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Octamer sequences with HEXplorer score amplitude of -10.35, –0.15 or +10.32

ABSTRACT: Correct pre-mRNA processing in higher eukaryotes vastly depends on splice site recognition. Beyond conserved 5’ss and 3’ss motifs, splicing regulatory elements (SREs) play a pivotal role in this recognition process. Here, we present in silico designed sequences with arbitrary a priori prescribed splicing regulatory HEXplorer properties that can be concatenated to arbitrary length without changing their regulatory properties. We performed pulldown analysis to identify RNA-binding proteins, that bind either sequence segments with a HEXplorer score amplitude of +10.32, –0.15 or -10.35.

INSTRUMENT(S):

ORGANISM(S): Homo Sapiens (human)

TISSUE(S): Cell Culture

SUBMITTER: Gereon Poschmann

LAB HEAD: Gereon Poschmann

PROVIDER: PXD030139 | Pride | 2022-10-13

REPOSITORIES: Pride

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Publications

Modeling splicing outcome by combining 5'ss strength and splicing regulatory elements.

Müller Lisa L Ptok Johannes J Nisar Azlan A Antemann Jennifer J Grothmann Ramona R Hillebrand Frank F Brillen Anna-Lena AL Ritchie Anastasia A Theiss Stephan S Schaal Heiner H

Nucleic acids research 20220801 15

Correct pre-mRNA processing in higher eukaryotes vastly depends on splice site recognition. Beyond conserved 5'ss and 3'ss motifs, splicing regulatory elements (SREs) play a pivotal role in this recognition process. Here, we present in silico designed sequences with arbitrary a priori prescribed splicing regulatory HEXplorer properties that can be concatenated to arbitrary length without changing their regulatory properties. We experimentally validated in silico predictions in a massively parall ...[more]

PMID: 35947702

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Cancer associated SF3B1 hotspot mutations induce cryptic 3' splice site selection through use of a different branch point

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