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NM_000238.4(KCNH2):c.1081C>T (p.Pro361Ser) AND Long QT syndrome

Germline classification:
Uncertain significance (1 submission)
Last evaluated:
May 14, 2017
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:
RCV000533084.7

Allele description

NM_000238.4(KCNH2):c.1081C>T (p.Pro361Ser)

Gene:
KCNH2:potassium voltage-gated channel subfamily H member 2 [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
7q36.1
Genomic location:
Preferred name:
NM_000238.4(KCNH2):c.1081C>T (p.Pro361Ser)
HGVS:
  • NC_000007.14:g.150957338G>A
  • NG_008916.1:g.25589C>T
  • NM_000238.4:c.1081C>TMANE SELECT
  • NM_001406753.1:c.793C>T
  • NM_001406755.1:c.904C>T
  • NM_001406756.1:c.793C>T
  • NM_001406757.1:c.781C>T
  • NM_172056.3:c.1081C>T
  • NP_000229.1:p.Pro361Ser
  • NP_000229.1:p.Pro361Ser
  • NP_001393682.1:p.Pro265Ser
  • NP_001393684.1:p.Pro302Ser
  • NP_001393685.1:p.Pro265Ser
  • NP_001393686.1:p.Pro261Ser
  • NP_742053.1:p.Pro361Ser
  • NP_742053.1:p.Pro361Ser
  • LRG_288t1:c.1081C>T
  • LRG_288t2:c.1081C>T
  • LRG_288:g.25589C>T
  • LRG_288p1:p.Pro361Ser
  • LRG_288p2:p.Pro361Ser
  • NC_000007.13:g.150654426G>A
  • NM_000238.3:c.1081C>T
  • NM_172056.2:c.1081C>T
  • NR_176254.1:n.1489C>T
Protein change:
P261S
Links:
dbSNP: rs1293901043
NCBI 1000 Genomes Browser:
rs1293901043
Molecular consequence:
  • NM_000238.4:c.1081C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406753.1:c.793C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406755.1:c.904C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406756.1:c.793C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406757.1:c.781C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_172056.3:c.1081C>T - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:
Long QT syndrome (LQTS)
Identifiers:
MONDO: MONDO:0002442; MeSH: D008133; MedGen: C0023976

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Assertion and evidence details

Help
Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV000627411Invitae
criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))		Uncertain significance
(May 14, 2017) 		germlineclinical testing

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

Help

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineunknownnot providednot providednot providednot providednot providedclinical 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, SCV000627411.4

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

Description

In summary, this variant is a novel missense change with uncertain impact on protein function. It has been classified as a Variant of Uncertain Significance. Algorithms developed to predict the effect of missense changes on protein structure and function do not agree on the potential impact of this missense change (SIFT: "Deleterious"; PolyPhen-2: "Probably Damaging"; Align-GVGD: "Class C0"). This variant is not present in population databases (ExAC no frequency) and has not been reported in the literature in individuals with a KCNH2-related disease. This sequence change replaces proline with serine at codon 361 of the KCNH2 protein (p.Pro361Ser). The proline residue is moderately conserved and there is a moderate physicochemical difference between proline and serine.

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

Last Updated: Feb 28, 2024