ClinVar Miner

Submissions for variant NM_022124.6(CDH23):c.9247T>A (p.Phe3083Ile)

dbSNP: rs1564807861
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Total submissions: 2
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
ARUP Laboratories, Molecular Genetics and Genomics, ARUP Laboratories RCV000757072 SCV000885163 uncertain significance not provided 2017-10-20 criteria provided, single submitter clinical testing The p.Phe3083Ile variant has not been reported in the medical literature, is not listed in gene-specific variant databases, nor has it been previously identified in our laboratory. It is also absent from general population databases such as 1000 Genomes, the NHLBI GO Exome Sequencing Project (ESP), and the Genome Aggregation Database (gnomAD) browser. The phenylalanine at codon 3083 is highly conserved considering 12 species up to zebrafish (Alamut software v2.10.0), and computational analyses predict conflicting effects of this variant on protein structure/function (SIFT: tolerated, PolyPhen2: benign, MutationTaster: disease causing). Based on the available information, the clinical significance of the p.Phe3083Ile variant cannot be determined with certainty.
Invitae RCV000757072 SCV001536923 uncertain significance not provided 2021-09-15 criteria provided, single submitter clinical testing This sequence change replaces phenylalanine with isoleucine at codon 3083 of the CDH23 protein (p.Phe3083Ile). The phenylalanine residue is highly conserved and there is a small physicochemical difference between phenylalanine and isoleucine. This variant is not present in population databases (ExAC no frequency). This variant has not been reported in the literature in individuals affected with CDH23-related conditions. ClinVar contains an entry for this variant (Variation ID: 618557). 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: "Deleterious"; PolyPhen-2: "Not Available"; Align-GVGD: "Class C0"). 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.

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