ClinVar Miner

Submissions for variant NM_014780.5(CUL7):c.4763T>C (p.Leu1588Pro)

gnomAD frequency: 0.00001  dbSNP: rs759300846
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Total submissions: 3
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Invitae RCV001871747 SCV002251919 uncertain significance not provided 2021-08-31 criteria provided, single submitter clinical testing
Women's Health and Genetics/Laboratory Corporation of America, LabCorp RCV003155388 SCV003844876 likely pathogenic 3-M syndrome 2023-02-16 criteria provided, single submitter clinical testing Variant summary: CUL7 c.4763T>C (p.Leu1588Pro) results in a non-conservative amino acid change located in the Cullin protein, neddylation domain of the encoded protein sequence. Five of five in-silico tools predict a damaging effect of the variant on protein function. The variant allele was found at a frequency of 4e-06 in 250766 control chromosomes. c.4763T>C has been reported in the literature in individuals affected with Three M Syndrome in the compound heterozygous and homozygous states (Hanson_2012, Hu_2017, Fan_2021). These data indicate that the variant may be associated with disease. Experimental evidence found that the L1588P mutation in CUL7 disrupted its interaction with endogenous CCDC8, its association with the membrane, and the ability to degrade LL5 protein (Wang_2019). Two clinical diagnostic laboratories have submitted clinical-significance assessments for this variant to ClinVar after 2014 without evidence for independent evaluation. One laboratory classified the variant as likely pathogenic, and one laboratory classified the variant as uncertain significance. Based on the evidence outlined above, the variant was classified as likely pathogenic.
Beijing Key Laboratory for Genetic Research of Skeletal Deformity, Peking Union Medical College Hospital RCV001293688 SCV001482316 likely pathogenic 3M syndrome 1 2019-05-31 no assertion criteria provided research

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