ClinVar Miner

Submissions for variant NM_000335.5(SCN5A):c.25G>A (p.Gly9Ser)

gnomAD frequency: 0.00003  dbSNP: rs756805318
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Total submissions: 3
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Invitae RCV003656226 SCV001206338 uncertain significance not provided 2023-12-06 criteria provided, single submitter clinical testing This sequence change replaces glycine, which is neutral and non-polar, with serine, which is neutral and polar, at codon 9 of the SCN5A protein (p.Gly9Ser). This variant is present in population databases (rs756805318, gnomAD 0.01%). This variant has not been reported in the literature in individuals affected with SCN5A-related conditions. ClinVar contains an entry for this variant (Variation ID: 840606). An algorithm developed to predict the effect of missense changes on protein structure and function (PolyPhen-2) suggests that this variant is likely to be disruptive. 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.
Color Diagnostics, LLC DBA Color Health RCV001842592 SCV001355639 uncertain significance Cardiac arrhythmia 2019-12-11 criteria provided, single submitter clinical testing This missense variant replaces glycine with serine at codon 9 of the SCN5A protein. Computational prediction suggests that this variant may have deleterious impact on protein structure and function (internally defined REVEL score threshold >= 0.7, PMID: 27666373). Splice site prediction tools suggest that this variant may not impact RNA splicing. To our knowledge, functional studies have not been performed for this variant. This variant has not been reported in individuals affected with cardiovascular disorders in the literature. This variant has been identified in 4/278912 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.
Ambry Genetics RCV002427513 SCV002744066 uncertain significance Cardiovascular phenotype 2020-10-27 criteria provided, single submitter clinical testing The p.G9S variant (also known as c.25G>A), located in coding exon 1 of the SCN5A gene, results from a G to A substitution at nucleotide position 25. The glycine at codon 9 is replaced by serine, an amino acid with similar properties. This amino acid position is highly conserved in available vertebrate species. In addition, the in silico prediction for this alteration is inconclusive. Since supporting evidence is limited at this time, the clinical significance of this alteration remains unclear.

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