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NM_006005.3(WFS1):c.1672C>T (p.Arg558Cys) AND WFS1-Related Spectrum Disorders

Germline classification:
Pathogenic (1 submission)
Last evaluated:
Oct 10, 2018
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:
RCV000778739.8

Allele description [Variation Report for NM_006005.3(WFS1):c.1672C>T (p.Arg558Cys)]

NM_006005.3(WFS1):c.1672C>T (p.Arg558Cys)

Gene:
WFS1:wolframin ER transmembrane glycoprotein [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
4p16.1
Genomic location:
Preferred name:
NM_006005.3(WFS1):c.1672C>T (p.Arg558Cys)
HGVS:
  • NC_000004.12:g.6301467C>T
  • NG_011700.1:g.36618C>T
  • NM_001145853.1:c.1672C>T
  • NM_006005.3:c.1672C>TMANE SELECT
  • NP_001139325.1:p.Arg558Cys
  • NP_005996.2:p.Arg558Cys
  • LRG_1417t1:c.1672C>T
  • LRG_1417:g.36618C>T
  • LRG_1417p1:p.Arg558Cys
  • NC_000004.11:g.6303194C>T
  • O76024:p.Arg558Cys
Protein change:
R558C
Links:
UniProtKB: O76024#VAR_068343; dbSNP: rs199946797
NCBI 1000 Genomes Browser:
rs199946797
Molecular consequence:
  • NM_001145853.1:c.1672C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_006005.3:c.1672C>T - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:
WFS1-Related Spectrum Disorders
Identifiers:
MedGen: CN239410

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV000915097Illumina Laboratory Services, Illumina
criteria provided, single submitter

(ICSL Variant Classification Criteria 09 May 2019)
Pathogenic
(Oct 10, 2018)
germlineclinical testing

PubMed (9)
[See all records that cite these PMIDs]

Citation Link

Summary from all submissions

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

Citations

PubMed

Exome sequencing in the clinical diagnosis of sporadic or familial cerebellar ataxia.

Fogel BL, Lee H, Deignan JL, Strom SP, Kantarci S, Wang X, Quintero-Rivera F, Vilain E, Grody WW, Perlman S, Geschwind DH, Nelson SF.

JAMA Neurol. 2014 Oct;71(10):1237-46. doi: 10.1001/jamaneurol.2014.1944. Erratum in: JAMA Neurol. 2015 Jan;72(1):128.

PubMed [citation]
PMID:
25133958
PMCID:
PMC4324730

Identification of novel mutations in WFS1 and genotype-phenotype correlation in Wolfram syndrome.

Cano A, Rouzier C, Monnot S, Chabrol B, Conrath J, Lecomte P, Delobel B, Boileau P, Valero R, Procaccio V, Paquis-Flucklinger V; French Group of Wolfram Syndrome., Vialettes B.

Am J Med Genet A. 2007 Jul 15;143A(14):1605-12.

PubMed [citation]
PMID:
17568405
See all PubMed Citations (9)

Details of each submission

From Illumina Laboratory Services, Illumina, SCV000915097.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (9)

Description

The WFS1 c.1672C>T (p.Arg558Cys) missense variant has been reported in at least seven studies and is found in a total of 15 individuals with Wolfram syndrome, including in a homozygous state in at least ten individuals, in a compound heterozygous state in two, and in a heterozygous state in three individuals (Cano et al. 2007; Ganie et al. 2009; Chaussenot et al. 2011; Lieber et al. 2012; Chaussenot et al. 2015; Grenier et al. 2016; Bansal et al. 2018). The variant was also reported in a heterozygous state in one individual with schizophrenia (Torres et al. 2001) and in another individual with cerebellar ataxia (Fogel et al. 2014). The p.Arg558Cys is identified with a very mild phenotype that authors indicate may be difficult to diagnose clinically (Bansal et al. 2018). The p.Arg558Cys variant was found in 58 alleles from 2589 control sample and is reported at a frequency of 0.00084 in the European (non-Finnish) population of the Exome Aggregation Consortium and 0.013790 in the Ashkenazi Jewish population of the Genome Aggregation Database. Based on the evidence, the p.Arg558Cys variant is classified as pathogenic for WFS1-related spectrum disorders. This variant was observed by ICSL as part of a predisposition screen in an ostensibly healthy population.

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

Last Updated: Oct 26, 2024