Variant: NM_000540.2(RYR1):c.14002C>T (p.Pro4668Ser)

CA024099

133056 (ClinVar)

Gene: RYR1

Condition: malignant hyperthermia of anesthesia

Inheritance Mode: Autosomal dominant inheritance

UUID: 25ff5ca7-5ae6-42cf-8491-dee668263c63

Approved on: 2023-04-06

Published on: 2023-04-06

HGVS expressions

NM_000540.2:c.14002C>T
NM_000540.2(RYR1):c.14002C>T (p.Pro4668Ser)
NC_000019.10:g.38573180C>T
CM000681.2:g.38573180C>T
NC_000019.9:g.39063820C>T
CM000681.1:g.39063820C>T
NC_000019.8:g.43755660C>T
NG_008866.1:g.144481C>T
ENST00000593677.2:n.938C>T
ENST00000688602.1:n.2335C>T
ENST00000689936.1:n.2307C>T
ENST00000359596.8:c.14002C>T
ENST00000355481.8:c.13987C>T
ENST00000359596.7:n.14002C>T
ENST00000360985.7:c.13984C>T
NM_001042723.1:c.13987C>T
NM_000540.3:c.14002C>T
NM_001042723.2:c.13987C>T
NM_000540.3(RYR1):c.14002C>T (p.Pro4668Ser)

Uncertain Significance

• Met criteria codes: PP3_Moderate PM1_Supporting

• Not Met criteria codes: PS4

Expert Panel

Malignant Hyperthermia Susceptibility VCEP

Criteria Specification Information

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 proline with serine at codon 4668 of the RYR1 protein, p.(Pro4668Ser). The maximum allele frequency for this variant among the six major gnomAD populations is NFE: 0.00000799, a frequency consistent with pathogenicity for MHS. This variant has been reported in one individual with a personal or family history of a malignant hyperthermia reaction. This individual did not have a positive in vitro contracture test (IVCT) or caffeine halothane contracture test (CHCT) result (PMID: 11928716), as well this individual had a second RYR1 variant, p.(Leu4838Val), that is classified as Likely Pathogenic, PS4 was not implemented. No functional studies were identified for this variant. This variant resides in a region of RYR1 considered to be a hotspot for pathogenic variants that contribute to MHS, PM1_Sup (PMID: 21118704). A REVEL score >0.85 (0.888) supports a pathogenic status for this variant, PP3_Moderate. This variant has been classified as a Variant of Unknown Significance. Criteria implemented: PM1_Supporting, PP3_Moderate.

Met criteria codes

• PP3_Moderate: A REVEL score >0.85 (0.888) supports a pathogenic status for this variant, PP3_Moderate.
• PM1_Supporting: This variant resides in a region of RYR1 considered to be a hotspot for pathogenic variants that contribute to MHS, PM1_Sup (PMID: 21118704).

Not Met criteria codes

• PS4: This variant has been reported in one individual with a personal or family history of a malignant hyperthermia reaction. This individual did not have a positive in vitro contracture test (IVCT) or caffeine halothane contracture test (CHCT) result (PMID: 11928716), as well this individual had a second RYR1 variant, p.(Leu4838Val), that is classified as Likely Pathogenic, PS4 was not implemented.