Is DSP p.Glu1159fs (c.3474dup) pathogenic?

DSP p.Glu1159fs (c.3474dup) is classified Pathogenic in DSP (ClinVar, Multiple submitters, 3 submitters; last evaluated 2026-01-06). Very rare (popmax 6.84e-05%); Associated with Cardiovascular phenotype.

What condition is associated with DSP p.Glu1159fs (c.3474dup)?

DSP p.Glu1159fs (c.3474dup) is associated with Cardiovascular phenotype, dilated cardiomyopathy, arrhythmogenic cardiomyopathy with wooly hair and keratoderma (ClinVar).

How common is DSP p.Glu1159fs (c.3474dup) in the general population?

DSP p.Glu1159fs (c.3474dup) is very rare (popmax 6.84e-05%) (gnomAD).

DSP p.Glu1159fs

c.3474dup · rs727503000 · VCV517147

Pathogenic Multiple submitters

Classification

Pathogenic

ClinVar

Review

Multiple submitters ★★☆☆

ClinVar · 3 submitters

Consequence

frameshift

predicted LoF

gnomAD v4.1

Rare

very rare (popmax 6.84e-05%)

Conditions

Cardiovascular phenotype

Computational evidence

Protein change
Missense predictors do not apply to this variant type; conservation carries the signal.
Consequence	frameshift	predicted loss-of-function in a haploinsufficient gene (ClinGen)
NMD	predicted	premature termination codon in exon 23 of 24
Splicing
SpliceAI	—	not assessed · substitutions only
Constraint at this position
Conservation	phyloP 7.9	GERP 0.21, phastCons 0.99

Predicted loss-of-function is descriptive, not an applied PVS1 code.

Population frequency

gnomAD v4.1 · exomes + genomes

Grpmax group 6.84e-05%

Overall 6.84e-05% 1/1,461,732 alleles · very rare

Rarity supports pathogenicity (ACMG PM2); frequency above a disease-specific BA1/BS1 threshold argues against it. A variant frequent in one ancestry group can be near-absent in others, so a single global figure can mislead.

Variant & gene context

Gene: DSP
Protein: p.Glu1159fs
Coding: c.3474dup
MANE Select: NM_004415
dbSNP: rs727503000
Type: Duplication
Location: chr6:7579663 (GRCh38)
Gene constraint: LOEUF 0.443 · pLI 1.00 · ClinGen HI 3/3 (gnomAD)
Residue 1159: a UniProt-annotated variant site (in arvd8; uncertain significance); a UniProt-annotated variant site (in dcwhkta; uncertain significance); the 'central fibrous rod domain' region; the 'binds to telomeres' region; a UniProt-annotated variant site (in arvd8; likely pathogenic; results in an unstable protein that forms perinuclear aggregates); a UniProt-annotated variant site (in arvd8 and dcwhkta; uncertain significance); a UniProt-annotated variant site (in arvd8)

Full DSP gene report on Sugi Atlas → Gene function, pathways, protein structure, interactions & more

Disease context

Cardiovascular phenotype — disease report on Sugi Atlas → Associated genes, phenotypes, clinical trials & treatments

Also linked: dilated cardiomyopathy arrhythmogenic cardiomyopathy with wooly hair and keratoderma arrhythmogenic right ventricular dysplasia 8 arrhythmogenic right ventricular cardiomyopathy

Similar variants

DSP p.Arg2151fs Pathogenic/Likely pathogenic ★★ same condition
DSP p.Arg2156fs Pathogenic/Likely pathogenic ★★ same condition
DSP p.Asn1234fs Pathogenic ★★ same condition
DSP p.Asn1865fs Pathogenic ★★ same condition
DSP p.Asn274fs Pathogenic ★★ same condition
DSP p.Asp1248fs Pathogenic ★★ same condition
DSP p.Gln1467fs Pathogenic/Likely pathogenic ★★ same condition
DSP p.Gln216fs Pathogenic ★★ same condition

Built on 18 open, versioned datasets — ClinVar, gnomAD, AlphaMissense, REVEL, ClinGen & more — plus Sugi Variant's own cross-source analysis. Source data 2026-01–2026-10, ClinVar 2026-10. Full sources & versions →

Cite Sugi Variant

Gür T. Sugi Variant: A Deterministic Per-Variant Germline Reference from a Knowledge Graph for Humans and AI Agents. 2026. doi:10.5281/zenodo.21509445. This variant: https://sugi.bio/variant/dsp-p-glu1159fs (accessed [today's date]).

Preprint & method: sugi.bio/variant/method Machine-readable: this page as Markdown