ClinVar Miner

Submissions for variant NM_000038.6(APC):c.5603A>G (p.Asp1868Gly)

dbSNP: rs781026376
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Total submissions: 4
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Ambry Genetics RCV000164161 SCV000214777 uncertain significance Hereditary cancer-predisposing syndrome 2021-09-24 criteria provided, single submitter clinical testing The p.D1868G variant (also known as c.5603A>G), located in coding exon 15 of the APC gene, results from an A to G substitution at nucleotide position 5603. The aspartic acid at codon 1868 is replaced by glycine, an amino acid with similar properties. This alteration was also detected on a 25-gene panel test in a Caucasian woman who was diagnosed with breast cancer at age 59 (Tung N et al. Cancer, 2015 Jan;121:25-33). This amino acid position is well conserved in available vertebrate species. In addition, this alteration is predicted to be tolerated by in silico analysis. Since supporting evidence is limited at this time, the clinical significance of this alteration remains unclear.
Invitae RCV003534438 SCV000647599 uncertain significance Familial adenomatous polyposis 1 2024-01-25 criteria provided, single submitter clinical testing This sequence change replaces aspartic acid, which is acidic and polar, with glycine, which is neutral and non-polar, at codon 1868 of the APC protein (p.Asp1868Gly). This variant is present in population databases (rs781026376, gnomAD 0.0009%). 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: 184835). 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.
GeneDx RCV003114311 SCV003798667 uncertain significance not provided 2022-10-21 criteria provided, single submitter clinical testing Not observed at significant frequency in large population cohorts (gnomAD); 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; This variant is associated with the following publications: (PMID: 18199528)
Color Diagnostics, LLC DBA Color Health RCV000164161 SCV004363347 uncertain significance Hereditary cancer-predisposing syndrome 2023-02-23 criteria provided, single submitter clinical testing This missense variant replaces aspartic acid with glycine at codon 1868 of the APC protein. Computational prediction suggests that this variant may not impact protein structure and function (internally defined REVEL score threshold <= 0.5, PMID: 27666373). To our knowledge, functional studies have not been reported for this variant. This variant has been reported in an individual affected with hereditary breast cancer (PMID: 25186627). This variant has been identified in 1/250918 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.

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