The ClinGen Evidence Repository is an FDA-recognized human genetic variant database containing expert-curated assertions regarding variants' pathogenicity and supporting evidence summaries. [Disclaimer]
x This classification has been retracted/unpublished!

  • See Evidence submitted by expert panel for details.

Variant: NM_000257.4(MYH7):c.1357C>A (p.Arg453Ser)

CA010621

14129 (ClinVar)

Gene: MYH7
Condition: hypertrophic cardiomyopathy
Inheritance Mode: Autosomal dominant inheritance
UUID: e324a6b6-6afc-422c-895f-6f899dc1576a
Approved on: 2021-06-16
Published on: 2021-10-13

HGVS expressions

NM_000257.4:c.1357C>A
NM_000257.4(MYH7):c.1357C>A (p.Arg453Ser)
NC_000014.9:g.23429005G>T
CM000676.2:g.23429005G>T
NC_000014.8:g.23898214G>T
CM000676.1:g.23898214G>T
NC_000014.7:g.22968054G>T
NG_007884.1:g.11657C>A
ENST00000355349.4:c.1357C>A
ENST00000355349.3:c.1357C>A
NM_000257.3:c.1357C>A

Pathogenic

Met criteria codes 5
PS4_Supporting PP3 PM5 PM2 PP1_Strong
Not Met criteria codes 15
BS4 BS3 BS1 BP3 BP5 BP2 BP4 BA1 PS3 PS2 PS1 PM4 PM6 PM1 PVS1

Evidence Links 0

Expert Panel

Criteria Specification Information

Criteria Specifications for this VCEP
Evidence submitted by expert panel
Cardiomyopathy VCEP
The c.1357C>A (p.Arg453Ser) variant in MYH7 has been identified in 3 individuals with HCM, including 1 individual with early onset HCM (<20 yo; PS4_Supporting; Frazier 2008 PMID:18175163; Walsh 2017 PMID:27532257; Centenary Institute Sydney pers. comm.; LMM pers. comm.) and segregated with disease in 9 affected relatives with HCM from 2 families (PP1_Strong; Centenary Institute Sydney pers. comm.; LMM pers. comm.). This variant was absent from large population studies (PM2; http:/gnomad.broadinstitute.org, v2.1.1). Computational prediction tools and conservation analysis suggest that this variant may impact the protein (PP3). Two different missense variants that have been classified as pathogenic by this expert panel have been previously identified at this codon, which indicate that this residue may be critical to the function of the protein (PM5; c.1358G>T, p.Arg453His - Variation ID 42838 and c.1357C>T, p.Arg453Cys - Variation ID 14089). This variant lies in the head region of the protein (aa 181-937) and missense variants in this region are statistically more likely to be disease-associated (PM1; Walsh 2017 PMID:27532257); however, because the other pathogenic variants at this codon were used to establish this enrichment, PM1 cannot be used in combination with PM5. In summary, this variant meets criteria to be classified as likely pathogenic for hypertrophic cardiomyopathy in an autosomal dominant manner. MYH7-specific ACMG/AMP criteria applied (Kelly 2018 PMID:29300372): PS4_Supporting; PP1_Strong; PM2; PP3; PM5.
Met criteria codes
PS4_Supporting
Proband counting = 3 Variant identified in 1 proband and 1 segregation per Frazier A, 2008 (PMID 18175163) Also identified by the Laboratory of Molecular Medicine (LMM) in 1 individual with HCM and 1 segregation (per Internal Data log) And in 1 individual and 8 segregations as identified by the Sydney Laboratory Group (per Internal Data log)
PP3
Deleterious effect supported by Provean, Mutation Taster, PolyPhen, Sift. REVEL data concordant.
PM5
Arg453Cys and Arg453His are Pathogenic by ClinGen EP
PM2
Absent in GnomAD (Captured on 4/24/2020). Good quality coverage
PP1_Strong
Total of segregation events = 10 1 segregation (HCM) reported by Frazier a, et al, 2008 publication (PMID 18175163) 1 segregation (HCM) reported by the Laboratory of Molecular Medicine (LMM) 8 segregations (HCM) reported by the Syndney laboratory
Not Met criteria codes
BS4
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
BS3
n/a
BS1
Absent in GnomAD (Captured on 4/24/2020). Good quality coverage
BP3
n/a
BP5
n/a
BP2
n/a
BP4
Deleterious effect supported by Provean, Mutation Taster, PolyPhen, Sift. REVEL data concordant.
BA1
Absent in GnomAD (Captured on 4/24/2020). Good quality coverage
PS3
n/a
PS2
n/a
PS1
n/a
PM4
n/a
PM6
n/a
PM1
Located in the head domain (Walsh et al. PMID: 27532257). Two different missense variants that have been classified as pathogenic by this expert panel have been previously identified at this codon, which indicate that this residue may be critical to the function of the protein (PM5; c.1358G>T, p.Arg453His - Variation ID 42838 and c.1357C>T, p.Arg453Cys - Variation ID 14089). This variant lies in the head region of the protein (aa 181-937) and missense variants in this region are statistically more likely to be disease-associated (Walsh 2017 PMID:27532257); however, because the other pathogenic variants at this codon were used to establish this enrichment, PM1 cannot be used in combination with PM5.
PVS1
n/a
The information on this website is not intended for direct diagnostic use or medical decision-making without review by a genetics professional. Individuals should not change their health behavior solely on the basis of information contained on this website. If you have questions about the information contained on this website, please see a health care professional.
¤ Powered by BCM's Genboree.