ClinVar Miner

Submissions for variant NM_007078.3(LDB3):c.1232-12dup

dbSNP: rs752301693
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Total submissions: 3
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
GeneDx RCV001577328 SCV001804683 likely benign not provided 2019-11-13 criteria provided, single submitter clinical testing
Invitae RCV002072271 SCV002401771 benign Myofibrillar myopathy 4 2023-11-29 criteria provided, single submitter clinical testing
Women's Health and Genetics/Laboratory Corporation of America, LabCorp RCV003987881 SCV004803961 benign not specified 2024-01-29 criteria provided, single submitter clinical testing Variant summary: LDB3 c.1232-12dupT alters a conserved nucleotide located at a position not widely known to affect splicing. Consensus agreement among computation tools predict no significant impact on normal splicing. However, these predictions have yet to be confirmed by functional studies. The variant allele was found at a frequency of 8.1e-05 in 247206 control chromosomes, predominantly at a frequency of 0.00014 within the Non-Finnish European subpopulation in the gnomAD database. The observed variant frequency within Non-Finnish European control individuals in the gnomAD database is approximately 6 fold of the estimated maximal expected allele frequency for a pathogenic variant in LDB3 causing Cardiomyopathy phenotype (2.5e-05), strongly suggesting that the variant is a benign polymorphism found primarily in populations of Non-Finnish European origin. To our knowledge, no occurrence of c.1232-12dupT in individuals affected with Cardiomyopathy and no experimental evidence demonstrating its impact on protein function have been reported. ClinVar contains an entry for this variant (Variation ID: 1208861). Based on the evidence outlined above, the variant was classified as benign.

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