NM_000540.3(RYR1):c.7826C>T (p.Ser2609Leu) AND Malignant hyperthermia, susceptibility to, 1

Germline classification:: Uncertain significance (1 submission)
Last evaluated:: Jul 7, 2023
Review status:: 1 star out of maximum of 4 stars
criteria provided, single submitter

Somatic classification of clinical impact:: None
Review status:: (0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided

Somatic classification of oncogenicity:: None
Review status:: (0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided

Record status:: current
Accession:: RCV004001578.2

Allele description [Variation Report for NM_000540.3(RYR1):c.7826C>T (p.Ser2609Leu)]

NM_000540.3(RYR1):c.7826C>T (p.Ser2609Leu)

Gene:

RYR1:ryanodine receptor 1 [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

19q13.2

Genomic location:

Preferred name:

NM_000540.3(RYR1):c.7826C>T (p.Ser2609Leu)

HGVS:

NC_000019.10:g.38502718C>T
NG_008866.1:g.74019C>T
NM_000540.3:c.7826C>TMANE SELECT
NM_001042723.2:c.7826C>T
NP_000531.2:p.Ser2609Leu
NP_000531.2:p.Ser2609Leu
NP_001036188.1:p.Ser2609Leu
LRG_766t1:c.7826C>T
LRG_766:g.74019C>T
LRG_766p1:p.Ser2609Leu
NC_000019.9:g.38993358C>T
NM_000540.2:c.7826C>T

Protein change:

S2609L

Links:

dbSNP: rs747045754

NCBI 1000 Genomes Browser:

rs747045754

Molecular consequence:

NM_000540.3:c.7826C>T - missense variant - [Sequence Ontology: SO:0001583]
NM_001042723.2:c.7826C>T - missense variant - [Sequence Ontology: SO:0001583]

Observations:

Condition(s)

Name:: Malignant hyperthermia, susceptibility to, 1 (MHS1)
Synonyms:: Anesthesia related hyperthermia; Malignant hyperpyrexia; Fulminating hyperpyrexia; See all synonyms [MedGen]
Identifiers:: MONDO: MONDO:0007783; MedGen: C2930980; Orphanet: 423; OMIM: 145600

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AK100 [tumor RNA-seq]
AK100 [tumor RNA-seq]

biosample
AK142 [tumor RNA-seq]
AK142 [tumor RNA-seq]

biosample
Facial Hemiatrophy
Facial Hemiatrophy
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MeSH
Romberg (1)
MeSH
Rhaphiolepis indica voucher S. L. Zhou BOP016354 rpl20-rps2 intergenic spacer, p...
Rhaphiolepis indica voucher S. L. Zhou BOP016354 rpl20-rps2 intergenic spacer, partial sequence; chloroplast
gi|1390039226|gb|MG703717.1|

Nucleotide

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV004832854	All of Us Research Program, National Institutes of Health	criteria provided, single submitter (ACMG Guidelines, 2015)	Uncertain Significance (Jul 7, 2023)	germline	clinical testing	PubMed (1) [See all records that cite this PMID]

Submission Accession

Submitter

Review Status
(Assertion method)

Clinical Significance
(Last evaluated)

Origin

Method

Citations

SCV004832854

All of Us Research Program, National Institutes of Health

criteria provided, single submitter

(ACMG Guidelines, 2015)

Uncertain Significance
(Jul 7, 2023)

germline

clinical testing

PubMed (1)
[See all records that cite this PMID]

Help

Summary from all submissions

Ethnicity	Origin	Affected	Individuals	Families	Chromosomes tested	Number Tested	Family history	Method
not provided	germline	unknown	4	not provided	not provided	108544	not provided	clinical testing

Citations

PubMed

Standards and guidelines for the interpretation of sequence variants: a joint consensus recommendation of the American College of Medical Genetics and Genomics and the Association for Molecular Pathology.

Richards S, Aziz N, Bale S, Bick D, Das S, Gastier-Foster J, Grody WW, Hegde M, Lyon E, Spector E, Voelkerding K, Rehm HL; ACMG Laboratory Quality Assurance Committee..

Genet Med. 2015 May;17(5):405-24. doi: 10.1038/gim.2015.30. Epub 2015 Mar 5.

PubMed [citation]

PMID:: 25741868
PMCID:: PMC4544753

Details of each submission

From All of Us Research Program, National Institutes of Health, SCV004832854.1

#	Ethnicity	Individuals	Chromosomes Tested	Family History	Method	Citations
1	not provided	4	not provided	not provided	clinical testing	PubMed (1)

Description

This missense variant replaces serine with leucine at codon 2609 of the RYR1 protein. Computational prediction suggests that this variant may not impact protein structure and function (internally defined REVEL score threshold <= 0.5, PMID: 27666373). To our knowledge, functional studies have not been reported for this variant. This variant has not been reported in individuals affected with RYR1-related disorders in the literature. This variant has been identified in 9/242536 chromosomes in the general population by the Genome Aggregation Database (gnomAD). The available evidence is insufficient to determine the role of this variant in disease conclusively. Therefore, this variant is classified as a Variant of Uncertain Significance.

#	Sample				Method		Observation
#	Origin	Affected	Number tested	Tissue	Purpose	Method	Individuals	Allele frequency	Families	Co-occurrences
1	germline	unknown	108544	not provided	not provided		4	not provided	not provided	not provided

Last Updated: Sep 29, 2024

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