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NM_006005.3(WFS1):c.1232C>T (p.Ser411Phe) AND not provided

Germline classification:
Uncertain significance (1 submission)
Last evaluated:
Oct 6, 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:
RCV001948887.6

Allele description [Variation Report for NM_006005.3(WFS1):c.1232C>T (p.Ser411Phe)]

NM_006005.3(WFS1):c.1232C>T (p.Ser411Phe)

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.1232C>T (p.Ser411Phe)
HGVS:
  • NC_000004.12:g.6301027C>T
  • NG_011700.1:g.36178C>T
  • NM_001145853.1:c.1232C>T
  • NM_006005.3:c.1232C>TMANE SELECT
  • NP_001139325.1:p.Ser411Phe
  • NP_005996.2:p.Ser411Phe
  • LRG_1417t1:c.1232C>T
  • LRG_1417:g.36178C>T
  • LRG_1417p1:p.Ser411Phe
  • NC_000004.11:g.6302754C>T
Protein change:
S411F
Links:
dbSNP: rs961779757
NCBI 1000 Genomes Browser:
rs961779757
Molecular consequence:
  • NM_001145853.1:c.1232C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_006005.3:c.1232C>T - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Synonyms:
none provided
Identifiers:
MedGen: C3661900

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Assertion and evidence details

Help
Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV002211068Labcorp Genetics (formerly Invitae), Labcorp
criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))		Uncertain significance
(Oct 6, 2023) 		germlineclinical testing

PubMed (2)
[See all records that cite these PMIDs]

Help

Summary from all submissions

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

Citations

PubMed

Cochlear Implantation Outcomes in Children With CDH23 Mutations-Associated Hearing Loss.

Chen K, Huang B, Sun J, Liang Y, Xiong G.

Otolaryngol Head Neck Surg. 2022 Sep;167(3):560-565. doi: 10.1177/01945998211057427. Epub 2021 Nov 9.

PubMed [citation]
PMID:
34752165

Sherloc: a comprehensive refinement of the ACMG-AMP variant classification criteria.

Nykamp K, Anderson M, Powers M, Garcia J, Herrera B, Ho YY, Kobayashi Y, Patil N, Thusberg J, Westbrook M; Invitae Clinical Genomics Group., Topper S.

Genet Med. 2017 Oct;19(10):1105-1117. doi: 10.1038/gim.2017.37. Epub 2017 May 11. Erratum in: Genet Med. 2020 Jan;22(1):240. doi: 10.1038/s41436-019-0624-9.

PubMed [citation]
PMID:
28492532
PMCID:
PMC5632818

Details of each submission

From Labcorp Genetics (formerly Invitae), Labcorp, SCV002211068.3

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (2)

Description

This sequence change replaces serine, which is neutral and polar, with phenylalanine, which is neutral and non-polar, at codon 411 of the WFS1 protein (p.Ser411Phe). This variant is not present in population databases (gnomAD no frequency). This missense change has been observed in individual(s) with deafness (PMID: 34752165). ClinVar contains an entry for this variant (Variation ID: 1438079). 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 WFS1 protein function. In summary, the available evidence is currently insufficient to determine the role of this variant in disease. Therefore, it has been classified as a Variant of Uncertain Significance.

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

Last Updated: Sep 29, 2024