ClinVar Miner

Submissions for variant NM_138694.4(PKHD1):c.6565G>A (p.Val2189Ile)

gnomAD frequency: 0.00005  dbSNP: rs142552070
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Total submissions: 4
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Eurofins Ntd Llc (ga) RCV000591645 SCV000707304 uncertain significance not provided 2017-03-28 criteria provided, single submitter clinical testing
Fulgent Genetics, Fulgent Genetics RCV002483636 SCV002786543 uncertain significance Polycystic kidney disease 4 2022-02-02 criteria provided, single submitter clinical testing
Invitae RCV002532562 SCV003263354 uncertain significance Autosomal recessive polycystic kidney disease 2022-04-22 criteria provided, single submitter clinical testing This sequence change replaces valine, which is neutral and non-polar, with isoleucine, which is neutral and non-polar, at codon 2189 of the PKHD1 protein (p.Val2189Ile). This variant is present in population databases (rs142552070, gnomAD 0.03%). This variant has not been reported in the literature in individuals affected with PKHD1-related conditions. ClinVar contains an entry for this variant (Variation ID: 501080). 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 PKHD1 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.
GeneDx RCV000591645 SCV003915253 uncertain significance not provided 2022-10-07 criteria provided, single submitter clinical testing In silico analysis supports that this missense variant does not alter protein structure/function; Has not been previously published as pathogenic or benign to our knowledge

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