ClinVar Miner

Submissions for variant NM_000038.6(APC):c.2566C>T (p.Arg856Cys)

gnomAD frequency: 0.00001  dbSNP: rs566005215
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Total submissions: 4
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Invitae RCV003767012 SCV000647245 likely benign Familial adenomatous polyposis 1 2023-09-12 criteria provided, single submitter clinical testing
Ambry Genetics RCV001015969 SCV001176867 likely benign Hereditary cancer-predisposing syndrome 2022-06-22 criteria provided, single submitter clinical testing This alteration is classified as likely benign based on a combination of the following: population frequency, intact protein function, lack of segregation with disease, co-occurrence, RNA analysis, in silico models, amino acid conservation, lack of disease association in case-control studies, and/or the mechanism of disease or impacted region is inconsistent with a known cause of pathogenicity.
Color Diagnostics, LLC DBA Color Health RCV001015969 SCV001342401 uncertain significance Hereditary cancer-predisposing syndrome 2023-03-16 criteria provided, single submitter clinical testing This missense variant replaces arginine with cysteine at codon 856 of the APC 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 APC-related disorders in the literature. This variant has been identified in 3/251118 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.
GeneDx RCV001577894 SCV001805374 uncertain significance not provided 2023-09-22 criteria provided, single submitter clinical testing Not observed at significant frequency in large population cohorts (gnomAD); In silico analysis supports that this missense variant has a deleterious effect on protein structure/function; Has not been previously reported as a pathogenic or benign germline variant to our knowledge; however, it has been reported as a somatic variant in colorectal and urothelial carcinomas (Vasovcak 2011, Castro 2015); This variant is associated with the following publications: (PMID: 26674132, 21901162, 33503190)

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