ClinVar Miner

Submissions for variant NM_152564.5(VPS13B):c.11240A>G (p.Gln3747Arg)

gnomAD frequency: 0.00005  dbSNP: rs779751988
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Total submissions: 3
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Labcorp Genetics (formerly Invitae), Labcorp RCV001323460 SCV001514376 uncertain significance Cohen syndrome 2023-11-06 criteria provided, single submitter clinical testing This sequence change replaces glutamine, which is neutral and polar, with arginine, which is basic and polar, at codon 3772 of the VPS13B protein (p.Gln3772Arg). This variant is present in population databases (rs779751988, gnomAD 0.02%). This variant has not been reported in the literature in individuals affected with VPS13B-related conditions. ClinVar contains an entry for this variant (Variation ID: 1023424). Advanced modeling of protein sequence and biophysical properties (such as structural, functional, and spatial information, amino acid conservation, physicochemical variation, residue mobility, and thermodynamic stability) performed at Invitae indicates that this missense variant is expected to disrupt VPS13B protein function with a positive predictive value of 80%. 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.
Natera, Inc. RCV001323460 SCV002082795 uncertain significance Cohen syndrome 2019-10-29 no assertion criteria provided clinical testing
PreventionGenetics, part of Exact Sciences RCV004743405 SCV005364444 uncertain significance VPS13B-related disorder 2024-07-12 no assertion criteria provided clinical testing The VPS13B c.11240A>G variant is predicted to result in the amino acid substitution p.Gln3747Arg. 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. 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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