ClinVar Miner

Submissions for variant NM_032043.3(BRIP1):c.3460A>G (p.Arg1154Gly)

gnomAD frequency: 0.00001  dbSNP: rs769359514
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Total submissions: 4
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Mendelics RCV000989976 SCV001140738 uncertain significance Familial cancer of breast 2019-05-28 criteria provided, single submitter clinical testing
Invitae RCV001210225 SCV001381700 uncertain significance Familial cancer of breast; Fanconi anemia complementation group J 2023-09-12 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 output the following: SIFT: "Not Available"; PolyPhen-2: "Benign"; Align-GVGD: "Not Available". The glycine amino acid residue is found in multiple mammalian species, which suggests that this missense change does not adversely affect protein function. ClinVar contains an entry for this variant (Variation ID: 803447). This variant has not been reported in the literature in individuals affected with BRIP1-related conditions. This variant is present in population databases (rs769359514, gnomAD 0.003%). This sequence change replaces arginine, which is basic and polar, with glycine, which is neutral and non-polar, at codon 1154 of the BRIP1 protein (p.Arg1154Gly).
Women's Health and Genetics/Laboratory Corporation of America, LabCorp RCV001732008 SCV001983673 uncertain significance not specified 2021-09-23 criteria provided, single submitter clinical testing Variant summary: BRIP1 c.3460A>G (p.Arg1154Gly) results in a non-conservative amino acid change in the encoded protein sequence. Four of five in-silico tools predict a benign effect of the variant on protein function. The variant allele was found at a frequency of 1.6e-05 in 250694 control chromosomes (gnomAD and publication data). The available data on variant occurrences in the general population are insufficient to allow any conclusion about variant significance. To our knowledge, no occurrence of c.3460A>G in individuals affected with Hereditary Breast And Ovarian Cancer Syndrome and no experimental evidence demonstrating its impact on protein function have been reported. Two ClinVar submitters (evaluation after 2014) cite the variant as uncertain significance. Based on the evidence outlined above, the variant was classified as uncertain significance.
Ambry Genetics RCV002454235 SCV002617184 likely benign Hereditary cancer-predisposing syndrome 2021-01-06 criteria provided, single submitter clinical testing This alteration is classified as likely benign based on a combination of the following: population frequency, intact protein function, lack of segregation with disease, co-occurrence, RNA analysis, in silico models, amino acid conservation, lack of disease association in case-control studies, and/or the mechanism of disease or impacted region is inconsistent with a known cause of pathogenicity.

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