ClinVar Miner

Submissions for variant NM_000271.5(NPC1):c.3477+2T>C

gnomAD frequency: 0.00001  dbSNP: rs772898831
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Total submissions: 1
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Invitae RCV000814344 SCV000954748 pathogenic Niemann-Pick disease, type C1 2023-10-30 criteria provided, single submitter clinical testing This sequence change affects a donor splice site in intron 22 of the NPC1 gene. It is expected to disrupt RNA splicing. Variants that disrupt the donor or acceptor splice site typically lead to a loss of protein function (PMID: 16199547), and loss-of-function variants in NPC1 are known to be pathogenic (PMID: 9211850). The frequency data for this variant in the population databases is considered unreliable, as metrics indicate poor data quality at this position in the gnomAD database. Disruption of this splice site has been observed in individual(s) with Niemann-Pick disease type C (PMID: 16126423). ClinVar contains an entry for this variant (Variation ID: 657686). Algorithms developed to predict the effect of sequence changes on RNA splicing suggest that this variant may disrupt the consensus splice site. For these reasons, this variant has been classified as Pathogenic.

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