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Variant: NM_000540.2(RYR1):c.12355A>T (p.Asn4119Tyr)

CA023980

133036 (ClinVar)

Gene: RYR1
Condition: malignant hyperthermia, susceptibility to, 1
Inheritance Mode: Autosomal dominant inheritance
UUID: a547d652-d44e-4011-acc8-60f9bf27cdca
Approved on: 2023-04-06
Published on: 2023-04-06

HGVS expressions

NM_000540.2:c.12355A>T
NM_000540.2(RYR1):c.12355A>T (p.Asn4119Tyr)
NC_000019.10:g.38561185A>T
CM000681.2:g.38561185A>T
NC_000019.9:g.39051825A>T
CM000681.1:g.39051825A>T
NC_000019.8:g.43743665A>T
NG_008866.1:g.132486A>T
ENST00000688602.1:n.765A>T
ENST00000689936.1:n.747A>T
ENST00000359596.8:c.12355A>T
ENST00000355481.8:c.12340A>T
ENST00000359596.7:n.12355A>T
ENST00000360985.7:c.12337A>T
ENST00000594335.5:n.5724A>T
NM_001042723.1:c.12340A>T
NM_000540.3:c.12355A>T
NM_001042723.2:c.12340A>T
NM_000540.3(RYR1):c.12355A>T (p.Asn4119Tyr)
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Uncertain Significance

Met criteria codes 1
PS4_Supporting
Not Met criteria codes 2
PP3 PS3

Evidence Links 0

Expert Panel

Criteria Specification Information

Criteria Specifications for this VCEP
Evidence submitted by expert panel
Malignant Hyperthermia Susceptibility VCEP
This pathogenicity assessment is relevant only for malignant hyperthermia susceptibility (MHS) inherited in an autosomal dominant pattern. Variants in RYR1 can also cause other myopathies inherited in an autosomal dominant pattern or in an autosomal recessive pattern. Some of these disorders may predispose individuals to malignant hyperthermia. RYR1 variants may also contribute to a malignant hyperthermia reaction in combination with other genetic and non-genetic factors and the clinician needs to consider such factors in making management decisions. This sequence variant predicts a substitution of asparagine with tyrosine at codon 4119 of the RYR1 protein, p.(Asn4119Tyr). The maximum allele frequency for this variant among the six major gnomAD populations is NFE: 0.000016, a frequency consistent with pathogenicity for MHS. This variant has been reported in an individual with a personal or family history of an MH episode and a positive in vitro contracture test (IVCT) or caffeine halothane contracture test (CHCT) result (if the proband was unavailable for testing, a positive diagnostic test result in a mutation-positive relative was counted), PS4_Supporting (PMID:15731587). A functional study using [3H]ryanodine in HEK293 cells showed altered activity of this variant compared to wild-type but this study did not meet the VCEP criteria for a well-established functional study (PMID:27558158). This variant does not reside in a hotspot for pathogenic variants that contribute to MHS. A REVEL score of 0.813 supports neither a pathogenic nor a benign status for this variant. This variant has been classified as a Variant of Unknown Significance. Criteria implemented: PS4_Supporting.
Met criteria codes
PS4_Supporting
This variant has been reported in an individual with a personal or family history of an MH episode and a positive in vitro contracture test (IVCT) or caffeine halothane contracture test (CHCT) result (if the proband was unavailable for testing, a positive diagnostic test result in a mutation-positive relative was counted), PS4_Supporting (PMID:15731587).
Not Met criteria codes
PP3
A REVEL score of 0.813 supports neither a pathogenic nor a benign status for this variant.
PS3
A functional study using [3H]ryanodine in HEK293 cells showed altered activity of this variant compared to wild-type but this study did not meet the VCEP criteria for a well-established functional study (PMID:27558158).
Curation History
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