ClinVar Miner

Submissions for variant NM_004752.4(GCM2):c.1144G>A (p.Val382Met)

gnomAD frequency: 0.00006  dbSNP: rs371918069
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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 RCV001153742 SCV001315045 uncertain significance Familial hypoparathyroidism 2018-03-06 criteria provided, single submitter clinical testing This variant was observed as part of a predisposition screen in an ostensibly healthy population. A literature search was performed for the gene, cDNA change, and amino acid change (where applicable). Publications were found based on this search. However, the evidence from the literature, in combination with allele frequency data from public databases where available, was not sufficient to rule this variant in or out of causing disease. Therefore, this variant is classified as a variant of unknown significance.
Fulgent Genetics, Fulgent Genetics RCV002480553 SCV002803831 uncertain significance Hyperparathyroidism 4; Hypoparathyroidism, familial isolated, 2 2022-05-03 criteria provided, single submitter clinical testing
Invitae RCV002558330 SCV003512485 uncertain significance not provided 2022-06-11 criteria provided, single submitter clinical testing This sequence change replaces valine, which is neutral and non-polar, with methionine, which is neutral and non-polar, at codon 382 of the GCM2 protein (p.Val382Met). This variant is present in population databases (rs371918069, gnomAD 0.02%), including at least one homozygous and/or hemizygous individual. This variant has not been reported in the literature in individuals affected with GCM2-related conditions. ClinVar contains an entry for this variant (Variation ID: 905292). Algorithms developed to predict the effect of missense changes on protein structure and function are either unavailable or do not agree on the potential impact of this missense change (SIFT: "Deleterious"; PolyPhen-2: "Probably Damaging"; Align-GVGD: "Class C0"). Experimental studies have shown that this missense change affects GCM2 function (PMID: 27745835, 32576032). 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.

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