ClinVar Miner

Submissions for variant NM_032520.5(GNPTG):c.610-1G>A

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Total submissions: 2
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
3billion RCV003152953 SCV003841536 pathogenic GNPTG-mucolipidosis 2023-02-23 criteria provided, single submitter clinical testing The variant is not observed in the gnomAD v2.1.1 dataset. This homozygous variant was predicted to alter splicing and result in a loss or disruption of normal protein function. Multiple pathogenic loss-of-function variants are reported downstream of the variant. Therefore, this variant is classified as Pathogenic according to the recommendation of ACMG/AMP guideline.
Invitae RCV003679163 SCV004423929 pathogenic not provided 2023-01-13 criteria provided, single submitter clinical testing For these reasons, this variant has been classified as Pathogenic. Studies have shown that disruption of this splice site results in impairs the correct recognition mechanism of normal splice sites in the near by intron located upstream. and introduces a premature termination codon (PMID: 19659762). The resulting mRNA is expected to undergo nonsense-mediated decay. Disruption of this splice site has been observed in individual(s) with mucolipidosis III gamma (PMID: 19370764). This variant is not present in population databases (gnomAD no frequency). This sequence change affects an acceptor splice site in intron 8 of the GNPTG gene. RNA analysis indicates that disruption of this splice site induces altered splicing and may result in an absent or disrupted protein product.

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