ClinVar Miner

Submissions for variant NM_000038.6(APC):c.166G>C (p.Glu56Gln)

dbSNP: rs786203566
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Total submissions: 2
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Ambry Genetics RCV000166941 SCV000217761 uncertain significance Hereditary cancer-predisposing syndrome 2014-11-26 criteria provided, single submitter clinical testing The p.E56Q variant (also known as c.166G>C), located in coding exon 2 of the APC gene, results from a G to C substitution at nucleotide position 166. The glutamic acid at codon 56 is replaced by glutamine, an amino acid with highly similar properties. This variant was not reported in population based cohorts in the following databases: Database of Single Nucleotide Polymorphisms (dbSNP), NHLBI Exome Sequencing Project (ESP), and 1000 Genomes Project. In the ESP, this variant was not observed in 6498 samples (12996 alleles) with coverage at this position. To date, this alteration has been detected with an allele frequency of approximately 0.01% (greater than 13000 alleles tested) in our clinical cohort. 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 p.E56Q remains unclear.
Invitae RCV003534457 SCV003525835 uncertain significance Familial adenomatous polyposis 1 2022-08-31 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. Algorithms developed to predict the effect of missense changes on protein structure and function are either unavailable or do not agree on the potential impact of this missense change (SIFT: "Tolerated"; PolyPhen-2: "Possibly Damaging"; Align-GVGD: "Class C0"). ClinVar contains an entry for this variant (Variation ID: 187228). This missense change has been observed in individual(s) with APC-related conditions (PMID: 28135145). This variant is not present in population databases (gnomAD no frequency). This sequence change replaces glutamic acid, which is acidic and polar, with glutamine, which is neutral and polar, at codon 56 of the APC protein (p.Glu56Gln).

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