ClinVar Miner

Submissions for variant NM_182914.3(SYNE2):c.19142G>A (p.Arg6381Gln)

gnomAD frequency: 0.00006  dbSNP: rs140857065
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Total submissions: 3
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Illumina Laboratory Services, Illumina RCV001109023 SCV001266328 likely benign Emery-Dreifuss muscular dystrophy 5, autosomal dominant 2018-01-13 criteria provided, single submitter clinical testing This variant was observed in the ICSL laboratory as part of a predisposition screen in an ostensibly healthy population. It had not been previously curated by ICSL or reported in the Human Gene Mutation Database (HGMD: prior to June 1st, 2018), and was therefore a candidate for classification through an automated scoring system. Utilizing variant allele frequency, disease prevalence and penetrance estimates, and inheritance mode, an automated score was calculated to assess if this variant is too frequent to cause the disease. Based on the score and internal cut-off values, a variant classified as likely benign is not then subjected to further curation. The score for this variant resulted in a classification of likely benign for this disease.
Invitae RCV001109023 SCV002153645 uncertain significance Emery-Dreifuss muscular dystrophy 5, autosomal dominant 2023-04-26 criteria provided, single submitter clinical testing This variant has not been reported in the literature in individuals affected with SYNE2-related conditions. 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. 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. ClinVar contains an entry for this variant (Variation ID: 880602). This variant is present in population databases (rs140857065, gnomAD 0.01%). This sequence change replaces arginine, which is basic and polar, with glutamine, which is neutral and polar, at codon 6381 of the SYNE2 protein (p.Arg6381Gln).
Ambry Genetics RCV003163254 SCV003864880 uncertain significance Inborn genetic diseases 2023-01-18 criteria provided, single submitter clinical testing The c.19142G>A (p.R6381Q) alteration is located in exon 106 (coding exon 105) of the SYNE2 gene. This alteration results from a G to A substitution at nucleotide position 19142, causing the arginine (R) at amino acid position 6381 to be replaced by a glutamine (Q). Based on insufficient or conflicting evidence, the clinical significance of this alteration remains unclear.

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