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NM_001614.5(ACTG1):c.616C>T (p.Arg206Trp) AND multiple conditions

Germline classification:
Uncertain significance (1 submission)
Last evaluated:
Oct 20, 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:
RCV003768985.2

Allele description [Variation Report for NM_001614.5(ACTG1):c.616C>T (p.Arg206Trp)]

NM_001614.5(ACTG1):c.616C>T (p.Arg206Trp)

Gene:
ACTG1:actin gamma 1 [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
17q25.3
Genomic location:
Preferred name:
NM_001614.5(ACTG1):c.616C>T (p.Arg206Trp)
HGVS:
  • NC_000017.11:g.81511374G>A
  • NG_011433.1:g.6428C>T
  • NM_001199954.3:c.616C>T
  • NM_001614.5:c.616C>TMANE SELECT
  • NP_001186883.1:p.Arg206Trp
  • NP_001605.1:p.Arg206Trp
  • NC_000017.10:g.79478400G>A
  • NC_000017.10:g.79478400G>A
  • NM_001614.3:c.616C>T
  • NM_001614.4:c.616C>T
  • NR_037688.3:n.688C>T
Protein change:
R206W
Links:
dbSNP: rs1598548614
NCBI 1000 Genomes Browser:
rs1598548614
Molecular consequence:
  • NM_001199954.3:c.616C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001614.5:c.616C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NR_037688.3:n.688C>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]

Condition(s)

Name:
Autosomal dominant nonsyndromic hearing loss 20
Synonyms:
Deafness, autosomal dominant 20
Identifiers:
MONDO: MONDO:0011480; MedGen: C1858172; Orphanet: 90635; OMIM: 604717
Name:
Baraitser-winter syndrome 2
Identifiers:
MONDO: MONDO:0013812; MedGen: C3281235; Orphanet: 2995; OMIM: 614583

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV004586016Labcorp Genetics (formerly Invitae), Labcorp
criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))
Uncertain significance
(Oct 20, 2023)
germlineclinical testing

PubMed (2)
[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

Genetic heterogeneity of polymicrogyria: study of 123 patients using deep sequencing.

Stutterd CA, Brock S, Stouffs K, Fanjul-Fernandez M, Lockhart PJ, McGillivray G, Mandelstam S, Pope K, Delatycki MB, Jansen A, Leventer RJ.

Brain Commun. 2021;3(1):fcaa221. doi: 10.1093/braincomms/fcaa221.

PubMed [citation]
PMID:
33604570
PMCID:
PMC7878248

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, SCV004586016.1

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

Description

This sequence change replaces arginine, which is basic and polar, with tryptophan, which is neutral and slightly polar, at codon 206 of the ACTG1 protein (p.Arg206Trp). This variant is not present in population databases (gnomAD no frequency). This missense change has been observed in individual(s) with clinical features of ACTG1-related conditions (PMID: 33604570). ClinVar contains an entry for this variant (Variation ID: 864856). 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) performed at Invitae indicates that this missense variant is not expected to disrupt ACTG1 protein function with a negative predictive value of 80%. This variant disrupts the p.Arg206 amino acid residue in ACTG1. Other variant(s) that disrupt this residue have been determined to be pathogenic (Invitae). This suggests that this residue is clinically significant, and that variants that disrupt this residue are likely to be disease-causing. 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