The ClinGen Evidence Repository is an FDA-recognized human genetic variant database containing expert-curated assertions regarding variants' pathogenicity and supporting evidence summaries. [Disclaimer]
  • Gene obtained from curated document aligns with the Allele Registry but not with ClinVar data
  • No CSPEC computed assertion could be determined for this classification!


Variant: NM_001005361.3(DNM2):c.1948G>A (p.Glu650Lys)

CA404041406

931135 (ClinVar)

Gene: DNM2 (HGNC:1785)
Condition: centronuclear myopathy (MONDO:0018947)
Inheritance Mode: Autosomal dominant inheritance
UUID: 0e6c1bc9-e28b-4dbe-b2be-5d199e96fd13
Approved on: 2024-08-07
Published on: 2024-10-01

HGVS expressions

NM_001005361.3:c.1948G>A
NM_001005361.3(DNM2):c.1948G>A (p.Glu650Lys)
NC_000019.10:g.10825111G>A
CM000681.2:g.10825111G>A
NC_000019.9:g.10935787G>A
CM000681.1:g.10935787G>A
NC_000019.8:g.10796787G>A
NG_008792.1:g.112033G>A
ENST00000681972.1:n.1379G>A
ENST00000355667.11:c.1948G>A
ENST00000389253.9:c.1948G>A
ENST00000355667.10:c.1948G>A
ENST00000359692.10:c.1936G>A
ENST00000389253.8:c.1948G>A
ENST00000408974.8:c.1936G>A
ENST00000585892.5:c.1948G>A
ENST00000590806.5:n.4136G>A
ENST00000593203.1:n.731G>A
NM_001005360.2:c.1948G>A
NM_001005361.2:c.1948G>A
NM_001005362.2:c.1936G>A
NM_001190716.1:c.1948G>A
NM_004945.3:c.1936G>A
NM_001190716.2:c.1948G>A
NM_001005360.3:c.1948G>A
NM_001005362.3:c.1936G>A
NM_004945.4:c.1936G>A
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Likely Pathogenic

Met criteria codes 5
PP1_Moderate PM2_Supporting PS3_Supporting PS4 PP2

Evidence Links 0

Expert Panel

Criteria Specification Information

Criteria Specification: ClinGen Congenital Myopathies Expert Panel Specifications to the ACMG/AMP Variant Interpretation Guidelines for DNM2 Version 1.0.0

Criteria Specification Approval History
Criteria Specifications for this VCEP
Evidence submitted by expert panel
Congenital Myopathies VCEP
The c.1948G>A (NM_001005361.3(DNM2):c.1948G>A (p.Glu650Lys)) variant in DNM2 is a missense variant predicted to cause substitution of glutamic acid by lysine at amino acid 650. This variant has been reported in 7 probands from 3 families all meeting phenotypic criteria and six having ptosis (PS4; PMIDs: 19623537, 24465259, 31655408). The variant has been reported to segregate with centronuclear myopathy in 4 affected individuals from one family (PP1_Moderate; PMID: 19623537). This variant is absent from gnomAD v4.1 (PM2_Supporting). DNM2, in which the variant was identified, is defined by the ClinGen Congenital Myopathies VCEP as a gene that has a low rate of benign missense variation and where pathogenic missense variants are a common mechanism of disease (PP2). An in-vitro cell culture in muscle cells showed increased GTPase activity indicating that this variant impacts protein function (PMID: 26199319, PS3_Supporting). In summary, this variant meets the criteria to be classified as likely pathogenic for autosomal dominant centronuclear myopathy based on the ACMG/AMP criteria applied, as specified by the ClinGen Congenital Myopathies VCEP: PS4, PP1_Moderate, PP2, PM2_Supporting, PS3_Supporting. (ClinGen Congenital Myopathies VCEP specifications version 1; 8/7/2024)
Met criteria codes
PP1_Moderate
The variant has been reported to segregate with centronuclear myopathy in 4 affected individuals from one family (PP1_moderate; PMID: 19623537).
PM2_Supporting
This variant is absent from gnomAD v2.1.1 (PM2_Supporting). Coverage of the gene in the region in which the variant is found is adequate.
PS3_Supporting
An in-vitro cell culture in muscle cells showed increased GTPase activity indicating that this variant impacts protein function (PMID: 26199319, PS3_Supporting).
PS4
This variant has been reported in 7 probands from 3 families meeting phenotypic criteria distal weakness and ptosis (PS4; PMIDs: 24465259, 19623537; https://doi.org/10.21203/rs.2.1852/v1).
PP2
DNM2, in which the variant was identified, is defined by the ClinGen Congenital Myopathies VCEP as a gene that has a low rate of benign missense variation and where pathogenic missense variants are a common mechanism of disease (PP2). Z score for the gene is 3.48 for missense variants.
Curation History
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