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  3. Detection Of A Sequence Feature For Recursive Splicing.
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  3. Detection Of A Sequence Feature For Recursive Splicing.

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Detection of a sequence feature for recursive splicing.

Bixuan Wang1,2,3,4, Kevin Yang5,6,7, Yoseph Barash5,8

  • 1Center for Cancer Research, National Cancer Institute, Bethesda, MD, 20892, USA.

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|April 27, 2026

View abstract on PubMed

Summary
This summary is machine-generated.

Recursive splicing, a process where spliceosomes remove introns in segments, is more common in first introns. Specific CG-rich sequence motifs near the first intron influence recursive splicing throughout the RNA transcript.

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Area of Science:

  • Molecular Biology
  • Genetics
  • RNA Processing

Background:

  • RNA splicing removes introns from pre-mRNA to form mature mRNA.
  • Recursive splicing is a mechanism where large introns are removed in segments by the spliceosome.
  • The sequence elements governing recursive splicing have remained largely unidentified.

Purpose of the Study:

  • To identify cis-acting sequence signals associated with recursive splicing.
  • To investigate the influence of first introns on recursive splicing patterns.
  • To develop a predictive model for recursive splicing.

Main Methods:

  • Probabilistic mixture models were employed to analyze sequence data.
  • Sequence features flanking the first intron were examined.
  • A novel medium-throughput primer extension assay was utilized for validation.

    • Main Results:

    • Recursive splicing is more frequent in longer, CG-rich first introns with specific flanking sequences.
    • Depletion of CGs in the downstream polypyrimidine tract was observed.
    • First intron sequence properties predict recursive splicing frequency in downstream introns.
    • A sequence-dependent classifier for recursive splicing was developed and validated.

    Conclusions:

    • Newly identified sequence motifs at the beginning of RNA synthesis influence recursive splicing.
    • Early RNA processing events, dictated by first intron sequences, affect subsequent splicing.
    • The findings provide insights into the regulation of recursive splicing.