Evidence map›Paper›PMID 42353874›Full record

ArticleGenes2026

First Exonic Cryptic Branchpoint Variant in an Inherited Retinal Degeneration Detected in an Irish

Ella Kopčić, Laura Whelan, Ciara Shortall, Anna R Ridgeway, Laura K Finnegan, Adrian Dockery, Sophia Millington-Ward, Emma Duignan, Paul F Kenna, G Jane Farrar and 1 more

Abstract read
In one paragraph

Article in Genes, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing 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

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

11 authors.

Ella KopčićThe School of Genetics and Microbiology, Trinity College Dublin, Dublin 2, D02 VF25 Dublin, Ireland.ORCID 0000-0002-3977-851X
Laura WhelanThe School of Genetics and Microbiology, Trinity College Dublin, Dublin 2, D02 VF25 Dublin, Ireland.
Ciara ShortallThe School of Genetics and Microbiology, Trinity College Dublin, Dublin 2, D02 VF25 Dublin, Ireland.
Anna R RidgewayThe School of Genetics and Microbiology, Trinity College Dublin, Dublin 2, D02 VF25 Dublin, Ireland.ORCID 0009-0005-3533-3395
Laura K FinneganThe School of Genetics and Microbiology, Trinity College Dublin, Dublin 2, D02 VF25 Dublin, Ireland.ORCID 0000-0002-3395-1211
Adrian DockeryThe School of Genetics and Microbiology, Trinity College Dublin, Dublin 2, D02 VF25 Dublin, Ireland.ORCID 0000-0002-3423-2542
Sophia Millington-WardThe School of Genetics and Microbiology, Trinity College Dublin, Dublin 2, D02 VF25 Dublin, Ireland.ORCID 0000-0001-7470-0702
Emma DuignanDepartment of Ophthalmology, Royal Victoria Eye and Ear Hospital, Dublin 2, D02 XK51 Dublin, Ireland.
Paul F KennaThe School of Genetics and Microbiology, Trinity College Dublin, Dublin 2, D02 VF25 Dublin, Ireland.
G Jane FarrarThe School of Genetics and Microbiology, Trinity College Dublin, Dublin 2, D02 VF25 Dublin, Ireland.
Naomi ChaddertonThe School of Genetics and Microbiology, Trinity College Dublin, Dublin 2, D02 VF25 Dublin, Ireland.ORCID 0000-0002-1684-1598

Funding

Fighting Blindness FB22FAR and FB16FARHealth Research Board of Ireland-Health Research Charities Ireland MRCG-2016-14; HRCI-HRB-2020-007; HRCI-HRB-2024-006Irish Research Council GOIPG/2017/1631 and GOIPG/2025/8455Research Ireland 22/FFP-A/10544Science Foundation Ireland 16/IA/4452
6 · The paper itself

Abstract

objectivesThis study investigated a variant,

methodsThree related individuals presenting with XLRP underwent target-capture sequencing, together with confirmatory Sanger sequencing and cascade analyses, to identify candidate variants. In silico investigations were undertaken using SpliceAI (version 1.3.1) and Alamut Visual software (version 2.13), among others. Functional analyses using in vitro midigene splice assays employing gateway expression vectors were undertaken. Variant and wildtype RNA were amplified by RT-PCR to investigate effects on splicing.

resultsMidigene investigation confirmed a cryptic acceptor site is being utilised together with the cryptic branchpoint motif to excise intron 10 and 90 bases of exon 11, leading to a frameshift and the creation of a premature stop codon. No functional RPGR transcript is predicted to remain. Given evidence of aberrant splicing, the variant classification was upgraded to pathogenic.

conclusions

Indexed as

Eye ProteinsGenetic Diseases, X-LinkedRetinal DegenerationRetinitis PigmentosaExonsFemaleHumansIrelandMalePedigreeRNA SplicingEye ProteinsRPGR protein, humancryptic branchpointfunctional analysisinherited retinal diseaseintronic variantmidigene splice assaynext-generation sequencingsplicingvariant interpretationvariant of uncertain significanceX-linked retinitis pigmentosa

Identifiers

PMID42353874
PMCPMC13299469

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

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.