ClinVar Miner

Submissions for variant NM_000090.4(COL3A1):c.1189G>A (p.Glu397Lys)

gnomAD frequency: 0.00001  dbSNP: rs187907868
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Total submissions: 2
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Color Diagnostics, LLC DBA Color Health RCV001805489 SCV002053049 uncertain significance Familial thoracic aortic aneurysm and aortic dissection 2021-07-15 criteria provided, single submitter clinical testing This missense variant replaces glutamic acid with lysine at codon 397 of the COL3A1 protein. Computational prediction is inconclusive regarding the impact of this variant on protein structure and function (internally defined REVEL score threshold 0.5 < inconclusive < 0.7, PMID: 27666373). To our knowledge, functional studies have not been reported for this variant. This variant has not been reported in individuals affected with cardiovascular disorders in the literature. This variant has been identified in 3/251414 chromosomes in the general population by the Genome Aggregation Database (gnomAD). The available evidence is insufficient to determine the role of this variant in disease conclusively. Therefore, this variant is classified as a Variant of Uncertain Significance.
Labcorp Genetics (formerly Invitae), Labcorp RCV001869548 SCV002159911 uncertain significance Ehlers-Danlos syndrome, type 4 2022-02-24 criteria provided, single submitter clinical testing 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 not expected to disrupt COL3A1 protein function. 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. ClinVar contains an entry for this variant (Variation ID: 1332443). This variant has not been reported in the literature in individuals affected with COL3A1-related conditions. This variant is present in population databases (rs187907868, gnomAD 0.007%). This sequence change replaces glutamic acid, which is acidic and polar, with lysine, which is basic and polar, at codon 397 of the COL3A1 protein (p.Glu397Lys).

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