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Variant: NM_000540.2(RYR1):c.7291G>T (p.Asp2431Tyr)

CA024744

133195 (ClinVar)

Gene: RYR1
Condition: malignant hyperthermia, susceptibility to, 1
Inheritance Mode: Autosomal dominant inheritance
UUID: 86f3dda4-8d5a-4918-bb1d-3648cb522537
Approved on: 2023-04-07
Published on: 2023-04-07

HGVS expressions

NM_000540.2:c.7291G>T
NM_000540.2(RYR1):c.7291G>T (p.Asp2431Tyr)
NC_000019.10:g.38499984G>T
CM000681.2:g.38499984G>T
NC_000019.9:g.38990624G>T
CM000681.1:g.38990624G>T
NC_000019.8:g.43682464G>T
NG_008866.1:g.71285G>T
ENST00000599547.6:n.7291G>T
ENST00000359596.8:c.7291G>T
ENST00000355481.8:c.7291G>T
ENST00000359596.7:n.7291G>T
ENST00000360985.7:c.7288G>T
ENST00000594335.5:n.743G>T
NM_001042723.1:c.7291G>T
NM_000540.3:c.7291G>T
NM_001042723.2:c.7291G>T
NM_000540.3(RYR1):c.7291G>T (p.Asp2431Tyr)
More

Likely Pathogenic

The Expert Panel has overridden the computationally generated classification - "Uncertain Significance - Insufficient Evidence"
Met criteria codes 6
PS4_Moderate PM1_Supporting PM5_Supporting PP3_Moderate PP1 PS3_Moderate
Not Met criteria codes 3
BS1 BP4 BA1

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 tyrosine at codon 2431 of the RYR1 protein, p.(Asp2431Tyr). This variant was not present in a large population database (gnomAD) at the time this variant was interpreted. This variant has been reported in three unrelated individuals who have a personal or family history of a malignant hyperthermia reaction, three 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, PMID:30115273). Functional studies in HEK293 cells show an increased sensitivity to RYR1 agonists, PS3_Moderate (PMID:30115273). Another variant assessed as likely pathogenic occurs at this codon, p.(Asp2431Asn), PM5_Supporting. This variant resides in a region of RYR1 considered to be a hotspot for pathogenic variants that contribute to MHS, use PM1_Supporting to avoid overweighting with PM5 (PMID: 21118704). This variant segregates with MHS in three individuals, PP1_Supporting (PMID:30236257). A REVEL score >0.85 (0.964) supports a pathogenic status for this variant, PP3_Moderate. This variant has been classified as Likely Pathogenic. Criteria implemented: PS4_Moderate, PS3_Moderate, PM1_Supporting, PM5_Supporting, PP1, PP3_Moderate.
Met criteria codes
PS4_Moderate
This variant has been reported in three unrelated individuals who have a personal or family history of a malignant hyperthermia reaction, three 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, PMID:30115273).
PM1_Supporting
This variant resides in a region of RYR1 considered to be a hotspot for pathogenic variants that contribute to MHS, use PM1_Supporting to avoid overweighting with PM5 (PMID: 21118704).
PM5_Supporting
Another variant assessed as likely pathogenic occurs at this codon, p.(Asp2431Asn), PM5_Supporting.
PP3_Moderate
A REVEL score >0.85 (0.964) supports a pathogenic status for this variant, PP3_Moderate.
PP1
This variant segregates with MHS in three individuals, PP1_Supporting (PMID:30236257).
PS3_Moderate
Functional studies in HEK293 cells show an increased sensitivity to RYR1 agonists, PS3_Moderate (PMID:30115273).
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
Curation History
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