ClinVar

Description

Variant summary: BRCA2 c.3007C>G (p.His1003Asp) 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 was absent in 250722 control chromosomes. The available data on variant occurrences in the general population are insufficient to allow any conclusion about variant significance. c.3007C>G has been reported in the literature in individuals of East Asian ethnicity affected with Hereditary Breast and/or Ovarian Cancer Syndrome (example, Lim_2009, Lee_2018, Ha_2020, Park_2021, Li_2020). At-least one of these studies reported this variant with a final ACMG based classification of likely benign but the evidential basis of this is not explicitly stated (Lee_2018). All other reports include this variant among the VUS listed in the respective studies. These reports do not provide unequivocal conclusions about association of the variant with Hereditary Breast And Ovarian Cancer Syndrome. A co-occurrence with another pathogenic variant has been reported (BRCA1 c.5470_5477del, p.Ile1824AspfsX3; Li_2020), providing supporting evidence for a benign role. To our knowledge, no experimental evidence demonstrating an impact on protein function has been reported. The following publications have been ascertained in the context of this evaluation (PMID: 33078592, 30415210, 19499246, 34063308, 31396961, 32694901). Five ClinVar submitters (evaluation after 2014) have reported the variant with conflicting assessments: 4 submitters classified the variant as VUS, and 1 submitter classified the variant as likely benign. Based on the evidence outlined above, the variant was classified as uncertain significance.