ClinVar Miner

Submissions for variant NM_007254.4(PNKP):c.1413T>C (p.His471=)

gnomAD frequency: 0.00016  dbSNP: rs370017666
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Total submissions: 4
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Eurofins Ntd Llc (ga) RCV000593965 SCV000704917 uncertain significance not provided 2018-05-25 criteria provided, single submitter clinical testing
Illumina Laboratory Services, Illumina RCV001129143 SCV001288642 uncertain significance Microcephaly, seizures, and developmental delay 2018-01-13 criteria provided, single submitter clinical testing This variant was observed in the ICSL laboratory as part of a predisposition screen in an ostensibly healthy population. It had not been previously curated by ICSL or reported in the Human Gene Mutation Database (HGMD: prior to June 1st, 2018), and was therefore a candidate for classification through an automated scoring system. Utilizing variant allele frequency, disease prevalence and penetrance estimates, and inheritance mode, an automated score was calculated to assess if this variant is too frequent to cause the disease. Based on the score, this variant could not be ruled out of causing disease and therefore its association with disease required further investigation. A literature search was performed for the gene, cDNA change, and amino acid change (if applicable). No publications were found based on this search. This variant was therefore classified as a variant of unknown significance for this disease.
Invitae RCV001485549 SCV001689986 likely benign Developmental and epileptic encephalopathy, 12 2023-12-27 criteria provided, single submitter clinical testing
PreventionGenetics, part of Exact Sciences RCV004530684 SCV004713595 likely benign PNKP-related disorder 2021-05-07 criteria provided, single submitter clinical testing This variant is classified as likely benign based on ACMG/AMP sequence variant interpretation guidelines (Richards et al. 2015 PMID: 25741868, with internal and published modifications).

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