep intronic sequence variation, pseudoexon activation is a heavily underreported disease mechanism. Pseudoexon characteristics have mainly been studied based on in silico predicted sequences. Moreover, because recognition of sequence variants that create or strengthen splice sites is possible by comparison with well-established consensus sequences, this type of pseudoexon activation is by far the most frequently reported. Here we review all known human disease-associated pseudoexons that carry functional splice sites and are activated by deep intronic sequence variants located outside splice site sequences. We delineate common characteristics that make this type of wild type pseudoexons distinct high-risk sites in the human genome.

OriginalsprogEngelsk
TidsskriftHuman Mutation
Vol/bind43
Udgave nummer2
Sider (fra-til)103-127
ISSN1059-7794
DOI
StatusUdgivet - feb. 2022

Bibliografisk note

Funding Information:
This study was supported by grants to BSA from the Danish Medical Research Council (FSS) (No. 9039‐00281B), the Danish Research Council for Natural Science (FNU) (No. 0135‐00459B), and the Novo Nordisk Foundation (NNF) (NNF19OC0058588 and NNF17OC0029240).

Publisher Copyright:
© 2021 Wiley Periodicals LLC

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