The ClinGen Evidence Repository is an FDA-recognized human genetic variant database containing expert-curated assertions regarding variants' pathogenicity and supporting evidence summaries. [Disclaimer]
  • Gene obtained from curated document aligns with the Allele Registry but not with ClinVar data
  • No CSPEC computed assertion could be determined for this classification!


Variant: NM_001034853.2(RPGR):c.2293_2297del (p.Glu765fs)

CA916083905

866191 (ClinVar)

Gene: RPGR (HGNC:6103)
Condition: RPGR-related retinopathy (MONDO:0100437)
Inheritance Mode: X-linked inheritance (primarily recessive with milder female expression)
UUID: 85173f47-8a3c-495d-af5d-4c37133b1f47
Approved on: 2025-09-07
Published on: 2025-09-07

HGVS expressions

NM_001034853.2:c.2293_2297del
NM_001034853.2(RPGR):c.2293_2297del (p.Glu765fs)
NC_000023.11:g.38286703_38286707del
CM000685.2:g.38286703_38286707del
NC_000023.10:g.38145956_38145960del
CM000685.1:g.38145956_38145960del
NC_000023.9:g.38030900_38030904del
NG_009553.1:g.45830_45834del
ENST00000494707.6:c.953+1159_953+1163del
ENST00000642170.1:n.1826+4253_1826+4257del
ENST00000642395.2:c.1905+388_1905+392del
ENST00000642739.1:c.1572+4253_1572+4257del
ENST00000644238.1:c.1386+4253_1386+4257del
ENST00000644337.1:c.1719+388_1719+392del
ENST00000645032.1:c.2293_2297del
ENST00000645124.1:c.*101+388_*101+392del
ENST00000646020.1:c.*594+388_*594+392del
ENST00000318842.11:c.1905+388_1905+392del
ENST00000339363.7:c.2520+388_2520+392del
ENST00000378505.6:c.2293_2297del
ENST00000465127.1:c.172-379418_172-379414del
ENST00000474584.5:c.*37+4253_*37+4257del
ENST00000482855.5:c.1905+388_1905+392del
ENST00000494707.5:c.139+4253_139+4257del
NM_000328.2:c.1905+388_1905+392del
NM_001034853.1:c.2293_2297del
NM_001367245.1:c.1902+388_1902+392del
NM_001367246.1:c.1719+388_1719+392del
NM_001367247.1:c.1572+4253_1572+4257del
NM_001367248.1:c.1602+4253_1602+4257del
NM_001367249.1:c.1569+4253_1569+4257del
NM_001367250.1:c.1569+4253_1569+4257del
NM_001367251.1:c.1386+4253_1386+4257del
NR_159803.1:n.2263+388_2263+392del
NR_159804.1:n.1648+4253_1648+4257del
NR_159805.1:n.1714+4253_1714+4257del
NR_159806.1:n.1866+388_1866+392del
NR_159807.1:n.1622+4253_1622+4257del
NR_159808.1:n.1826+4253_1826+4257del
NM_000328.3:c.1905+388_1905+392del
More

Likely Pathogenic

Met criteria codes 2
PVS1 PM2_Supporting
Not Met criteria codes 1
PS4

Evidence Links 0

Expert Panel

Criteria Specification Information

Criteria Specification: ClinGen X-linked Inherited Retinal Disease Expert Panel Specifications to the ACMG/AMP Variant Interpretation Guidelines for RPGR Version 1.0.0

Criteria Specification Approval History
Criteria Specifications for this VCEP
Evidence submitted by expert panel
X-linked Inherited Retinal Disease VCEP
NM_001034853.2(RPGR):c.2293_2297del (p.Glu765ArgfsTer3) is a frameshift variant due to a 5-nucleotide deletion introducing a premature stop codon within exon 15 of 15, which is predicted to disrupt a critical C-terminal region required for proper glutamylation of RPGR (PVS1, PMID: 36445968). This variant is absent from gnomAD v4.1.0 (PM2_Supporting). This variant has been reported in at least 2 apparently unrelated probands (PMID: 27620828, PMID: 34985506). However, the number of individuals meeting one of the PS4 requirements of some functional vision impairment in affected males by age 30 years, decreased or absent electroretinogram responses, or a female proband with an affected male family member, was fewer than the requirement of at least 2 unrelated probands, so PS4_Supporting was not met. In summary, this variant is classified as likely pathogenic for RPGR-related retinopathy based on the ClinGen X-linked Inherited Retinal Disease Expert Panel Specifications to the ACMG/AMP Variant Interpretation Guidelines for RPGR Version 1.0.0; PVS1 and PM2_Supporting.
Met criteria codes
PVS1
This is a frameshift variant that introduces a premature stop codon in exon 15 of 15 that is predicted to disrupt a critical C-terminal region required for proper glutamylation of RPGR (PVS1, PMID: 36445968).
PM2_Supporting
This variant is absent from gnomAD v4.1.0 (PM2_Supporting).
Not Met criteria codes
PS4
This variant has been reported in at least 2 apparently unrelated probands (PMID: 27620828, PMID: 34985506). However, the number of individuals meeting one of the PS4 requirements of some functional vision impairment in affected males by age 30, decreased or absent cone and/or rod ERG responses, or a female proband with an affected male family member, was fewer than the requirement of at least 2 unrelated probands, so PS4_Supporting was not met.
Curation History
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