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NM_000540.3(RYR1):c.14537C>T (p.Ala4846Val) AND RYR1-related disorder

Germline classification:
Pathogenic (1 submission)
Last evaluated:
Aug 27, 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:
RCV001390401.4

Allele description [Variation Report for NM_000540.3(RYR1):c.14537C>T (p.Ala4846Val)]

NM_000540.3(RYR1):c.14537C>T (p.Ala4846Val)

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.14537C>T (p.Ala4846Val)
HGVS:
  • NC_000019.10:g.38580395C>T
  • NG_008866.1:g.151696C>T
  • NM_000540.3:c.14537C>TMANE SELECT
  • NM_001042723.2:c.14522C>T
  • NP_000531.2:p.Ala4846Val
  • NP_000531.2:p.Ala4846Val
  • NP_001036188.1:p.Ala4841Val
  • LRG_766t1:c.14537C>T
  • LRG_766:g.151696C>T
  • LRG_766p1:p.Ala4846Val
  • NC_000019.9:g.39071035C>T
  • NM_000540.2:c.14537C>T
  • P21817:p.Ala4846Val
  • p.(Ala4846Val)
  • p.A4846V
Protein change:
A4841V
Links:
UniProtKB: P21817#VAR_045759; dbSNP: rs118192143
NCBI 1000 Genomes Browser:
rs118192143
Molecular consequence:
  • NM_000540.3:c.14537C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001042723.2:c.14522C>T - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:
RYR1-related disorder
Synonyms:
RYR1-Related Disorders; RYR1-related condition
Identifiers:
MedGen: CN239331

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV001592125Invitae
criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))
Pathogenic
(Aug 27, 2023)
germlineclinical testing

PubMed (5)
[See all records that cite these PMIDs]

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineunknownnot providednot providednot providednot providednot providedclinical testing

Citations

PubMed

Central core disease due to recessive mutations in RYR1 gene: is it more common than described?

Kossugue PM, Paim JF, Navarro MM, Silva HC, Pavanello RC, Gurgel-Giannetti J, Zatz M, Vainzof M.

Muscle Nerve. 2007 May;35(5):670-4.

PubMed [citation]
PMID:
17226826

Ryanodine myopathies without central cores--clinical, histopathologic, and genetic description of three cases.

Rocha J, Taipa R, Melo Pires M, Oliveira J, Santos R, Santos M.

Pediatr Neurol. 2014 Aug;51(2):275-8. doi: 10.1016/j.pediatrneurol.2014.04.024. Epub 2014 Apr 28.

PubMed [citation]
PMID:
24950660
See all PubMed Citations (5)

Details of each submission

From Invitae, SCV001592125.4

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (5)

Description

This sequence change replaces alanine, which is neutral and non-polar, with valine, which is neutral and non-polar, at codon 4846 of the RYR1 protein (p.Ala4846Val). This variant is not present in population databases (gnomAD no frequency). This missense change has been observed in individual(s) with autosomal recessive congenital myopathy (PMID: 17226826, 24950660, 30611313; Invitae). In at least one individual the data is consistent with being in trans (on the opposite chromosome) from a pathogenic variant. It has also been observed to segregate with disease in related individuals. This variant has been reported in individual(s) with autosomal dominant centronuclear myopathy (PMID: 17204054); however, the role of the variant in this condition is currently unclear. ClinVar contains an entry for this variant (Variation ID: 65925). Advanced modeling of protein sequence and biophysical properties (such as structural, functional, and spatial information, amino acid conservation, physicochemical variation, residue mobility, and thermodynamic stability) has been performed at Invitae for this missense variant, however the output from this modeling did not meet the statistical confidence thresholds required to predict the impact of this variant on RYR1 protein function. For these reasons, this variant has been classified as Pathogenic.

#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineunknownnot providednot providednot providednot providednot providednot providednot provided

Last Updated: Jul 29, 2024