NM_000238.4(KCNH2):c.1158T>C (p.Pro386=) AND Long QT syndrome

Germline classification:
Likely benign (2 submissions)
Last evaluated:
Jan 17, 2024
Review status:
2 stars out of maximum of 4 stars
criteria provided, multiple submitters, no conflicts
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:
RCV000466272.20

Allele description

NM_000238.4(KCNH2):c.1158T>C (p.Pro386=)

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.1158T>C (p.Pro386=)
HGVS:
  • NC_000007.14:g.150952824A>G
  • NG_008916.1:g.30103T>C
  • NM_000238.4:c.1158T>CMANE SELECT
  • NM_001204798.2:c.138T>C
  • NM_001406753.1:c.870T>C
  • NM_001406755.1:c.981T>C
  • NM_001406756.1:c.870T>C
  • NM_001406757.1:c.858T>C
  • NM_172056.3:c.1158T>C
  • NM_172057.3:c.138T>C
  • NP_000229.1:p.Pro386=
  • NP_000229.1:p.Pro386=
  • NP_001191727.1:p.Pro46=
  • NP_001393682.1:p.Pro290=
  • NP_001393684.1:p.Pro327=
  • NP_001393685.1:p.Pro290=
  • NP_001393686.1:p.Pro286=
  • NP_742053.1:p.Pro386=
  • NP_742053.1:p.Pro386=
  • NP_742054.1:p.Pro46=
  • NP_742054.1:p.Pro46=
  • LRG_288t1:c.1158T>C
  • LRG_288t2:c.1158T>C
  • LRG_288t3:c.138T>C
  • LRG_288:g.30103T>C
  • LRG_288p1:p.Pro386=
  • LRG_288p2:p.Pro386=
  • LRG_288p3:p.Pro46=
  • NC_000007.13:g.150649912A>G
  • NM_000238.2:c.1158T>C
  • NM_000238.3:c.1158T>C
  • NM_172056.2:c.1158T>C
  • NM_172057.2:c.138T>C
  • NR_176254.1:n.1566T>C
  • NR_176255.1:n.439T>C
Links:
dbSNP: rs749161732
NCBI 1000 Genomes Browser:
rs749161732
Molecular consequence:
  • NR_176254.1:n.1566T>C - non-coding transcript variant - [Sequence Ontology: SO:0001619]
  • NR_176255.1:n.439T>C - non-coding transcript variant - [Sequence Ontology: SO:0001619]
  • NM_000238.4:c.1158T>C - synonymous variant - [Sequence Ontology: SO:0001819]
  • NM_001204798.2:c.138T>C - synonymous variant - [Sequence Ontology: SO:0001819]
  • NM_001406753.1:c.870T>C - synonymous variant - [Sequence Ontology: SO:0001819]
  • NM_001406755.1:c.981T>C - synonymous variant - [Sequence Ontology: SO:0001819]
  • NM_001406756.1:c.870T>C - synonymous variant - [Sequence Ontology: SO:0001819]
  • NM_001406757.1:c.858T>C - synonymous variant - [Sequence Ontology: SO:0001819]
  • NM_172056.3:c.1158T>C - synonymous variant - [Sequence Ontology: SO:0001819]
  • NM_172057.3:c.138T>C - synonymous variant - [Sequence Ontology: SO:0001819]
Observations:
2

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
SCV000555886Invitae
criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))		Likely benign
(Jan 17, 2024) 		germlineclinical testing

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

SCV004844024All of Us Research Program, National Institutes of Health
criteria provided, single submitter

(ACMG Guidelines, 2015)		Likely Benign
(Aug 15, 2023) 		germlineclinical testing

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

Help

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineunknown2not providednot provided108544not 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

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 Invitae, SCV000555886.8

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (1)
#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineunknownnot providednot providednot providednot providednot providednot providednot provided

From All of Us Research Program, National Institutes of Health, SCV004844024.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not provided2not providednot providedclinical testing PubMed (1)
#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineunknown108544not providednot provided2not providednot providednot provided

Last Updated: Sep 16, 2024