Summary Statistics:
ASD Reports: 18
Recent Reports: 1
Annotated variants: 46
Associated CNVs: 10
Evidence score: 4
Gene Score: 4S
Relevance to Autism
A de novo deletion encompassing the ARHGEF9 gene was identified in a male patient presenting with mild-to-moderate autism, severe intellectual disability, and epilepsy; iPSC-derived neural progenitor cells from this patient showed a complete loss of CB expression and hyperactivation of mTORC1 signaling under basal conditions (Machado et al., 2016). A second de novo deletion involving the ARHGEF9 gene was identified in an 8-year-old female patient diagnosed with ASD and ADHD and presenting with mild intellectual disability, global developmental delay, and severe speech impairment (Bhat et al., 2016). A phenotypic review of 18 patients with ARHGEF9 variants (10 previously published, 8 novel; 13 males, 5 females with highly skewed X-chromosome inactivation) demonstrated that the majority of patients presented with intellectual disability, epilepsy, and dysmorphic facial features; 4 of the 18 patients described in this report presented with autistic features (Alber et al., 2017).
Molecular Function
The protein encoded by this gene is a Rho-like GTPase that acts as a guanine nucleotide exchange factor (GEF) for CDC42 and other genes and promotes the formation of GPHN clusters. Variants in this gene are associated with a form of early infantile epileptic encephalopathy (EIEE8, OMIM 300607).
References
Primary
Collybistin binds and inhibits mTORC1 signaling: a potential novel mechanism contributing to intellectual disability and autism.
ASD, ID, epilepsy/seizures
Support
Using medical exome sequencing to identify the causes of neurodevelopmental disorders: experience of two clinical units and 216 patients.
ID
Macrocephaly
Support
Prevalence and phenotypic impact of rare potentially damaging variants in autism spectrum disorder
ASD
Support
Developmental and epileptic encephalopathy 8, DD
Support
Xq11.1-11.2 deletion involving ARHGEF9 in a girl with autism spectrum disorder.
ASD, ADHD, ID, DD
Support
A recurrent PJA1 variant in trigonocephaly and neurodevelopmental disorders
DD, epilepsy/seizures
Support
Integrating de novo and inherited variants in 42
ASD
Support
Missense Mutation R338W in ARHGEF9 in a Family with X-linked Intellectual Disability with Variable Macrocephaly and Macro-Orchidism.
ID
Support
Increased diagnostic and new genes identification outcome using research reanalysis of singleton exome sequencing.
Epilepsy/seizures
Support
ARHGEF9 gene variant leads to developmental and epileptic encephalopathy: Genotypic phenotype analysis and treatment exploration
DD, epilepsy/seizures
Support
The GDP-GTP exchange factor collybistin: an essential determinant of neuronal gephyrin clustering.
Epilepsy/seizures
Hyperekplexia
Support
Neurological Diseases With Autism Spectrum Disorder: Role of ASD Risk Genes.
ASD
ID, epilepsy/seizures
Support
Human ARHGEF9 intellectual disability syndrome is phenocopied by a mutation that disrupts collybistin binding to the GABA A receptor α2 subunit
ASD, DD, ID, epilepsy/seizures
ADHD
Support
Autism spectrum disorder in females with ARHGEF9 alterations and a random pattern of X chromosome inactivation.
ASD, DD/ID
Support
A novel de novo hemizygous ARHGEF9 mutation associated with severe intellectual disability and epilepsy: a case report
DD, ID, epilepsy/seizures
Support
ARHGEF9 mutations in epileptic encephalopathy/intellectual disability: toward understanding the mechanism underlying phenotypic variation.
ID, epilepsy/seizures
Support
Autism spectrum disorder and comorbid neurodevelopmental disorders (ASD-NDDs): Clinical and genetic profile of a pediatric cohort
ASD
Epilepsy/seizures
Recent Recommendation
ARHGEF9 disease: Phenotype clarification and genotype-phenotype correlation.
ID, epilepsy/seizures
Autistic features
GEN715R001
copy_number_loss
De novo
Simplex
GEN715R002
missense_variant
c.164G>C
p.Gly55Ala
De novo
GEN715R003
missense_variant
c.1012C>T
p.Arg338Trp
Familial
Maternal
Multi-generational
GEN715R004
copy_number_loss
De novo
GEN715R005
translocation
De novo
GEN715R006
translocation
De novo
GEN715R007
copy_number_loss
De novo
GEN715R008
copy_number_loss
De novo
GEN715R009
inversion
De novo
GEN715R010
copy_number_loss
De novo
GEN715R011
copy_number_loss
De novo
GEN715R012
stop_gained
c.4C>T
p.Gln2Ter
Familial
Maternal
GEN715R013
missense_variant
c.950C>G
p.Ser317Trp
Familial
Maternal
Multiplex
GEN715R014
missense_variant
c.530T>C
p.Leu177Pro
De novo
GEN715R015
missense_variant
c.311G>A
p.Arg104Gln
De novo
GEN715R016
missense_variant
c.869G>A
p.Arg290His
De novo
Multiplex
GEN715R017
missense_variant
c.1198G>A
p.Glu400Lys
De novo
GEN715R018
splice_site_variant
c.1141+2T>C
De novo
GEN715R019
missense_variant
c.1067G>A
p.Arg356Gln
Familial
Maternal
GEN715R020
stop_gained
c.865C>T
p.Arg289Ter
Familial
Paternal
GEN715R021
missense_variant
c.868C>T
p.Arg290Cys
Familial
Maternal
Multiplex
GEN715R022
copy_number_loss
De novo
GEN715R023
copy_number_loss
De novo
GEN715R024
stop_gained
c.417G>A
p.Met139Ile
Familial
Maternal
GEN715R025
stop_gained
c.510T>A
p.Tyr170Ter
Familial
Maternal
GEN715R026
missense_variant
c.950C>T
p.Ser317Leu
Familial
Maternal
GEN715R027
inframe_insertion
c.882_883insATT
p.Thr294_Gln295insIle
Familial
Maternal
Simplex
GEN715R028
stop_gained
c.940C>T
p.Gln314Ter
Unknown
GEN715R029
frameshift_variant
c.477_490del
p.Met159IlefsTer6
De novo
Simplex
GEN715R030
stop_gained
c.417G>A
p.Gln139%3D
Familial
Maternal
GEN715R031
stop_gained
c.510T>A
p.Tyr170Ter
Familial
Maternal
GEN715R032
stop_gained
c.194G>A
p.Trp65Ter
De novo
GEN715R033
frameshift_variant
c.1105del
p.Glu369LysfsTer26
De novo
GEN715R034
missense_variant
c.1094G>A
p.Arg365His
Familial
Maternal
GEN715R035
missense_variant
c.1162A>G
p.Met388Val
Familial
Maternal
GEN715R036
missense_variant
c.639C>G
p.Asn213Lys
Familial
Maternal
GEN715R037
missense_variant
c.188G>A
p.Arg63Lys
De novo
GEN715R038
missense_variant
c.1094G>A
p.Arg365His
De novo
GEN715R039
splice_site_variant
c.925-1G>T
De novo
GEN715R040
missense_variant
c.311G>A
p.Arg104Gln
De novo
GEN715R041
stop_gained
c.138G>A
p.Trp46Ter
De novo
GEN715R042
missense_variant
c.924G>T
p.Glu308Asp
De novo
GEN715R043
stop_gained
c.741C>A
p.Cys247Ter
De novo
GEN715R044
stop_gained
c.682C>T
p.Gln228Ter
De novo
Simplex
GEN715R045
splice_site_variant
c.1370-2A>G
De novo
GEN715R046
missense_variant
c.347G>A
p.Arg116His
Familial
Maternal
Simplex
No Common Variants Available
X
Deletion-Duplication
21
No Animal Model Data Available
Summary Statistics:
Total Interactions: 3
Total Publications: 3
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