Is DMD p.Glu789fs (c.2366_2373del) pathogenic?

DMD p.Glu789fs (c.23662373del) is classified Likely pathogenic in DMD (ClinVar, Single submitter, 1 submitter; last evaluated 2023-02-28). Absent from gnomAD; Associated with Becker muscular dystrophy.

What condition is associated with DMD p.Glu789fs (c.2366_2373del)?

DMD p.Glu789fs (c.2366_2373del) is associated with Becker muscular dystrophy (ClinVar).

How common is DMD p.Glu789fs (c.2366_2373del) in the general population?

DMD p.Glu789fs (c.2366_2373del) is absent from gnomAD (gnomAD).

How is Becker muscular dystrophy inherited?

Typically X-linked recessive (Orphanet). A genetic counselor can assess individual risk for a family.

DMD p.Glu789fs

c.2366_2373del · rs2525247936 · VCV2674872

Likely pathogenic Single submitter

Classification

Likely pathogenic

ClinVar

Review

Single submitter ★☆☆☆

ClinVar · 1 submitter

Consequence

frameshift

predicted LoF

gnomAD v4.1

Not reported

no gnomAD frequency available for this variant

Conditions

Becker muscular dystrophy

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 19 of 79
Splicing
SpliceAI	—	not assessed · substitutions only
Constraint at this position
Conservation	phyloP 4.8	GERP 5.8, phastCons 1

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

Population frequency

dbSNP / gnomAD

No gnomAD frequency available for this variant. This is missing data, not an absence: the variant may or may not be present in gnomAD. Rarity (ACMG PM2) and BA1/BS1 cannot be assessed for it.

Variant & gene context

Gene: DMD
Protein: p.Glu789fs
Coding: c.2366_2373del
MANE Select: NM_004006
dbSNP: rs2525247936
Type: Deletion
Location: chrX:32501762 (GRCh38)

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

Disease context

Becker muscular dystrophy — disease report on Sugi Atlas → Associated genes, phenotypes, clinical trials & treatments

For Becker muscular dystrophy (Orphanet):

Inheritance: X-linked recessive
Onset: Adolescent, Adult, Childhood, Elderly
Prevalence: 1-9 / 100 000 (Europe)

Similar variants

DMD p.Glu789Ter Pathogenic ★ same residue
DMD p.Glu789Gly Uncertain significance ★ ⚠ same residue
DMD c.1813-29_1813-2del Likely pathogenic ★★ same condition
DMD c.4519-2_4523del Pathogenic ★★ same condition
DMD p.Ala192fs Pathogenic ★★ same condition
DMD p.Arg1910fs Pathogenic/Likely pathogenic ★★ same condition
DMD p.Asp652fs Pathogenic/Likely pathogenic ★★ same condition
DMD p.Gly1831fs 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/dmd-p-glu789fs (accessed [today's date]).

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