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Variant: NM_000540.3(RYR1):c.7354C>T (p.Arg2452Trp)

CA024770

65979 (ClinVar)

Gene: RYR1
Condition: malignant hyperthermia, susceptibility to, 1
Inheritance Mode: Autosomal dominant inheritance
UUID: 1996417b-4e88-4f60-afcb-f134bc9f2346
Approved on: 2023-04-07
Published on: 2023-04-07

HGVS expressions

NM_000540.3:c.7354C>T
NM_000540.3(RYR1):c.7354C>T (p.Arg2452Trp)
NC_000019.10:g.38500636C>T
CM000681.2:g.38500636C>T
NC_000019.9:g.38991276C>T
CM000681.1:g.38991276C>T
NC_000019.8:g.43683116C>T
NG_008866.1:g.71937C>T
ENST00000599547.6:n.7354C>T
ENST00000359596.8:c.7354C>T
ENST00000355481.8:c.7354C>T
ENST00000359596.7:n.7354C>T
ENST00000360985.7:c.7351C>T
ENST00000594335.5:n.806C>T
NM_000540.2:c.7354C>T
NM_001042723.1:c.7354C>T
NM_001042723.2:c.7354C>T
More

Likely Pathogenic

The Expert Panel has overridden the computationally generated classification - "Uncertain Significance - Insufficient Evidence"
Met criteria codes 4
PP1_Moderate PM1 PS4_Moderate PS3_Moderate
Not Met criteria codes 4
PP3 BA1 BS1 BP4

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 tryptophan at codon 2452 of the RYR1 protein, p.(Arg2452Trp). This variant was not present in a large population database (gnomAD) at the time this variant was interpreted. This variant has been reported in five unrelated individuals who have a personal or family history of a malignant hyperthermia reaction, all of these individuals had 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_Moderate (PMID: 30236257, 10823104, 12059893, 24433488). This variant segregates with MHS in five families/individuals, PP1_Moderate (PMID:30236257, 10823104, 12059893, 25086907). A functional study in HEK293 cells shows an increased sensitivity to RYR1 agonists, PS3_Moderate (PMID: 25086907). 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 0.828 supports neither a pathogenic nor a benign status for this variant. This variant has been classified as Likely Pathogenic. Criteria implemented: PS3_Moderate, PS4_Moderate, PM1, PP1_Moderate.
Met criteria codes
PP1_Moderate
This variant segregates with MHS in five families/individuals, PP1_Moderate (PMID:30236257, 10823104, 12059893, 25086907).
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_Moderate
This variant has been reported in five unrelated individuals who have a personal or family history of a malignant hyperthermia reaction, all of these individuals had 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_Moderate (PMID: 30236257, 10823104, 12059893, 24433488).
PS3_Moderate
A functional study in HEK293 cells shows an increased sensitivity to RYR1 agonists, PS3_Moderate (PMID: 25086907).
Not Met criteria codes
PP3
A REVEL score of 0.828 supports neither a pathogenic nor a benign status for this variant.
BA1
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
BS1
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
BP4
A REVEL score of 0.828 supports neither a pathogenic nor a benign status for this variant.
Curation History
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