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Variant: NM_000540.2(RYR1):c.6544A>T (p.Ile2182Phe)

CA024609

133161 (ClinVar)

Gene: RYR1
Condition: malignant hyperthermia, susceptibility to, 1
Inheritance Mode: Autosomal dominant inheritance
UUID: ebf973e0-786d-4b3f-b590-0c65122a7ba2
Approved on: 2023-04-06
Published on: 2023-04-06

HGVS expressions

NM_000540.2:c.6544A>T
NM_000540.2(RYR1):c.6544A>T (p.Ile2182Phe)
NC_000019.10:g.38494621A>T
CM000681.2:g.38494621A>T
NC_000019.9:g.38985261A>T
CM000681.1:g.38985261A>T
NC_000019.8:g.43677101A>T
NG_008866.1:g.65922A>T
ENST00000599547.6:n.6544A>T
ENST00000359596.8:c.6544A>T
ENST00000355481.8:c.6544A>T
ENST00000359596.7:n.6544A>T
ENST00000360985.7:c.6541A>T
NM_001042723.1:c.6544A>T
NM_000540.3:c.6544A>T
NM_001042723.2:c.6544A>T
NM_000540.3(RYR1):c.6544A>T (p.Ile2182Phe)
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Uncertain Significance

Met criteria codes 2
PS4_Supporting PM1
Not Met criteria codes 6
BA1 BS1 BP4 PS3 PP1 PP3

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 isoleucine with phenylalanine at codon 2182 of the RYR1 protein, p.Ile2182Phe. 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:12434264). This variant segregates with MHS in three individuals, does not meet PP1 (PMID:12434264). Ex vivo functional studies using cells from a single family were identified for this variant, this does not satisfy PS3 (PMID: 14641996). 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 0.76 supports neither a pathogenic nor a benign status for this variant. This variant has been classified as a Variant of Unknown Significance. Criteria implemented: PS4_Supporting, PM1.
Met criteria codes
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:12434264).
PM1
This variant resides in a region of RYR1 considered to be a hotspot for pathogenic variants that contribute to MHS, PM1 (PMID: 21118704).
Not Met criteria codes
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 0.76 supports neither a pathogenic nor a benign status for this variant.
PS3
Ex vivo functional studies using cells from a single family were identified for this variant, this does not satisfy PS3 (PMID: 14641996).
PP1
This variant segregates with MHS in three individuals, does not meet PP1 ( PMID:12434264).
PP3
A REVEL score of 0.76 supports neither a pathogenic nor a benign status for this variant.
Curation History
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