HomeAboutRankingsData Sources
Β© 2026 GeneE
🧬
GeneE
10 sources retrieved Β· Most recent: April 2026 Β· Index updated 15 days ago
β“˜GeneE is for informational purposes only. It is not a substitute for professional medical advice, diagnosis, or treatment.
ARFGEF1
ARF guanine nucleotide exchange factor 1
Chromosome 8 Β· 8q13.2
NCBI Gene: 10565Ensembl: ENSG00000066777.10HGNC: HGNC:15772UniProt: Q9Y6D6
88PubMed Papers
21Diseases
0Drugs
66Pathogenic Variants
FUNCTIONAL ROLE
Highly ConstrainedTransporter
RESEARCH IMPACT
Variant-Rich
CLINICAL
OMIM Disease Gene
DATA QUALITY
βœ“ Experimental GO Evidenceβœ“ Swiss-Prot Reviewed
nucleolusGolgi apparatuscytosolprotein kinase A regulatory subunit bindingdevelopmental delay, impaired speech, and behavioral abnormalities, with or without seizuresIntellectual disabilityJoubert syndrome 21Global developmental delay
✦AI Summary

ARFGEF1 (ARF guanine nucleotide exchange factor 1) is a critical regulator of intracellular vesicle trafficking that promotes guanine nucleotide exchange on ARF1 and ARF3, facilitating GDP-to-GTP replacement for protein activation. The protein plays essential roles in neuronal development and function, particularly in maintaining proper inhibitory neurotransmission. ARFGEF1 haploinsufficiency disrupts neuronal endosome composition and significantly decreases membrane surface postsynaptic GABA receptors, leading to impaired neuronal inhibition 1. Loss-of-function variants cause a neurodevelopmental disorder characterized by developmental delay, intellectual disability, behavioral abnormalities, and epilepsy with variable expressivity, transmitted in an autosomal dominant pattern 2. Functional validation studies demonstrate that ARFGEF1 mutations result in seizure-like behavior and decreased inhibitory interneurons in zebrafish models 3. Beyond its neurological roles, ARFGEF1 is involved in cancer progression, where it promotes cell migration and invasion through PI3K/Akt/NF-ΞΊB signaling pathways 4. The protein is regulated by transcription factors like KLF4 and microRNAs including miR-133b, which target ARFGEF1 to suppress tumor progression 5. These findings establish ARFGEF1 as a key player in both neurodevelopment and cellular trafficking processes.

Sources cited
1
ARFGEF1 haploinsufficiency disrupts neuronal endosome composition and decreases membrane surface postsynaptic GABA receptors
PMID: 31678406
2
Loss-of-function variants cause developmental delay, intellectual disability, and epilepsy with autosomal dominant inheritance
PMID: 34113008
3
ARFGEF1 mutations result in seizure-like behavior and decreased inhibitory interneurons in zebrafish models
PMID: 38370728
4
ARFGEF1 promotes cell migration through PI3K/Akt/NF-ΞΊB signaling pathways and is regulated by KLF4
PMID: 35090882
5
miR-133b targets ARFGEF1 to suppress tumor progression in cervical cancer
PMID: 35048795
Disease Associationsβ“˜21
developmental delay, impaired speech, and behavioral abnormalities, with or without seizuresOpen Targets
0.76Strong
Intellectual disabilityOpen Targets
0.65Moderate
Joubert syndrome 21Open Targets
0.55Moderate
Global developmental delayOpen Targets
0.53Moderate
Delayed speech and language developmentOpen Targets
0.53Moderate
Atypical behaviorOpen Targets
0.52Moderate
genetic disorderOpen Targets
0.51Moderate
epilepsyOpen Targets
0.47Moderate
SeizureOpen Targets
0.45Moderate
Neurodevelopmental delayOpen Targets
0.38Weak
joint diseaseOpen Targets
0.32Weak
breast benign neoplasmOpen Targets
0.31Weak
hyperpituitarismOpen Targets
0.30Weak
Neurodevelopmental disorderOpen Targets
0.30Weak
Alzheimer diseaseOpen Targets
0.30Weak
neurodegenerative diseaseOpen Targets
0.30Weak
Delayed ability to walkOpen Targets
0.27Weak
Focal-onset seizureOpen Targets
0.27Weak
renal osteodystrophyOpen Targets
0.25Weak
major depressive disorderOpen Targets
0.24Weak
Developmental delay, impaired speech, and behavioral abnormalities, with or without seizuresUniProt
Pathogenic Variants66
NM_006421.5(ARFGEF1):c.2395C>T (p.Arg799Ter)Pathogenic
Intellectual disability;Global developmental delay;Atypical behavior;Delayed speech and language development|not provided
β˜…β˜…β˜†β˜†2025β†’ Residue 799
NM_006421.5(ARFGEF1):c.4627C>T (p.Arg1543Ter)Pathogenic
Developmental delay, impaired speech, and behavioral abnormalities, with or without seizures|ARFGEF1-related disorder|Inborn genetic diseases
β˜…β˜…β˜†β˜†2025β†’ Residue 1543
NM_006421.5(ARFGEF1):c.3814C>T (p.Arg1272Ter)Pathogenic
Inborn genetic diseases|Developmental delay, impaired speech, and behavioral abnormalities, with or without seizures
β˜…β˜…β˜†β˜†2025β†’ Residue 1272
NM_006421.5(ARFGEF1):c.2392G>A (p.Asp798Asn)Pathogenic
Intellectual disability;Global developmental delay;Atypical behavior;Delayed speech and language development|Developmental delay, impaired speech, and behavioral abnormalities, with or without seizures|not provided
β˜…β˜…β˜†β˜†2025β†’ Residue 798
NM_006421.5(ARFGEF1):c.4033C>T (p.Arg1345Ter)Pathogenic
Intellectual disability;Global developmental delay;Atypical behavior;Delayed speech and language development|not provided
β˜…β˜…β˜†β˜†2024β†’ Residue 1345
NM_006421.5(ARFGEF1):c.4655dup (p.Pro1553fs)Pathogenic
not provided|Developmental delay, impaired speech, and behavioral abnormalities, with or without seizures
β˜…β˜…β˜†β˜†2023β†’ Residue 1553
NM_006421.5(ARFGEF1):c.5320C>T (p.Arg1774Ter)Pathogenic
Intellectual disability;Global developmental delay;Atypical behavior;Delayed speech and language development|Intellectual disability;Global developmental delay;Seizure|Developmental delay, impaired speech, and behavioral abnormalities, with or without seizures|not provided
β˜…β˜…β˜†β˜†2022β†’ Residue 1774
NM_006421.5(ARFGEF1):c.5010_5011insA (p.Tyr1671fs)Pathogenic
Developmental delay, impaired speech, and behavioral abnormalities, with or without seizures
β˜…β˜†β˜†β˜†2026β†’ Residue 1671
NM_006421.5(ARFGEF1):c.3058C>T (p.Gln1020Ter)Likely pathogenic
Developmental delay, impaired speech, and behavioral abnormalities, with or without seizures
β˜…β˜†β˜†β˜†2025β†’ Residue 1020
NM_006421.5(ARFGEF1):c.2406A>C (p.Glu802Asp)Likely pathogenic
Inborn genetic diseases
β˜…β˜†β˜†β˜†2025β†’ Residue 802
NM_006421.5(ARFGEF1):c.4160_4161del (p.Leu1386_Phe1387insTer)Likely pathogenic
Developmental delay, impaired speech, and behavioral abnormalities, with or without seizures
β˜…β˜†β˜†β˜†2025β†’ Residue 1386
NM_006421.5(ARFGEF1):c.3556C>T (p.Arg1186Ter)Pathogenic
Inborn genetic diseases
β˜…β˜†β˜†β˜†2025β†’ Residue 1186
NM_006421.5(ARFGEF1):c.634del (p.Gln212fs)Pathogenic
Inborn genetic diseases
β˜…β˜†β˜†β˜†2025β†’ Residue 212
NM_006421.5(ARFGEF1):c.4244_4245del (p.Tyr1415fs)Pathogenic
not provided
β˜…β˜†β˜†β˜†2025β†’ Residue 1415
NM_006421.5(ARFGEF1):c.1554T>A (p.His518Gln)Likely pathogenic
Developmental delay, impaired speech, and behavioral abnormalities, with or without seizures
β˜…β˜†β˜†β˜†2025β†’ Residue 518
NM_006421.5(ARFGEF1):c.3138+1G>ALikely pathogenic
Developmental delay, impaired speech, and behavioral abnormalities, with or without seizures
β˜…β˜†β˜†β˜†2025
NM_006421.5(ARFGEF1):c.327T>A (p.Tyr109Ter)Pathogenic
Developmental delay, impaired speech, and behavioral abnormalities, with or without seizures
β˜…β˜†β˜†β˜†2025β†’ Residue 109
NM_006421.5(ARFGEF1):c.4126_4127del (p.Arg1376fs)Pathogenic
not provided
β˜…β˜†β˜†β˜†2025β†’ Residue 1376
NM_006421.5(ARFGEF1):c.996_1005del (p.Val333fs)Pathogenic
Developmental delay, impaired speech, and behavioral abnormalities, with or without seizures
β˜…β˜†β˜†β˜†2025β†’ Residue 333
NM_006421.5(ARFGEF1):c.73G>A (p.Val25Met)Likely pathogenic
not provided
β˜…β˜†β˜†β˜†2025β†’ Residue 25
View on ClinVar β†—
Related Genes
ARL1Protein interaction94%MYO9BProtein interaction90%ARFGEF2Protein interaction83%NUP62Protein interaction82%NCLProtein interaction81%UBR5Protein interaction78%
Tissue Expression6 tissues
Bone Marrow
100%
Lung
53%
Heart
51%
Brain
44%
Ovary
39%
Liver
38%
Gene Interaction Network
Click a node to explore
ARFGEF1ARL1MYO9BARFGEF2NUP62NCLUBR5
PROTEIN STRUCTURE
Preparing viewer…
PDB3LTL Β· 2.20 Γ… Β· X-ray
View on RCSB β†—
Constraintβ“˜
LOEUFβ“˜
0.24Highly Constrained
pLIβ“˜
1.00Intolerant
Observed/Expected LoF0.18 [0.14–0.24]
RankingsWhere ARFGEF1 stands among ~20K protein-coding genes
  • #5,400of 20,598
    Most Researched88
  • #1,100of 5,498
    Most Pathogenic Variants66 Β· top quartile
  • #678of 17,882
    Most Constrained (LOEUF)0.24 Β· top 5%
Genes detectedARFGEF1
Sources retrieved10 papers
Response timeβ€”
πŸ“„ Sources
10β–Ό
1
The Novel KLF4/BIG1 Regulates LPS-mediated Neuro-inflammation and Migration in BV2 Cells via PI3K/Akt/NF-kB Signaling Pathway.
PMID: 35090882
Neuroscience Β· 2022
1.00
2
Haploinsufficiency of ARFGEF1 is associated with developmental delay, intellectual disability, and epilepsy with variable expressivity.
PMID: 34113008
Genet Med Β· 2021
0.90
3
Comprehensive analysis of coding variants highlights genetic complexity in developmental and epileptic encephalopathy.
PMID: 31175295
Nat Commun Β· 2019
0.80
4
Zebrafish models of candidate human epilepsy-associated genes provide evidence of hyperexcitability.
PMID: 38370728
bioRxiv Β· 2024
0.70
5
Arfgef1 haploinsufficiency in mice alters neuronal endosome composition and decreases membrane surface postsynaptic GABA
PMID: 31678406
Neurobiol Dis Β· 2020
0.60