ClinVar Miner

Submissions for variant NM_000251.3(MSH2):c.746A>G (p.Lys249Arg)

dbSNP: rs61756464
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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 RCV000568266 SCV000669810 uncertain significance Hereditary cancer-predisposing syndrome 2021-05-26 criteria provided, single submitter clinical testing The p.K249R variant (also known as c.746A>G), located in coding exon 4 of the MSH2 gene, results from an A to G substitution at nucleotide position 746. The lysine at codon 249 is replaced by arginine, an amino acid with highly similar properties. This nucleotide position is highly conserved in available vertebrate species. This amino acid position is highly conserved in available vertebrate species. In addition, the in silico prediction for this alteration is inconclusive. Since supporting evidence is limited at this time, the clinical significance of this alteration remains unclear.
Labcorp Genetics (formerly Invitae), Labcorp RCV000808962 SCV000949096 uncertain significance Hereditary nonpolyposis colorectal neoplasms 2023-12-13 criteria provided, single submitter clinical testing This sequence change replaces lysine, which is basic and polar, with arginine, which is basic and polar, at codon 249 of the MSH2 protein (p.Lys249Arg). This variant is not present in population databases (gnomAD no frequency). This variant has not been reported in the literature in individuals affected with MSH2-related conditions. ClinVar contains an entry for this variant (Variation ID: 483711). Advanced modeling performed at Invitae incorporating data from internal and/or published experimental studies (PMID: 33357406) indicates that this missense variant is not expected to disrupt MSH2 function with a negative 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.

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