ABCA4 p.Arg409del
c.1224_1226del · VCV4900603
Uncertain significance
Single submitter
Classification
Uncertain significance
ClinVar
Review
Single submitter ★☆☆☆
ClinVar · 1 submitter
gnomAD v4.1
Rare
Computational evidence
| Protein change | ||
| Missense predictors do not apply to this variant type; conservation carries the signal. | ||
| Splicing | ||
| SpliceAI | — | not assessed · substitutions only |
|---|---|---|
| Constraint at this position | ||
| Conservation | phyloP 0.56 | GERP -3.9, phastCons 0.98 |
Variant & gene context
- Gene
- ABCA4
- Protein
- p.Arg409del
- Coding
- c.1224_1226del
- MANE Select
- NM_000350
- Type
- Deletion
- Location
- chr1:94079335 (GRCh38)
- Gene constraint
- LOEUF 0.786 · pLI <0.01 (gnomAD)
- Structure
- AlphaFold pLDDT 75.96 · 8 PDB
- Residue 409
- a UniProt-annotated variant site (in cord3; uncertain significance); a UniProt-annotated variant site (in stgd1; uncertain significance); a UniProt-annotated variant site (found in a patient with chorioretinal atrophy; uncertain significance); an α-helix; a disulfide bond
Similar variants
- ABCA4 p.Arg409fs Pathogenic ★★ same residue
- ABCA4 p.Arg409Ser Uncertain significance ★ ⚠ same residue
- ABCA4 p.Ala960fs Pathogenic ★★★ same type
- ABCA4 p.Asp279fs Pathogenic ★★★ same type
- ABCA4 p.Gly1972_Val1973insTer Pathogenic ★★★ same type
- ABCA4 p.Gly963fs Pathogenic ★★★ same type
- ABCA4 p.Leu1741fs Pathogenic ★★★ same type
- ABCA4 p.Leu296fs Pathogenic ★★★ same type
Built on 18 open, versioned datasets — ClinVar, gnomAD, AlphaMissense, REVEL, ClinGen & more — plus Sugi Variant's own cross-source analysis. Source data 2026-01–2026-10, ClinVar 2026-10. Full sources & versions →
Cite Sugi Variant
Gür T. Sugi Variant: A Deterministic Per-Variant Germline Reference from a Knowledge Graph for Humans and AI Agents. 2026. doi:10.5281/zenodo.21509445. This variant: https://sugi.bio/variant/abca4-p-arg409del (accessed [today's date]).
Preprint & method: sugi.bio/variant/method Machine-readable: this page as Markdown