NM_001037.5(SCN1B):c.638G>A (p.Gly213Asp) AND Brugada syndrome 5

Germline classification:: Uncertain significance (1 submission)
Last evaluated:: Jan 3, 2024
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:: RCV000693228.16

Allele description [Variation Report for NM_001037.5(SCN1B):c.638G>A (p.Gly213Asp)]

NM_001037.5(SCN1B):c.638G>A (p.Gly213Asp)

Gene:

SCN1B:sodium voltage-gated channel beta subunit 1 [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

19q13.11

Genomic location:

Preferred name:

NM_001037.5(SCN1B):c.638G>A (p.Gly213Asp)

Other names:

p.G213D:GGC>GAC

HGVS:

NC_000019.10:g.35039682G>A
NG_013359.1:g.13995G>A
NM_001037.5:c.638G>AMANE SELECT
NM_001321605.2:c.539G>A
NP_001028.1:p.Gly213Asp
NP_001308534.1:p.Gly180Asp
LRG_420t1:c.638G>A
LRG_420:g.13995G>A
LRG_420p1:p.Gly213Asp
NC_000019.9:g.35530586G>A
NM_001037.4:c.638G>A
NM_199037.2:c.*5584G>A
Q07699:p.Gly213Asp

Protein change:

G180D

Links:

UniProtKB: Q07699#VAR_062528; dbSNP: rs201209882

NCBI 1000 Genomes Browser:

rs201209882

Molecular consequence:

NM_001037.5:c.638G>A - missense variant - [Sequence Ontology: SO:0001583]
NM_001321605.2:c.539G>A - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:: Brugada syndrome 5 (BRGDA5)
Identifiers:: MONDO: MONDO:0013015; MedGen: C2748541; Orphanet: 130; Orphanet: 871; OMIM: 612838

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV000821088	Labcorp Genetics (formerly Invitae), Labcorp	criteria provided, single submitter (Invitae Variant Classification Sherloc (09022015))	Uncertain significance (Jan 3, 2024)	germline	clinical testing	PubMed (2) [See all records that cite these PMIDs] 34034907, 28492532

Submission Accession

Submitter

Review Status
(Assertion method)

Clinical Significance
(Last evaluated)

Origin

Method

Citations

SCV000821088

Labcorp Genetics (formerly Invitae), Labcorp

criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))

Uncertain significance
(Jan 3, 2024)

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

Frequency of Irritable Bowel Syndrome in Patients with Brugada Syndrome and Drug-Induced Type 1 Brugada Pattern.

Sarica AS, Bor S, Orman MN, Barajas-Martinez H, Juang JJ, Antzelevitch C, Hasdemir C.

Am J Cardiol. 2021 Jul 15;151:51-56. doi: 10.1016/j.amjcard.2021.04.010. Epub 2021 May 24.

PubMed [citation]

PMID:: 34034907
PMCID:: PMC9148266

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 Labcorp Genetics (formerly Invitae), Labcorp, SCV000821088.5

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

Description

The SCN1B gene has multiple clinically relevant transcripts. This variant occurs in alternate transcript NM_001037.5, and corresponds to NM_199037.4:c.*5584G>A in the primary transcript. This sequence change replaces glycine, which is neutral and non-polar, with aspartic acid, which is acidic and polar, at codon 213 of the SCN1B protein (p.Gly213Asp). This variant is present in population databases (rs201209882, gnomAD 0.003%). This missense change has been observed in individual(s) with SCN1B-related conditions (PMID: 34034907). Experimental studies and prediction algorithms are not available or were not evaluated, and the functional significance of this variant is currently unknown. In summary, the available evidence is currently insufficient to determine the role of this variant in disease. Therefore, it has been 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: Jan 13, 2025

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