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NM_000335.5(SCN5A):c.5080C>T (p.Gln1694Ter) AND not provided

Germline classification:
Likely pathogenic (1 submission)
Last evaluated:
Apr 11, 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:
RCV000490021.2

Allele description [Variation Report for NM_000335.5(SCN5A):c.5080C>T (p.Gln1694Ter)]

NM_000335.5(SCN5A):c.5080C>T (p.Gln1694Ter)

Gene:
SCN5A:sodium voltage-gated channel alpha subunit 5 [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
3p22.2
Genomic location:
Preferred name:
NM_000335.5(SCN5A):c.5080C>T (p.Gln1694Ter)
HGVS:
  • NC_000003.12:g.38551289G>A
  • NG_008934.1:g.103384C>T
  • NM_000335.5:c.5080C>TMANE SELECT
  • NM_001099404.2:c.5083C>T
  • NM_001099405.2:c.5029C>T
  • NM_001160160.2:c.4984C>T
  • NM_001160161.2:c.4921C>T
  • NM_001354701.2:c.5026C>T
  • NM_198056.3:c.5083C>T
  • NP_000326.2:p.Gln1694Ter
  • NP_001092874.1:p.Gln1695Ter
  • NP_001092875.1:p.Gln1677Ter
  • NP_001153632.1:p.Gln1662Ter
  • NP_001153633.1:p.Gln1641Ter
  • NP_001341630.1:p.Gln1676Ter
  • NP_932173.1:p.Gln1695Ter
  • NP_932173.1:p.Gln1695Ter
  • LRG_289t1:c.5083C>T
  • LRG_289:g.103384C>T
  • LRG_289p1:p.Gln1695Ter
  • NC_000003.11:g.38592780G>A
  • NM_198056.2:c.5083C>T
Protein change:
Q1641*
Links:
dbSNP: rs1085307710
NCBI 1000 Genomes Browser:
rs1085307710
Molecular consequence:
  • NM_000335.5:c.5080C>T - nonsense - [Sequence Ontology: SO:0001587]
  • NM_001099404.2:c.5083C>T - nonsense - [Sequence Ontology: SO:0001587]
  • NM_001099405.2:c.5029C>T - nonsense - [Sequence Ontology: SO:0001587]
  • NM_001160160.2:c.4984C>T - nonsense - [Sequence Ontology: SO:0001587]
  • NM_001160161.2:c.4921C>T - nonsense - [Sequence Ontology: SO:0001587]
  • NM_001354701.2:c.5026C>T - nonsense - [Sequence Ontology: SO:0001587]
  • NM_198056.3:c.5083C>T - nonsense - [Sequence Ontology: SO:0001587]

Condition(s)

Synonyms:
none provided
Identifiers:
MedGen: C3661900

Recent activity

  • Homo sapiens
    Homo sapiens
    STRSeq D5S818 Sequence-Based Alleles
    BioProject

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV000577096GeneDx
criteria provided, single submitter

(GeneDx Variant Classification (06012015))
Likely pathogenic
(Apr 11, 2017)
germlineclinical testing

Citation Link

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineyesnot providednot providednot providednot providednot providedclinical testing

Details of each submission

From GeneDx, SCV000577096.3

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testingnot provided

Description

The Q1695X likely pathogenic variant in the SCN5A gene has been published previously in association with Brugada syndrome and cardiac conduction disease (CCD) (Meregalli et al., 2009; Kapplinger et al., 2010; Béziau et al., 2014). Meregalli et al. (2009) reported Q1695X in one individual with either Brugada syndrome or progressive CCD, and Kapplinger et al. (2010) reported this variant in two unrelated individuals with a suspected diagnosis of Brugada syndrome; detailed clinical information for patients harboring this variant was not provided by either study. Béziau et al. (2014) identified Q1695X in a 22 year-old male proband with a clinical history of Brugada syndrome, CCD, shortened QTc interval (<360ms), and aborted sudden cardiac death; the affected proband also harbored a missense variant in the CACNA1C gene. A variety of cardiac phenotypes were observed in this family, as well as a third variant in the ABCC9 gene; however, Q1695X was shown to specifically segregate with CCD (Béziau et al., 2014). Q1695X is predicted to cause loss of normal protein function via truncation of the final 322 amino acids of the protein product. Multiple other nonsense variants in the SCN5A gene (including several downstream of Q1695X) have been reported in Human Gene Mutation Database in association with Brugada syndrome, CCD, LQTS, and Sudden unexplained death (Stenson et al., 2014). Furthermore, the Q1695X variant is not observed in large population cohorts (Lek et al., 2016; 1000 Genomes Consortium et al., 2015; Exome Variant Server)

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

Last Updated: Jun 23, 2024