NM_000218.3(KCNQ1):c.1355G>A (p.Arg452Gln) AND Cardiac arrhythmia

Germline classification:: Uncertain significance (1 submission)
Last evaluated:: Jan 27, 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:: RCV001841666.11

Allele description [Variation Report for NM_000218.3(KCNQ1):c.1355G>A (p.Arg452Gln)]

NM_000218.3(KCNQ1):c.1355G>A (p.Arg452Gln)

Gene:

KCNQ1:potassium voltage-gated channel subfamily Q member 1 [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

11p15.5

Genomic location:

Preferred name:

NM_000218.3(KCNQ1):c.1355G>A (p.Arg452Gln)

Other names:

p.R452Q:CGG>CAG

HGVS:

NC_000011.10:g.2588816G>A
NG_008935.1:g.148826G>A
NM_000218.3:c.1355G>AMANE SELECT
NM_001406836.1:c.1259G>A
NM_001406837.1:c.1085G>A
NM_001406838.1:c.815G>A
NM_181798.2:c.974G>A
NP_000209.2:p.Arg452Gln
NP_000209.2:p.Arg452Gln
NP_001393765.1:p.Arg420Gln
NP_001393766.1:p.Arg362Gln
NP_001393767.1:p.Arg272Gln
NP_861463.1:p.Arg325Gln
NP_861463.1:p.Arg325Gln
LRG_287t1:c.1355G>A
LRG_287t2:c.974G>A
LRG_287:g.148826G>A
LRG_287p1:p.Arg452Gln
LRG_287p2:p.Arg325Gln
NC_000011.9:g.2610046G>A
NM_000218.2:c.1355G>A
NM_181798.1:c.974G>A
NR_040711.2:n.1248G>A

Protein change:

R272Q

Links:

dbSNP: rs145229963

NCBI 1000 Genomes Browser:

rs145229963

Molecular consequence:

NM_000218.3:c.1355G>A - missense variant - [Sequence Ontology: SO:0001583]
NM_001406836.1:c.1259G>A - missense variant - [Sequence Ontology: SO:0001583]
NM_001406837.1:c.1085G>A - missense variant - [Sequence Ontology: SO:0001583]
NM_001406838.1:c.815G>A - missense variant - [Sequence Ontology: SO:0001583]
NM_181798.2:c.974G>A - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:: Cardiac arrhythmia
Synonyms:: Cardiac rhythm disease
Identifiers:: EFO: EFO_0004269; MONDO: MONDO:0007263; MedGen: C0003811; Human Phenotype Ontology: HP:0011675

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gi|1347471665|ref|NM_011150.3|

Nucleotide
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gi|2719984722|ref|NM_008525.6|

Nucleotide

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV000913736	Color Diagnostics, LLC DBA Color Health	criteria provided, single submitter (ACMG Guidelines, 2015)	Uncertain significance (Jan 27, 2023)	germline	clinical testing	PubMed (2) [See all records that cite these PMIDs] 26318259, 25741868

Submission Accession

Submitter

Review Status
(Assertion method)

Clinical Significance
(Last evaluated)

Origin

Method

Citations

SCV000913736

Color Diagnostics, LLC DBA Color Health

criteria provided, single submitter

(ACMG Guidelines, 2015)

Uncertain significance
(Jan 27, 2023)

germline

clinical testing

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

Help

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

Stop-codon and C-terminal nonsense mutations are associated with a lower risk of cardiac events in patients with long QT syndrome type 1.

Ruwald MH, Xu Parks X, Moss AJ, Zareba W, Baman J, McNitt S, Kanters JK, Shimizu W, Wilde AA, Jons C, Lopes CM.

Heart Rhythm. 2016 Jan;13(1):122-31. doi: 10.1016/j.hrthm.2015.08.033. Epub 2015 Aug 28.

PubMed [citation]

PMID:: 26318259
PMCID:: PMC4743743

Standards and guidelines for the interpretation of sequence variants: a joint consensus recommendation of the American College of Medical Genetics and Genomics and the Association for Molecular Pathology.

Richards S, Aziz N, Bale S, Bick D, Das S, Gastier-Foster J, Grody WW, Hegde M, Lyon E, Spector E, Voelkerding K, Rehm HL; ACMG Laboratory Quality Assurance Committee..

Genet Med. 2015 May;17(5):405-24. doi: 10.1038/gim.2015.30. Epub 2015 Mar 5.

PubMed [citation]

PMID:: 25741868
PMCID:: PMC4544753

Details of each submission

From Color Diagnostics, LLC DBA Color Health, SCV000913736.5

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

Description

This missense variant replaces arginine with glutamine at codon 452 of the KCNQ1 protein. Computational prediction is inconclusive regarding the impact of this variant on protein structure and function (internally defined REVEL score threshold 0.5 < inconclusive < 0.7, PMID: 27666373). To our knowledge, functional studies have not been reported for this variant. This variant has been reported in a proband affected with long QT syndrome (PMID: 26318259). This variant has been identified in 31/281090 chromosomes in the general population by the Genome Aggregation Database (gnomAD). The available evidence is insufficient to determine the role of this variant in disease conclusively. Therefore, this variant is classified as a Variant of Uncertain Significance.

#	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: Oct 26, 2024

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