The ClinGen Evidence Repository is an FDA-recognized human genetic variant database containing expert-curated assertions regarding variants' pathogenicity and supporting evidence summaries. [Disclaimer]

  • See Evidence submitted by expert panel for details.

Variant: NM_000257.4(MYH7):c.1370T>C (p.Ile457Thr)

CA010654

42840 (ClinVar)

Gene: MYH7
Condition: hypertrophic cardiomyopathy
Inheritance Mode: Autosomal dominant inheritance
UUID: 74a56f48-1dcb-4af4-bdf7-0a4a2f02d459
Approved on: 2021-09-22
Published on: 2021-10-01

HGVS expressions

NM_000257.4:c.1370T>C
NM_000257.4(MYH7):c.1370T>C (p.Ile457Thr)
ENST00000355349.4:c.1370T>C
ENST00000355349.3:c.1370T>C
NM_000257.3:c.1370T>C
NC_000014.9:g.23428992A>G
CM000676.2:g.23428992A>G
NC_000014.8:g.23898201A>G
CM000676.1:g.23898201A>G
NC_000014.7:g.22968041A>G
NG_007884.1:g.11670T>C

Likely Pathogenic

Met criteria codes 4
PS4 PP3 PM1 PM2
Not Met criteria codes 16
PS3 PS2 PS1 PP1 PM6 PM4 PM5 BA1 PVS1 BS4 BS3 BS1 BP7 BP2 BP5 BP4

Evidence Links 0

Expert Panel

Criteria Specification Information

Criteria Specifications for this VCEP
Evidence submitted by expert panel
Cardiomyopathy VCEP
The c.1370T>C (p.Ile457Thr) variant in MYH7 has been identified in >20 individuals with HCM (PS4_Strong; Waldmüller 2011 PMID: 21750094; Fokstuen 2011 PMID: 21239446; Helms 2016: 27688314; Homburger 2016 PMID: 27247418; Murphy 2016 PMID: 26914223; Ingles 2017 PMID: 28408708; Ross 2017 PMID: 28615295; Viswanathan 2017 PMID: 29121657; Walsh 2017 PMID:27532257; Ko 2018 PMID: 28640247; Centenary Institute Sydney pers. comm.; GeneDx pers. comm., Invitae pers. comm.; LMM pers. comm.; OGML pers. comm.). This variant also segregated with HCM in 1 affected relative (GeneDx pers. comm.); however, this data is currently insufficient to establish co-segregation with disease and apply PP1. Additionally, this variant has also been reported in 1 individual with left bundle branch block, 1 individual with sudden cardiac arrest (who carried additional variants in other cardiomyopathy associated genes) and 1 individual with myopathy who also had additional variants in myopathy-associated genes and segregated with myopathy in one affected relative (Ambry pers. comm.; CHEO pers. comm.; Invitae pers. comm.). This variant has also been identified in 0.0009% (1/113764) of European chromosomes by gnomAD v2.1.1 (PM2; http://gnomad.broadinstitute.org). In vitro functional studies provide some evidence that this variant could impact protein function (Adhikari 2019 PMID: 31213605); however, this data is currently insufficient to establish functional impact and apply PS3. 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). Computational prediction tools and conservation analysis suggest that this variant may impact the protein (PP3). 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; PM2; PM1; PP3.
Met criteria codes
PS4
> 15 HCM probands in Internal data log alone (4 GeneDx, 6 Invitae, 3 LMM, 3 OMGL, 1 Sydney), plus lit probands, though significant overlap with internal data log.
PP3
BayesDel deleterious
PM1
located in head domain
PM2
1/251490 total alleles in gnomAD
Not Met criteria codes
PS3
No mammalian knock-in models
PS2
no de novo cases reported
PS1
No such variant has been reported.
PP1
Only 1 segregation reported by GeneDx in internal data log for HCM. 1 seg for myopathy phenotype reported by Invitae for myopathy phenotype.
PM6
no de novo cases reported
PM4
missense variant
PM5
I457R does not meet pathogenic criteria (PM1, PM2, PP3)
BA1
only 1 allele in gnomAD
PVS1
missense variant
BS4
no failure to segregate reported.
BS3
No mammalian knock-in models
BS1
only 1 allele in gnomAD
BP7
missense variant
BP2
no phase data for any probands.
BP5
3 HCM probands reported by GeneDx with co-occurring MYH7 variants, but it's unclear if those variants are pathogenic and also no information on the severity of the phenotype.
BP4
BayesDel deleterious
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