Total submissions: 3
| Submitter | RCV | SCV | Clinical significance | Condition | Last evaluated | Review status | Method | Comment |
|---|---|---|---|---|---|---|---|---|
| Ambry Genetics | RCV002448540 | SCV002735101 | uncertain significance | Hereditary cancer-predisposing syndrome | 2022-01-28 | criteria provided, single submitter | clinical testing | The p.I787T variant (also known as c.2360T>C), located in coding exon 14 of the PMS2 gene, results from a T to C substitution at nucleotide position 2360. The isoleucine at codon 787 is replaced by threonine, an amino acid with similar properties. This amino acid position is conserved. In addition, this alteration is predicted to be deleterious by in silico analysis. Since supporting evidence is limited at this time, the clinical significance of this alteration remains unclear. |
| Labcorp Genetics |
RCV003101757 | SCV003021242 | uncertain significance | Hereditary nonpolyposis colorectal neoplasms | 2024-05-21 | criteria provided, single submitter | clinical testing | This sequence change replaces isoleucine, which is neutral and non-polar, with threonine, which is neutral and polar, at codon 787 of the PMS2 protein (p.Ile787Thr). The frequency data for this variant in the population databases (gnomAD) is considered unreliable due to the presence of homologous sequence, such as pseudogenes or paralogs, in the genome. This variant has not been reported in the literature in individuals affected with PMS2-related conditions. ClinVar contains an entry for this variant (Variation ID: 1790156). 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 expected to disrupt PMS2 protein function with a positive predictive value of 80%. 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. |
| Baylor Genetics | RCV004571137 | SCV005056395 | uncertain significance | Lynch syndrome 4 | 2024-03-13 | criteria provided, single submitter | clinical testing |