ClinVar Miner

Submissions for variant NM_000376.3(VDR):c.803T>C (p.Ile268Thr)

gnomAD frequency: 0.00001  dbSNP: rs1164008328
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Total submissions: 2
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Neuberg Centre For Genomic Medicine, NCGM RCV001507088 SCV001712063 uncertain significance Familial adenomatous polyposis 2 criteria provided, single submitter clinical testing The missense variant p.I268T in VDR (NM_001017535.1) has not been reported previously as a pathogenic variant nor as a benign variant, to our knowledge. The p.I268T variant is observed in 1/16,256 (0.0062%) alleles from individuals of African background in gnomAD Exomes and is novel (not in any individuals) in 1000 Genomes.There is a moderate physicochemical difference between isoleucine and threonine. The p.I268T missense variant is predicted to be damaging by both SIFT and PolyPhen2. The isoleucine residue at codon 268 of VDR is conserved in all mammalian species. The nucleotide c.803 in VDR is predicted conserved by GERP++ and PhyloP across 100 vertebrates. For these reasons, this variant has been classified as Uncertain Significance.
FAHD UNIT, Department of Genetics, King Faisal Specialist Hospital and Research Centre RCV004550273 SCV005043353 uncertain significance Vitamin D-dependent rickets type II with alopecia no assertion criteria provided clinical testing

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