ClinVar Miner

Submissions for variant NM_000038.6(APC):c.2470C>T (p.Pro824Ser)

gnomAD frequency: 0.00001  dbSNP: rs1482721999
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Total submissions: 3
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Ambry Genetics RCV001015466 SCV001176301 uncertain significance Hereditary cancer-predisposing syndrome 2024-03-04 criteria provided, single submitter clinical testing The p.P824S variant (also known as c.2470C>T), located in coding exon 15 of the APC gene, results from a C to T substitution at nucleotide position 2470. The proline at codon 824 is replaced by serine, an amino acid with similar properties. This amino acid position is well conserved in available vertebrate species. In addition, in silico predictors for this gene do not accurately predict pathogenicity. Since supporting evidence is limited at this time, the clinical significance of this alteration remains unclear.
Labcorp Genetics (formerly Invitae), Labcorp RCV004569941 SCV001546483 uncertain significance Familial adenomatous polyposis 1 2024-05-16 criteria provided, single submitter clinical testing This sequence change replaces proline, which is neutral and non-polar, with serine, which is neutral and polar, at codon 824 of the APC protein (p.Pro824Ser). This variant is not present in population databases (gnomAD no frequency). This variant has not been reported in the literature in individuals affected with APC-related conditions. ClinVar contains an entry for this variant (Variation ID: 821245). 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 APC protein function with a negative predictive value of 95%. 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.
Baylor Genetics RCV004569941 SCV005053855 uncertain significance Familial adenomatous polyposis 1 2024-02-12 criteria provided, single submitter clinical testing

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