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Variant: NM_000540.2(RYR1):c.7075C>T (p.Arg2359Trp)

CA069103

449521 (ClinVar)

Gene: RYR1
Condition: malignant hyperthermia, susceptibility to, 1
Inheritance Mode: Autosomal dominant inheritance
UUID: 61e43ec9-3881-46f7-a3da-5a0fcb017866

HGVS expressions

NM_000540.2:c.7075C>T
NM_000540.2(RYR1):c.7075C>T (p.Arg2359Trp)
NC_000019.10:g.38499682C>T
CM000681.2:g.38499682C>T
NC_000019.9:g.38990322C>T
CM000681.1:g.38990322C>T
NC_000019.8:g.43682162C>T
NG_008866.1:g.70983C>T
ENST00000599547.6:n.7075C>T
ENST00000359596.8:c.7075C>T
ENST00000355481.8:c.7075C>T
ENST00000359596.7:n.7075C>T
ENST00000360985.7:c.7072C>T
ENST00000594335.5:n.527C>T
NM_001042723.1:c.7075C>T
NM_000540.3:c.7075C>T
NM_001042723.2:c.7075C>T
NM_000540.3(RYR1):c.7075C>T (p.Arg2359Trp)

Uncertain Significance

Met criteria codes 3
PM1_Supporting PM5_Supporting PP3_Moderate
Not Met criteria codes 4
PS4 BP4 BA1 BS1

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 2359 of the RYR1 protein, p.(Arg2359Trp). The maximum allele frequency for this variant among the six major gnomAD populations is AMR: 0.00003, a frequency consistent with pathogenicity for MHS. This variant has been reported in a mutation report without clinical details and this does not satisfy PS4 (PMID:16521288). No functional studies were identified for this variant. Another variant assessed as likely pathogenic occurs at this codon, p.(Arg2359Gln), 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). A REVEL score >0.85 (0.93) supports a pathogenic status for this variant, PP3_Moderate. This variant has been classified as a Variant of Unknown Significance. Criteria implemented: PM1_Supporting, PM5_Supporting, PP3_Moderate.
Met criteria codes
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.(Arg2359Gln), PM5_Supporting.
PP3_Moderate
A REVEL score >0.85 (0.93) supports a pathogenic status for this variant, PP3_Moderate.
Not Met criteria codes
PS4
This variant has been reported in a mutation report without clinical details and this does not satisfy PS4 (PMID:16521288).
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
BS1
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
Approved on: 2023-04-06
Published on: 2023-04-06
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