ClinVar Miner

Submissions for variant NM_182961.4(SYNE1):c.8716G>A (p.Glu2906Lys)

gnomAD frequency: 0.00006  dbSNP: rs140568392
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Total submissions: 3
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Invitae RCV000702415 SCV000831268 uncertain significance Autosomal recessive ataxia, Beauce type; Emery-Dreifuss muscular dystrophy 4, autosomal dominant 2022-06-04 criteria provided, single submitter clinical testing This sequence change replaces glutamic acid, which is acidic and polar, with lysine, which is basic and polar, at codon 2913 of the SYNE1 protein (p.Glu2913Lys). This variant is present in population databases (rs140568392, gnomAD 0.008%). This variant has not been reported in the literature in individuals affected with SYNE1-related conditions. ClinVar contains an entry for this variant (Variation ID: 579192). Algorithms developed to predict the effect of missense changes on protein structure and function (SIFT, PolyPhen-2, Align-GVGD) all suggest that this variant is likely to be tolerated. 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.
Revvity Omics, Revvity RCV003140113 SCV003826411 uncertain significance not provided 2020-06-26 criteria provided, single submitter clinical testing
PreventionGenetics, part of Exact Sciences RCV003411635 SCV004115705 uncertain significance SYNE1-related condition 2023-02-06 criteria provided, single submitter clinical testing The SYNE1 c.8737G>A variant is predicted to result in the amino acid substitution p.Glu2913Lys. To our knowledge, this variant has not been reported in the literature. This variant is reported in 0.016% of alleles in individuals of African descent in gnomAD (http://gnomad.broadinstitute.org/variant/6-152702434-C-T). At this time, the clinical significance of this variant is uncertain due to the absence of conclusive functional and genetic evidence.

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