RAPGEF5

Chr 7

Rap guanine nucleotide exchange factor 5

Also known as: GFR, MR-GEF, MRGEF, REPAC

RAPGEF5 encodes a guanine nucleotide exchange factor that activates RAP1A, RAP2A, and MRAS by promoting their GTP-bound active states in cellular signaling pathways. Mutations cause autosomal dominant developmental and epileptic encephalopathy with onset in infancy, characterized by seizures, developmental delay, and intellectual disability. The gene is highly constrained against loss-of-function variants (pLI 0.98), indicating intolerance to protein-truncating mutations.

OMIMResearchSummary from RefSeq, UniProt
LOEUF 0.30
Clinical SummaryRAPGEF5
Population Constraint (gnomAD)
Highly constrained gene — heterozygous loss-of-function variants are very rare in the population (pLI 0.98). One damaged copy is likely sufficient to cause disease.

Population Genetics & Constraint

gnomAD v4 — loss-of-function & missense intolerance

LoF intolerant — likely haploinsufficient
LoF Constraint
0.30LOEUF
pLI 0.981
Z-score 5.30
OE 0.17 (0.100.30)
Highly constrained

Highly LoF-intolerant (top ~10% of genes)

Missense Constraint
1.64Z-score
OE missense 0.76 (0.690.84)
276 obs / 363.9 exp
Tolerant

Mild missense constraint

Observed / Expected Ratios
LoF OE0.17 (0.100.30)
00.351.4
Missense OE0.76 (0.690.84)
00.61.4
Synonymous OE0.98
01.21.6
LoF obs/exp: 8 / 47.4Missense obs/exp: 276 / 363.9Syn Z: 0.22

ClinVar Variant Classifications

0 submitted variants in ClinVar

Protein Context — Lollipop Plot

RAPGEF5 · protein map & ClinVar variants

Showing all ClinVar variants across the protein. Search a specific variant to highlight its position.

3D Protein StructureAlphaFold

Clinical Trials

Active and recruiting trials from ClinicalTrials.gov

No active trials found for this gene.

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Clinical Literature
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