ClinVar Miner

Submissions for variant NM_007055.4(POLR3A):c.3733C>T (p.Arg1245Ter)

dbSNP: rs928051665
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Total submissions: 2
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Baylor Genetics RCV001331682 SCV001523776 pathogenic Leukoencephalopathy-ataxia-hypodontia-hypomyelination syndrome 2019-07-17 criteria provided, single submitter clinical testing This variant was determined to be pathogenic according to ACMG Guidelines, 2015 [PMID:25741868].
Broad Center for Mendelian Genomics, Broad Institute of MIT and Harvard RCV002546501 SCV003761118 pathogenic Leukodystrophy 2023-01-24 criteria provided, single submitter curation The p.Arg1245Ter variant in POLR3A has been reported in 2 individuals, in the compound heterozygous state, with hypomyelinating leukodystrophy (PMID: 34296356), and has been identified in 0.003% (1/30610) of South Asian chromosomes by the Genome Aggregation Database (gnomAD, http://gnomad.broadinstitute.org; dbSNP ID: rs928051665). Although this variant has been seen in the general population in a heterozygous state, its frequency is low enough to be consistent with a recessive carrier frequency. This variant has also been reported in ClinVar (Variation ID#: 1030186) and has been interpreted as pathogenic by Baylor Genetics. This nonsense variant leads to a premature termination codon at position 1245, which is predicted to lead to a truncated or absent protein. Loss of function of the POLR3A gene is an established disease mechanism in autosomal recessive hypomyelinating leukodystrophy. In summary, this variant meets criteria to be classified as pathogenic for autosomal recessive hypomyelinating leukodystrophy. ACMG/AMP Criteria applied: PVS1, PM2_supporting, PM3_supporting (Richards 2015).

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