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Variant: NM_000540.2(RYR1):c.178G>A (p.Asp60Asn)

CA024309

65932 (ClinVar)

Gene: RYR1
Condition: malignant hyperthermia, susceptibility to, 1
Inheritance Mode: Autosomal dominant inheritance
UUID: e002701f-38e6-4152-b7cf-78912c909e48
Approved on: 2023-04-06
Published on: 2023-04-06

HGVS expressions

NM_000540.2:c.178G>A
NM_000540.2(RYR1):c.178G>A (p.Asp60Asn)
NC_000019.10:g.38442361G>A
CM000681.2:g.38442361G>A
NC_000019.9:g.38933001G>A
CM000681.1:g.38933001G>A
NC_000019.8:g.43624841G>A
NG_008866.1:g.13662G>A
ENST00000599547.6:n.178G>A
ENST00000359596.8:c.178G>A
ENST00000355481.8:c.178G>A
ENST00000359596.7:n.178G>A
ENST00000360985.7:c.178G>A
NM_001042723.1:c.178G>A
NM_000540.3:c.178G>A
NM_001042723.2:c.178G>A
NM_000540.3(RYR1):c.178G>A (p.Asp60Asn)

Uncertain Significance

Met criteria codes 2
PS4_Supporting PM1
Not Met criteria codes 4
BS1 BP4 BA1 PP3

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 Aspartic Acid with Asparagine at codon 60 of the RYR1 protein, p.(Asp60Asn). 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:30236257 ). A functional study was published for this variant analyzing the effect of the variant on the stability of the protein, this assay is not considered a standard assay by the ClinGen RYR1 VCEP for MHS (PMID:23422674). This variant resides in a region of RYR1 considered to be a hotspot for pathogenic variants that contribute to MHS, PM1 (PMID: 21118704). A REVEL score of 0.736 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, PM1.
Met criteria codes
PS4_Supporting
One family reported with positive IVCT analysis. PMID:30236257 
PM1
In N-terminal RYR1 hotspot.
Not Met criteria codes
BS1
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
BP4
REVEL 0.736
BA1
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
PP3
REVEL 0.636
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