NM_021830.5(TWNK):c.913G>A (p.Val305Ile) AND not provided

This record was updated by the submitter. Please see the current version.

Germline classification:: Uncertain significance (1 submission)
Last evaluated:: Aug 5, 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:: RCV003688899.1

Allele description

NM_021830.5(TWNK):c.913G>A (p.Val305Ile)

Gene:

TWNK:twinkle mtDNA helicase [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

10q24.31

Genomic location:

Preferred name:

NM_021830.5(TWNK):c.913G>A (p.Val305Ile)

HGVS:

NC_000010.11:g.100989123G>A
NG_011646.1:g.3393C>T
NG_012624.1:g.6588G>A
NM_001163812.2:c.913G>A
NM_001163813.2:c.-119-521G>A
NM_001163814.2:c.-119-521G>A
NM_001368275.1:c.-57-583G>A
NM_021830.5:c.913G>AMANE SELECT
NP_001157284.1:p.Val305Ile
NP_068602.2:p.Val305Ile
NC_000010.10:g.102748880G>A
NC_000010.10:g.102748880G>A
NM_021830.4:c.913G>A
NR_160738.1:n.1581G>A
NR_160740.1:n.1581G>A
NR_160741.1:n.1581G>A
NR_160742.1:n.1581G>A

Protein change:

V305I

Links:

dbSNP: rs753457416

NCBI 1000 Genomes Browser:

rs753457416

Molecular consequence:

NM_001163813.2:c.-119-521G>A - intron variant - [Sequence Ontology: SO:0001627]
NM_001163814.2:c.-119-521G>A - intron variant - [Sequence Ontology: SO:0001627]
NM_001368275.1:c.-57-583G>A - intron variant - [Sequence Ontology: SO:0001627]
NM_001163812.2:c.913G>A - missense variant - [Sequence Ontology: SO:0001583]
NM_021830.5:c.913G>A - missense variant - [Sequence Ontology: SO:0001583]
NR_160738.1:n.1581G>A - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_160740.1:n.1581G>A - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_160741.1:n.1581G>A - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_160742.1:n.1581G>A - non-coding transcript variant - [Sequence Ontology: SO:0001619]

Condition(s)

Synonyms:: none provided
Identifiers:: MedGen: C3661900

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV004446150	Invitae	criteria provided, single submitter (Invitae Variant Classification Sherloc (09022015))	Uncertain significance (Aug 5, 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

SCV004446150

Invitae

criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))

Uncertain significance
(Aug 5, 2023)

germline

clinical testing

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

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Summary from all submissions

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

Citations

PubMed

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 Invitae, SCV004446150.1

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

Description

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. 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 TWNK protein function. ClinVar contains an entry for this variant (Variation ID: 880052). This variant has not been reported in the literature in individuals affected with TWNK-related conditions. This variant is not present in population databases (gnomAD no frequency). This sequence change replaces valine, which is neutral and non-polar, with isoleucine, which is neutral and non-polar, at codon 305 of the TWNK protein (p.Val305Ile).

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

Last Updated: Feb 28, 2024

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