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  • See Evidence submitted by expert panel for details.

Variant: NM_000540.2(RYR1):c.3224G>A (p.Arg1075Gln)

CA064575

433176 (ClinVar)

Gene: RYR1
Condition: malignant hyperthermia of anesthesia
Inheritance Mode: Autosomal dominant inheritance
UUID: b85c4d12-0075-40a8-b7e8-e30d37a530a1
Approved on: 2022-03-14
Published on: 2022-03-14

HGVS expressions

NM_000540.2:c.3224G>A
NM_000540.2(RYR1):c.3224G>A (p.Arg1075Gln)
NC_000019.10:g.38467655G>A
CM000681.2:g.38467655G>A
NC_000019.9:g.38958295G>A
CM000681.1:g.38958295G>A
NC_000019.8:g.43650135G>A
NG_008866.1:g.38956G>A
ENST00000359596.8:c.3224G>A
ENST00000355481.8:c.3224G>A
ENST00000359596.7:n.3224G>A
ENST00000360985.7:c.3224G>A
ENST00000594111.1:n.317G>A
NM_001042723.1:c.3224G>A
NM_000540.3:c.3224G>A
NM_001042723.2:c.3224G>A
NM_000540.3(RYR1):c.3224G>A (p.Arg1075Gln)

Likely Benign

The Expert Panel has overridden the computationally generated classification - "Uncertain Significance - Conflicting Evidence"
Met criteria codes 2
BS2_Supporting PS4_Supporting
Not Met criteria codes 3
BP4 PP3 PM1

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 arginine with glutamine at codon 1075 of the RYR1 protein, p.(Arg1075Gln). The maximum allele frequency for this variant among the six major gnomAD populations is AMR: 0.000029, 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). One relative was shown to be heterozygous for the variant and IVCT negative, BS2_Moderate was implemented (PMID: 19454545). No functional studies were identified for this variant. This variant does not reside in a hotspot for pathogenic variants that contribute to MHS. A REVEL score of 0.846 supports neither a pathogenic nor a benign status for this variant. Based on using Bayes to combine criteria this variant is assessed as Likely Benign, (PMID: 29300386). Criteria implemented: PS4_Supporting, BS2_Moderate.
Met criteria codes
BS2_Supporting
One relative of an affected individual was shown to be heterozygous for the variant and IVCT negative, BS2_Moderate was implemented (PMID: 19454545).
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:30236257).
Not Met criteria codes
BP4
A REVEL score of 0.846 supports neither a pathogenic nor a benign status for this variant.
PP3
A REVEL score of 0.846 supports neither a pathogenic nor a benign status for this variant.
PM1
This variant does not reside in a hotspot for pathogenic variants that contribute to MHS.
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