ClinVar Miner

Submissions for variant NM_000038.6(APC):c.4110A>T (p.Lys1370Asn)

dbSNP: rs876660867
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Total submissions: 5
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Ambry Genetics RCV000214680 SCV000278639 uncertain significance Hereditary cancer-predisposing syndrome 2023-04-11 criteria provided, single submitter clinical testing The p.K1370N variant (also known as c.4110A>T), located in coding exon 15 of the APC gene, results from an A to T substitution at nucleotide position 4110. The lysine at codon 1370 is replaced by asparagine, an amino acid with similar properties. This amino acid position is highly 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.
GeneDx RCV001762503 SCV002008762 uncertain significance not provided 2019-04-16 criteria provided, single submitter clinical testing Not observed in large population cohorts (Lek et al., 2016); Has not been previously published as pathogenic or benign to our knowledge
Invitae RCV003535595 SCV002141452 uncertain significance Familial adenomatous polyposis 1 2023-06-24 criteria provided, single submitter clinical testing 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. 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. ClinVar contains an entry for this variant (Variation ID: 234127). This variant has not been reported in the literature in individuals affected with APC-related conditions. This variant is not present in population databases (gnomAD no frequency). This sequence change replaces lysine, which is basic and polar, with asparagine, which is neutral and polar, at codon 1370 of the APC protein (p.Lys1370Asn).
Women's Health and Genetics/Laboratory Corporation of America, LabCorp RCV002298543 SCV002598561 uncertain significance not specified 2022-09-16 criteria provided, single submitter clinical testing
Color Diagnostics, LLC DBA Color Health RCV000214680 SCV004362952 uncertain significance Hereditary cancer-predisposing syndrome 2023-09-21 criteria provided, single submitter clinical testing This missense variant replaces lysine with asparagine at codon 1370 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 not been reported in individuals affected with APC-related disorders in the literature. This variant has not been identified 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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