NM_138691.3(TMC1):c.339G>A (p.Met113Ile) AND not specified

Germline classification:: Uncertain significance (1 submission)
Last evaluated:: Aug 24, 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:: RCV000041141.6

Allele description [Variation Report for NM_138691.3(TMC1):c.339G>A (p.Met113Ile)]

NM_138691.3(TMC1):c.339G>A (p.Met113Ile)

Gene:

TMC1:transmembrane channel like 1 [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

9q21.13

Genomic location:

Preferred name:

NM_138691.3(TMC1):c.339G>A (p.Met113Ile)

HGVS:

NC_000009.12:g.72700620G>A
NG_008213.1:g.183820G>A
NM_138691.3:c.339G>AMANE SELECT
NP_619636.2:p.Met113Ile
NP_619636.2:p.Met113Ile
NC_000009.11:g.75315536G>A
NM_138691.2:c.339G>A
c.339G>A

Protein change:

M113I

Links:

dbSNP: rs397517840

NCBI 1000 Genomes Browser:

rs397517840

Molecular consequence:

NM_138691.3:c.339G>A - missense variant - [Sequence Ontology: SO:0001583]

Observations:

Condition(s)

Synonyms:: AllHighlyPenetrant
Identifiers:: MedGen: CN169374

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV000064832	Laboratory for Molecular Medicine, Mass General Brigham Personalized Medicine	criteria provided, single submitter (LMM Criteria)	Uncertain significance (Aug 24, 2018)	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

SCV000064832

Laboratory for Molecular Medicine, Mass General Brigham Personalized Medicine

criteria provided, single submitter

(LMM Criteria)

Uncertain significance
(Aug 24, 2018)

germline

clinical testing

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

Help

Summary from all submissions

Ethnicity	Origin	Affected	Individuals	Families	Chromosomes tested	Number Tested	Family history	Method
not provided	germline	not provided	2	2	not provided	not provided	not provided	clinical testing

Citations

PubMed

A systematic approach to assessing the clinical significance of genetic variants.

Duzkale H, Shen J, McLaughlin H, Alfares A, Kelly MA, Pugh TJ, Funke BH, Rehm HL, Lebo MS.

Clin Genet. 2013 Nov;84(5):453-63. doi: 10.1111/cge.12257.

PubMed [citation]

PMID:: 24033266
PMCID:: PMC3995020

Details of each submission

From Laboratory for Molecular Medicine, Mass General Brigham Personalized Medicine, SCV000064832.6

#	Ethnicity	Individuals	Chromosomes Tested	Family History	Method	Citations
1	not provided	2	not provided	not provided	clinical testing	PubMed (1)

Description

The p.Met113Ile variant in TMC1 has been previously reported by our laboratory i n one individual with sensorineural hearing loss and has been identified in 0.00 6% (7/126210) of European chromosomes by the Genome Aggregation Database (gnomAD , http://gnomad.broadinstitute.org). Computational prediction tools and conserva tion analysis do not provide strong support for or against an impact to the prot ein. In summary, the clinical significance of the p.Met113Ile variant is uncerta in. ACMG/AMP Criteria applied: PM2.

#	Sample				Method		Observation
#	Origin	Affected	Number tested	Tissue	Purpose	Method	Individuals	Allele frequency	Families	Co-occurrences
1	germline	not provided	not provided	not provided	not provided		2	not provided	2	not provided

Last Updated: Oct 7, 2023

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