Retinitis pigmentosa 88

Summary

Retinitis pigmentosa 88 (MONDO:0032940) is a disease caused by RP1L1 (GenCC Strong), with 1 cohort gene.

At a glance

• Causal gene: RP1L1 (GenCC Strong)
• Cohort genes: 1
• ClinVar variants: 90

Clinical features

No curated clinical features (Orphanet) for this disease.

Identifiers

Disease identifiers

Field	Value
Canonical name	retinitis pigmentosa 88
Mondo ID	MONDO:0032940
OMIM	618826
DOID	DOID:0112145
UMLS	C5394208
MedGen	1720448
GARD	0016385
Is cancer (heuristic)	no

Also known as: RP88

Data availability: 90 ClinVar variants · 3 GenCC gene-disease records.

Disease family

Classification path: disease › human disease › disease by body system or component › nervous system disorder › retinal disorder › retinal degeneration › inherited retinal dystrophy › retinitis pigmentosa › retinitis pigmentosa 88

Related subtypes (101): retinitis pigmentosa 6, cone-rod dystrophy 2, retinitis pigmentosa 1, retinitis pigmentosa 9, retinitis pigmentosa 10, dominant pericentral pigmentary retinopathy, late-adult onset retinitis pigmentosa, autosomal recessive pericentral pigmentary retinopathy, retinitis pigmentosa 3, retinitis pigmentosa 24, retinitis pigmentosa 23, retinitis pigmentosa 34, retinitis pigmentosa 2, retinitis pigmentosa Y-linked, retinitis pigmentosa 13, retinitis pigmentosa 12, retinitis pigmentosa 14, retinitis pigmentosa 11, retinitis pigmentosa 17, retinitis pigmentosa 18, retinitis pigmentosa 19, retinitis pigmentosa 22, retinitis pigmentosa 25, retinitis pigmentosa 28, retinitis pigmentosa 30, retinitis pigmentosa 7, retinitis pigmentosa 26, retinitis pigmentosa 32, retinitis pigmentosa 31, retinitis pigmentosa 35, retinitis pigmentosa 33, retinitis pigmentosa 36, retinitis pigmentosa 37, retinitis pigmentosa 41, retinitis pigmentosa 29, retinitis pigmentosa 46, retinitis pigmentosa 42, retinitis pigmentosa 50, retinitis pigmentosa 54, retinitis pigmentosa 51, retinitis pigmentosa 55, retinitis pigmentosa 56, retinitis pigmentosa 57, retinitis pigmentosa 58, cone-rod dystrophy 15, retinitis pigmentosa 4, retinitis pigmentosa 27, retinitis pigmentosa 49, retinitis pigmentosa 47, retinitis pigmentosa 45, retinitis pigmentosa 44, retinitis pigmentosa 20, retinitis pigmentosa 40, retinitis pigmentosa 39, retinitis pigmentosa 43, retinitis pigmentosa 48, retinitis pigmentosa 59, retinitis pigmentosa 38, retinitis pigmentosa 60, retinitis pigmentosa 61, retinitis pigmentosa 62, retinitis pigmentosa 63, cone-rod dystrophy 16, retinitis pigmentosa 66, retinitis pigmentosa with or without situs inversus, retinitis pigmentosa 67, retinitis pigmentosa 68, retinitis pigmentosa 69, retinitis pigmentosa 70, retinal dystrophy and obesity, retinitis pigmentosa 71, retinitis pigmentosa 72, retinitis pigmentosa 73, retinitis pigmentosa 74, retinitis pigmentosa 75, retinitis pigmentosa 76, retinitis pigmentosa 77, retinitis pigmentosa 92, retinitis pigmentosa 93, retinitis pigmentosa 83, retinitis pigmentosa 84, retinitis pigmentosa 85, retinitis pigmentosa 86, retinitis pigmentosa 87 with choroidal involvement, retinitis pigmentosa 90, retinitis pigmentosa 81, retinitis pigmentosa 78, retinitis pigmentosa 79, retinitis pigmentosa 80, retinitis pigmentosa 94, variable age at onset, retinitis pigmentosa 53, retinitis pigmentosa 65, retinitis pigmentosa 64, retinitis pigmentosa 95, retinitis pigmentosa 96, retinitis pigmentosa 97, retinitis pigmentosa 98, retinitis pigmentosa 99, retinitis pigmentosa 100, retinitis pigmentosa 101, retinitis pigmentosa 7, digenic

Genetics & variants

GWAS landscape

No GWAS associations recorded — common-variant (GWAS) studies don’t cover this disease (typical for Mendelian / rare diseases). See the curated gene cohort and Mendelian overlap below.

Variant details and genetic-evidence tiers

ClinVar germline variants

90 retrieved; paginated sample, class counts are floors:

25 uncertain significance, 21 benign, 18 conflicting classifications of pathogenicity, 9 likely pathogenic, 8 benign/likely benign, 6 pathogenic, 3 pathogenic/likely pathogenic

ClinVar	Variant (HGVS)	Gene	Classification	Review
1065635	NM_178857.6(RP1L1):c.6530T>G (p.Leu2177Ter)	RP1L1	Pathogenic	criteria provided, multiple submitters, no conflicts
1213905	NM_178857.6(RP1L1):c.2464C>T (p.Arg822Ter)	RP1L1	Pathogenic	criteria provided, single submitter
2193	NM_178857.6(RP1L1):c.133C>T (p.Arg45Trp)	RP1L1	Pathogenic/Likely pathogenic	criteria provided, multiple submitters, no conflicts
50376	NM_178857.6(RP1L1):c.603del (p.Lys203fs)	RP1L1	Pathogenic	criteria provided, single submitter
828062	NM_178857.6(RP1L1):c.5470C>T (p.Gln1824Ter)	RP1L1	Pathogenic	no assertion criteria provided
828063	NM_178857.6(RP1L1):c.56C>A (p.Pro19His)	RP1L1	Pathogenic	no assertion criteria provided
828064	NM_178857.6(RP1L1):c.3955_3956insGGACTAAAGTAATAGAAGGGCTGCAAGAAGAGAGGGTGCAGTTAGAGG (p.Glu1318_Ala1319insGlyThrLysValIleGluGlyLeuGlnGluGluArgValGlnLeuGlu)	RP1L1	Pathogenic	no assertion criteria provided
865995	NM_178857.6(RP1L1):c.1189C>T (p.Arg397Ter)	RP1L1	Pathogenic/Likely pathogenic	criteria provided, multiple submitters, no conflicts
867066	NM_178857.6(RP1L1):c.1451del (p.Ser484fs)	RP1L1	Pathogenic/Likely pathogenic	criteria provided, multiple submitters, no conflicts
1048138	NM_178857.6(RP1L1):c.1024_1026delinsCTCCT (p.Arg342fs)	RP1L1	Likely pathogenic	criteria provided, single submitter
1048147	NM_178857.6(RP1L1):c.196G>C (p.Asp66His)	RP1L1	Likely pathogenic	criteria provided, multiple submitters, no conflicts
1678613	NM_178857.6(RP1L1):c.2380G>T (p.Glu794Ter)	RP1L1	Likely pathogenic	criteria provided, single submitter
3249352	NM_178857.6(RP1L1):c.5540_5541del (p.Glu1847fs)	RP1L1	Likely pathogenic	criteria provided, single submitter
3336666	NM_178857.6(RP1L1):c.5170C>T (p.Gln1724Ter)	RP1L1	Likely pathogenic	criteria provided, single submitter
3355449	NM_178857.6(RP1L1):c.1270A>T (p.Lys424Ter)	RP1L1	Likely pathogenic	criteria provided, multiple submitters, no conflicts
3776085	NM_178857.6(RP1L1):c.2123C>A (p.Ser708Ter)	RP1L1	Likely pathogenic	criteria provided, single submitter
4293440	NM_178857.6(RP1L1):c.667G>T (p.Glu223Ter)	RP1L1	Likely pathogenic	criteria provided, single submitter
4849492	NM_178857.6(RP1L1):c.5533C>T (p.Gln1845Ter)	RP1L1	Likely pathogenic	criteria provided, single submitter
1065636	NM_178857.6(RP1L1):c.4020_4021del (p.Glu1340fs)	RP1L1	Conflicting classifications of pathogenicity	criteria provided, conflicting classifications
1333246	NM_178857.6(RP1L1):c.330dup (p.Lys111fs)	RP1L1	Conflicting classifications of pathogenicity	criteria provided, conflicting classifications
1472530	NM_178857.6(RP1L1):c.622C>T (p.Gln208Ter)	RP1L1	Conflicting classifications of pathogenicity	criteria provided, conflicting classifications
1679211	NM_178857.6(RP1L1):c.403C>T (p.Gln135Ter)	RP1L1	Conflicting classifications of pathogenicity	criteria provided, conflicting classifications
283503	NM_178857.6(RP1L1):c.3200G>C (p.Gly1067Ala)	RP1L1	Conflicting classifications of pathogenicity	criteria provided, conflicting classifications
3155809	NM_178857.6(RP1L1):c.2011C>T (p.Arg671Cys)	RP1L1	Conflicting classifications of pathogenicity	criteria provided, conflicting classifications
361227	NM_178857.6(RP1L1):c.6322G>A (p.Gly2108Arg)	RP1L1	Conflicting classifications of pathogenicity	criteria provided, conflicting classifications
361237	NM_178857.6(RP1L1):c.5821C>T (p.Gln1941Ter)	RP1L1	Conflicting classifications of pathogenicity	criteria provided, conflicting classifications
361297	NM_178857.6(RP1L1):c.3971A>G (p.Glu1324Gly)	RP1L1	Conflicting classifications of pathogenicity	criteria provided, conflicting classifications
424192	NM_178857.6(RP1L1):c.5132G>C (p.Gly1711Ala)	RP1L1	Conflicting classifications of pathogenicity	criteria provided, conflicting classifications
425431	NM_178857.6(RP1L1):c.5959C>T (p.Gln1987Ter)	RP1L1	Conflicting classifications of pathogenicity	criteria provided, conflicting classifications
493468	NM_178857.6(RP1L1):c.6118G>T (p.Glu2040Ter)	RP1L1	Conflicting classifications of pathogenicity	criteria provided, conflicting classifications

Genes & proteins

Mendelian disease overlap and somatic drivers

GenCC: 11 · Orphanet: 2 · OMIM-shared: 0 · Dual-evidence (GWAS+Mendelian): 0

GenCC gene–disease validity (cohort genes)

the Disease column is the GenCC-asserted condition — a cohort gene’s strongest validity may be for a related predisposition syndrome.

Gene	Classification	Inheritance	Disease	Records
RP1L1	Definitive	Autosomal recessive	retinitis pigmentosa	11

Orphanet rare-disease linkage (cohort genes)

Gene	Orphanet ID	Rare disease
RP1L1	Orphanet:247834	Occult macular dystrophy
RP1L1	Orphanet:791	Retinitis pigmentosa

Cohort genes → proteins

1 cohort genes, 1 distinct canonical proteins.

Evidence partition

Subset	Genes
multi_evidence	1

Cohort genes (full)

Symbol	HGNC	Ensembl	UniProt	Name	Evidence
RP1L1	HGNC:15946	ENSG00000183638	Q8IWN7	Retinitis pigmentosa 1-like 1 protein	gencc,clinvar

Cohort function summary

Lead sentence per gene, UniProt-curated.

Symbol	Protein name	Function (lead sentence)
RP1L1	Retinitis pigmentosa 1-like 1 protein	Required for the differentiation of photoreceptor cells.

Protein-family classification

Druggable: 0 · Difficult: 0 · Unknown: 1 · Druggable fraction: 0.0

Family distribution

Cohort families vs a genome-wide background (hypergeometric, BH-FDR; fold = observed/expected). Counts kept; sorted by enrichment, so the catch-all Other/Unknown bucket no longer leads.

Family	Genes	Fold	FDR
Other/Unknown	1	1.8×	0.558

Per-gene assignment

Symbol	Family	Druggable?	EC	InterPro (top 3)
RP1L1	Other/Unknown	no		Doublecortin_dom, Doublecortin_dom_sf

Expression context

Cohort genes with no expression data: 0.

Breadth distribution (Bgee present_calls)

Bucket	Genes
narrow (1-5 tissues)	0
moderate (6-20)	0
broad (>20)	1
unknown	0

Top tissues across cohort

Tissue	Cohort genes
bone marrow cell	1
buccal mucosa cell	1
primordial germ cell in gonad	1

Per-gene tissue summary (top 30)

Symbol	Bgee breadth	FANTOM5 breadth	SCXA	Top tissues
RP1L1	30	tissue_specific	yes	primordial germ cell in gonad, buccal mucosa cell, bone marrow cell

Protein interactions among cohort

Intra-cohort edges: 0.

Hub genes (top 10 by interactor count)

Symbol	Interactor count
RP1L1	1,004

Structural data

PDB: 0 · AlphaFold-only: 1 · No structure: 0

AlphaFold-only cohort genes (top 30 by pLDDT)

Symbol	UniProt	pLDDT
RP1L1	Q8IWN7	38.97

Function

Pathway analysis

Distinct Reactome pathways touched by cohort: 0. Enrichment computed across 1 evidence-associated genes (0 with Reactome annotation).

GO biological processes by enrichment

Over-representation of cohort genes vs the genome-wide background (hypergeometric test, Benjamini-Hochberg FDR; fold = observed/expected over 1 annotated cohort genes). Counts and members are kept as ground-truth; sorted by enrichment.

GO term	Cohort genes	Fold	FDR	Sample cohort genes
photoreceptor cell development	1	4213.0×	0.002	RP1L1
photoreceptor cell outer segment organization	1	1053.2×	0.003	RP1L1
axoneme assembly	1	543.6×	0.004	RP1L1
photoreceptor cell maintenance	1	358.6×	0.005	RP1L1
retina development in camera-type eye	1	255.3×	0.005	RP1L1
visual perception	1	79.5×	0.015	RP1L1
intracellular signal transduction	1	38.1×	0.026	RP1L1

Therapeutics

Drug target analysis

Approved (phase 4): 0 · Phase ≥3: 0 · Phased (≥1): 0 · Undrugged: 1

Druggability breadth: 0 of 1 evidence-associated genes (0%) have a ChEMBL target (buckets above are over the deeply-mined display cohort).

Top cohort targets by molecule count

Symbol	Molecules	Max phase
RP1L1	0	0

Bioactivity and enzyme data

Enzyme cohort genes (≥1 EC): 0.

Pharmacogenomics

Cohort genes with a PharmGKB record: 1; with CPIC/DPWG dosing guidelines: 0.

No cohort gene has a CPIC/DPWG genotype-guided dosing guideline (PharmGKB).

Chemical tractability of cohort targets

0 approved/phased compounds have measured bioactivity against a cohort gene (and aren’t yet in disease-level trials). This is a research / tractability signal, NOT a therapeutic recommendation — a bioactivity row often reflects off-target or screening binding (e.g. promiscuous kinase inhibitors against a cohort kinase), implying no disease mechanism.

Druggability pyramid

Cohort genes binned by druggability tier (high → low):

Tier	Definition	Genes	Symbols
A	Approved (phase 4 drug)	0
B	Phased (≥1) drug, not yet approved	0
C	Druggable family + PDB, no drug	0
D	Druggable family + AlphaFold only, no drug	0
E	Difficult family or no structure, no drug	1	RP1L1

Undrugged target profiles

1 cohort genes are undrugged. Ranked by ‘starting-point quality’ (assay depth + drugged-partner adjacency).

Symbol	ChEMBL assays	Drugged partners (top 3)
RP1L1	0	—

Clinical trials & evidence

Clinical trials

Clinical trials: 0.