Evidence map›Paper›PMID 42140670›Full record

ArticleGenes & development2026

The competition between splicing and 3' processing shapes the human transcriptome.

Lindsey V Soles, Shuangyu Li, Liang Liu, Kristianna S K Sarkan, Erik G Alvstad, Lusong Tian, Yoseop Yoon, Marielle Valdez, Ivan Marazzi, Yongsheng Shi

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Genes & development, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

1 citing paper in PubMed.

  1. Review
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

10 authors.

Lindsey V SolesDepartment of Microbiology and Molecular Genetics, School of Medicine, University of California, Irvine, Irvine, California 92617, USA.
Shuangyu LiDepartment of Microbiology and Molecular Genetics, School of Medicine, University of California, Irvine, Irvine, California 92617, USA.
Liang LiuDepartment of Microbiology and Molecular Genetics, School of Medicine, University of California, Irvine, Irvine, California 92617, USA.
Kristianna S K SarkanDepartment of Microbiology and Molecular Genetics, School of Medicine, University of California, Irvine, Irvine, California 92617, USA.
Erik G AlvstadDepartment of Biological Chemistry, School of Medicine, University of California, Irvine, Irvine, California 92617, USA.
Lusong TianDepartment of Microbiology and Molecular Genetics, School of Medicine, University of California, Irvine, Irvine, California 92617, USA.
Yoseop YoonDepartment of Microbiology and Molecular Genetics, School of Medicine, University of California, Irvine, Irvine, California 92617, USA.
Marielle ValdezDepartment of Microbiology and Molecular Genetics, School of Medicine, University of California, Irvine, Irvine, California 92617, USA.
Ivan MarazziDepartment of Biological Chemistry, School of Medicine, University of California, Irvine, Irvine, California 92617, USA.
Yongsheng ShiDepartment of Microbiology and Molecular Genetics, School of Medicine, University of California, Irvine, Irvine, California 92617, USA; yongshes@uci.edu.ORCID 0000-0003-2967-1230

Funding

Univ.of Calif., Irvine Cancer Center Support GrantP30CA062203 · NCI · UNIVERSITY OF CALIFORNIA-IRVINE · PI Melanie Funes · 1994 to 2026
$57.9M
mRNA alternative polyadenylation in B cell developmentR01AI170840 · NIAID · UNIVERSITY OF CALIFORNIA-IRVINE · PI Roger Sciammas, Yongsheng Shi · 2022 to 2026
$4.1M
Mechanisms and regulation of mRNA 3' processingR35GM149294 · NIGMS · UNIVERSITY OF CALIFORNIA-IRVINE · PI Yongsheng Shi · 2023 to 2026
$2.1M
NCI NIH HHS P30 CA062203NIAID NIH HHS R01 AI170840NIGMS NIH HHS R35 GM149294
6 · The paper itself

Abstract

Eukaryotic pre-mRNA processing steps, including splicing and 3' processing, are tightly coordinated, yet the underlying mechanisms remain incompletely understood. U1 snRNP has been proposed to inhibit 3' processing at intronic polyadenylation (IPA) sites through a splicing-independent mechanism termed telescripting. In contrast, we discovered that disrupting splicing by using six different methods-targeting various key components such as U1 snRNP, U2 snRNP, U2AF, and SF3b-activates 3' processing at thousands of IPA sites. Notably, splicing inhibition, especially of U1 snRNP, induced widespread premature transcription termination within gene bodies through both IPA-coupled and IPA-independent mechanisms. Inhibition of different splicing factors activated overlapping and distinct sets of IPA sites, reflecting their specific contributions to transcription and spliceosome function. Conversely, inhibition of 3' processing enhanced splicing globally. These findings support a model in which splicing and 3' processing are competing processes that intersect with transcription to shape the transcriptome landscape.

Indexed as

RNA 3' End ProcessingRNA SplicingTranscriptomeHeLa CellsHumansIntronsPolyadenylationRNA PrecursorsRNA Splicing FactorsRNA PrecursorsRNA Splicing Factorscleavage and polyadenylationgene expressionintronic polyadenylationpre-mRNA 3′ processingpre-mRNA processingpre-mRNA splicingtranscription elongationtranscription regulation

Identifiers

PMID42140670
PMCPMC13322065

What OpenQuestion holds

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Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.