ClinVar Miner

Submissions for variant NM_000497.4(CYP11B1):c.29G>A (p.Cys10Tyr)

gnomAD frequency: 0.00049  dbSNP: rs6405
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Total submissions: 3
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Labcorp Genetics (formerly Invitae), Labcorp RCV001358047 SCV002434182 likely benign not provided 2025-01-06 criteria provided, single submitter clinical testing
Fulgent Genetics, Fulgent Genetics RCV002493832 SCV002798363 likely benign Deficiency of steroid 11-beta-monooxygenase; Glucocorticoid-remediable aldosteronism 2021-08-04 criteria provided, single submitter clinical testing
Department of Pathology and Laboratory Medicine, Sinai Health System RCV001358047 SCV001553689 uncertain significance not provided no assertion criteria provided clinical testing The CYP11B1 p.Cys10Tyr variant was identified in the literature however odds of breast cancer were found to be lower among heterozygotes for the p.Cys10Tyr variant than among controls (Listgarten_2004_PMID:15102677). The variant was also identified in dbSNP (ID: rs6405) and LOVD 3.0 but was not identified in ClinVar or Cosmic databases. The variant was identified in control databases in 51 of 282366 chromosomes at a frequency of 0.000181 (Genome Aggregation Database Feb 27, 2017). The variant was observed in the following populations: African in 45 of 24964 chromosomes (freq: 0.001803), Other in 2 of 7218 chromosomes (freq: 0.000277) and Latino in 4 of 35440 chromosomes (freq: 0.000113); it was not observed in the Ashkenazi Jewish, East Asian, European (Finnish), European (non-Finnish) or South Asian populations. The p.Cys10Tyr residue is not conserved in mammals and four out of five computational analyses (PolyPhen-2, SIFT, AlignGVGD, MutationTaster) do not suggest a high likelihood of impact to the protein; however, this information is not predictive enough to rule out pathogenicity. The variant occurs outside of the splicing consensus sequence and 2 of 4 in silico or computational prediction software programs (SpliceSiteFinder, MaxEntScan) predict a greater than 10% difference in splicing; this is not very predictive of pathogenicity. In summary, based on the above information the clinical significance of this variant cannot be determined with certainty at this time. This variant is classified as a variant of uncertain significance.

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