The ClinGen Evidence Repository is an FDA-recognized human genetic variant database containing expert-curated assertions regarding variants' pathogenicity and supporting evidence summaries. [Disclaimer]
  • No ClinVar Id was directly found from the curated document
  • ClinVar Id was derived from the Allele Registry.
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  • See Evidence submitted by expert panel for details.

Variant: NM_001042723.2:c.533A>G

CA405677115

1330371 (ClinVar)

Gene: RYR1
Condition: malignant hyperthermia of anesthesia
Inheritance Mode: Autosomal dominant inheritance
UUID: c6c2b3b8-5251-442f-aaae-d5dfe9ced9bb
Approved on: 2023-04-06
Published on: 2023-04-06

HGVS expressions

NM_001042723.2:c.533A>G
NC_000019.10:g.38444257A>G
CM000681.2:g.38444257A>G
NC_000019.9:g.38934897A>G
CM000681.1:g.38934897A>G
NC_000019.8:g.43626737A>G
NG_008866.1:g.15558A>G
ENST00000599547.6:n.533A>G
ENST00000359596.8:c.533A>G
ENST00000355481.8:c.533A>G
ENST00000359596.7:n.533A>G
ENST00000360985.7:c.533A>G
NM_000540.2:c.533A>G
NM_001042723.1:c.533A>G
NM_000540.3:c.533A>G
NM_000540.3(RYR1):c.533A>G (p.Tyr178Cys)
More

Likely Pathogenic

The Expert Panel has overridden the computationally generated classification - "Uncertain Significance - Insufficient Evidence"
Met criteria codes 5
PP3_Moderate PS2_Moderate PM1 PS4_Supporting PP1
Not Met criteria codes 4
BS1 BP4 BA1 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 tyrosine with cysteine at codon 178 of the RYR1 protein, p.(Tyr178Cys). This variant was not present in a large population database (gnomAD) at the time this variant was interpreted. 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:16163667). In one individual the variant was determined to be de novo with confirmed parentage, PS2_Moderate. 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 (PMID: 21118704). This variant segregates with MHS in three individuals, PP1 (PMID:16163667). A REVEL score >0.85 (0.951) supports a pathogenic status for this variant, PP3_Moderate. Based on using Bayes to combine criteria this variant is assessed as Likely Pathogenic, (PMID: 29300386). Criteria implemented: PS2_Moderate, PS4_Supporting, PM1, PP1, PP3_Moderate.
Met criteria codes
PP3_Moderate
A REVEL score >0.85 (0.951) supports a pathogenic status for this variant, PP3_Moderate.
PS2_Moderate
In one individual the variant was determined to be de novo with confirmed parentage, PS2_Moderate.
PM1
This variant resides in a region of RYR1 considered to be a hotspot for pathogenic variants that contribute to MHS, PM1 (PMID: 21118704).
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:16163667).
PP1
This variant segregates with MHS in three individuals, PP1_Supporting (PMID:16163667).
Not Met criteria codes
BS1
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
BP4
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
BA1
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
PS3
No functional studies were identified for this variant.
Curation History
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