The ClinGen Evidence Repository is an FDA-recognized human genetic variant database containing expert-curated assertions regarding variants' pathogenicity and supporting evidence summaries. [Disclaimer]


Variant: NM_000329.3(RPE65):c.1067dup (p.Asn356fs)

CA902307

596673 (ClinVar)

Gene: RPE65
Condition: RPE65-related recessive retinopathy
Inheritance Mode: Autosomal recessive inheritance
UUID: 728999dd-8b17-40cf-8bb7-8e287f5b546f
Approved on: 2024-01-31
Published on: 2024-01-31

HGVS expressions

NM_000329.3:c.1067dup
NM_000329.3(RPE65):c.1067dup (p.Asn356fs)
NC_000001.11:g.68438255dup
CM000663.2:g.68438255dup
NC_000001.10:g.68903938dup
CM000663.1:g.68903938dup
NC_000001.9:g.68676526dup
NG_008472.1:g.16712dup
NG_008472.2:g.16712dup
ENST00000262340.6:c.1067dup
ENST00000262340.5:c.1067dup
NM_000329.2:c.1067dup
More

Pathogenic

Met criteria codes 3
PM2_Supporting PVS1 PP1
Not Met criteria codes 1
PM3

Evidence Links 0

Expert Panel

Criteria Specification Information

Criteria Specification: ClinGen Leber Congenital Amaurosis/early onset Retinal Dystrophy Expert Panel Specifications to the ACMG/AMP Variant Interpretation Guidelines for RPE65 Version 1.0.0

Criteria Specification Approval History
Criteria Specifications for this VCEP
Evidence submitted by expert panel
Leber Congenital Amaurosis/early onset Retinal Dystrophy VCEP
The NM_000329.3(RPE65):c.1067dup (p.Asn356fs) variant is a frameshift in exon 10 of 14 that is predicted to lead to nonsense mediated decay in a gene in which loss-of-function is an established disease mechanism (PVS1). The variant has been observed in multiple probands in the compound heterozygous state with other variants (PMID: 26906952, PMID: 35129589), but has not been evaluated for the PM3 code. In one case, the variant has been reported to segregate with childhood-onset severe retinal dystrophy through the proband plus 1 similarly affected relative, with the variant present in the compound heterozygous state (PMID: 32032261, PP1). This variant is present in gnomAD v2.1.1 at a GrpMax Filtering allele frequency of 0.00007526 with 7 alleles / 35330 total alleles in the Latino / Admixed American population, which is lower than the ClinGen LCA / eoRD VCEP PM2_Supporting threshold of <0.0002 (PM2_Supporting). In summary, this variant meets the criteria to be classified as Pathogenic for RPE65-related recessive retinopathy based on the ACMG/AMP criteria applied, as specified by the ClinGen LCA/eoRD VCEP: PVS1, PM2_supporting, and PP1. (VCEP specifications version 1.0.0; date of approval 09/21/2023).
Met criteria codes
PM2_Supporting
This variant has a PopMax Filtering allele frequency of 0.00007526 (7/35330) in the Latino / Admixed American population in gnomAD v2.1.1 (with no homozygotes). This allele frequency is lower than the ClinGen LCA/eoRD VCEP threshold (<0.0002) for this criterion (PM2_Supporting).
PVS1
This variant causes a frameshift in exon 10 of 14 and is predicted to trigger nonsense-mediated decay (PVS1).
PP1
The variant has been reported to segregate with childhood-onset severe retinal dystrophy through the proband plus 1 similarly affected relative, with the variant present in the compound heterozygous state (PMID: 32032261, PP1).
Not Met criteria codes
PM3
The variant has been observed in multiple probands in the compound heterozygous state with other variants, but was not evaluated for this criterion in order to avoid circularity (PMID: 35129589).
Curation History
The information on this website is not intended for direct diagnostic use or medical decision-making without review by a genetics professional. Individuals should not change their health behavior solely on the basis of information contained on this website. If you have questions about the information contained on this website, please see a health care professional.
¤ Powered by BCM's Genboree.