ClinVar Miner

Submissions for variant NM_004444.5(EPHB4):c.1546G>A (p.Gly516Arg)

gnomAD frequency: 0.00001  dbSNP: rs776305185
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Total submissions: 2
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
SIB Swiss Institute of Bioinformatics RCV000852313 SCV000994948 uncertain significance Capillary malformation-arteriovenous malformation 2 2019-03-29 criteria provided, single submitter curation This variant is interpreted as a Uncertain significance for Capillary malformation-arteriovenous malformation 2. The following ACMG Tag(s) were applied: PP3: Multiple lines of computational evidence support a deleterious effect on the gene or gene product.
Invitae RCV003546606 SCV004269013 uncertain significance not provided 2024-01-21 criteria provided, single submitter clinical testing This sequence change replaces glycine, which is neutral and non-polar, with arginine, which is basic and polar, at codon 516 of the EPHB4 protein (p.Gly516Arg). This variant is present in population databases (rs776305185, gnomAD 0.007%). This missense change has been observed in individual(s) with capillary malformation-arteriovenous malformation (PMID: 28687708). ClinVar contains an entry for this variant (Variation ID: 691538). 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 EPHB4 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.

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