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Relevance to Autism

A de novo deletion involving the GPHN gene was identified in an ASD case from a simplex family (Prasad et al., 2012). Screening of 8775 cases with ASD, schizophrenia, or epilepsy and 27,019 controls for GPHN deletions determined that experimentally validated deletions in GPHN were significantly greater in cases than in controls (6/8,775 vs. 3/27,019; Fisher's exact two-sided P=0.009); three of the cases with GPHN deletions in this study were diagnosed with ASD (Lionel et al., 2013).

Molecular Function

This gene encodes a neuronal assembly protein that anchors inhibitory neurotransmitter receptors to the postsynaptic cytoskeleton via high affinity binding to a receptor subunit domain and tubulin dimers. In nonneuronal tissues, the encoded protein is also required for molybdenum cofactor biosynthesis. Mutations in this gene may be associated with the neurological condition hyperplexia and also lead to molybdenum cofactor deficiency.

External Links

        

References

Type
Title
Type of Disorder
Associated Disorders
Author, Year
Primary
A discovery resource of rare copy number variations in individuals with autism spectrum disorder.
ASD
Support
Simultaneous impairment of neuronal and metabolic function of mutated gephyrin in a patient with epileptic encephalopathy.
ID, epilepsy/seizures
Support
Identification of risk genes for autism spectrum disorder through copy number variation analysis in Austrian families.
ASD
Support
Prospective diagnostic analysis of copy number variants using SNP microarrays in individuals with autism spectrum disorders.
ASD
ID
Support
Genome-wide rare variant score associates with morphological subtypes of autism spectrum disorder
ASD
Support
Rare exonic deletions implicate the synaptic organizer Gephyrin (GPHN) in risk for autism, schizophrenia and seizures.
ASD, SCZ
ID
Support
Integrating de novo and inherited variants in 42
ASD
Support
Identification of genetic causes of congenital neurodevelopmental disorders using genome wide molecular technologies.
DD, epilepsy/seizures
Support
Forebrain-specific loss of synaptic GABAA receptors results in altered neuronal excitability and synaptic plasticity in mice.
Recent Recommendation
Exonic microdeletions of the gephyrin gene impair GABAergic synaptic inhibition in patients with idiopathic generalized epilepsy.
Epilepsy

Rare

Variant ID
Variant Type
Allele Change
Residue Change
Inheritance Pattern
Inheritance Association
Family Type
Author, Year
 GEN505R001 
 copy_number_loss 
  
  
 De novo 
  
 Simplex 
 GEN505R002 
 copy_number_loss 
  
  
 De novo 
  
 Simplex 
 GEN505R003 
 copy_number_loss 
  
  
 Familial 
 Paternal 
 Simplex 
 GEN505R004 
 copy_number_loss 
  
  
 De novo 
  
 Simplex 
 GEN505R005 
 copy_number_loss 
  
  
 Unknown 
  
 Simplex 
 GEN505R006 
 copy_number_loss 
  
  
 De novo 
  
 Simplex 
 GEN505R007 
 copy_number_loss 
  
  
 Familial 
 Maternal 
 Multi-generational 
 GEN505R008 
 copy_number_loss 
  
  
 Familial 
 Paternal 
 Unknown 
 GEN505R009 
 copy_number_loss 
  
  
 Familial 
 Paternal 
 Simplex 
 GEN505R010 
 copy_number_loss 
  
  
 Familial 
 Paternal 
 Multi-generational 
 GEN505R011 
 copy_number_loss 
  
  
 De novo 
  
  
 GEN505R012 
 missense_variant 
 c.1124G>A 
 p.Gly375Asp 
 De novo 
  
 Simplex 
 GEN505R013 
 copy_number_gain 
  
  
 Unknown 
  
  
 GEN505R014 
 missense_variant 
 c.100C>T 
 p.Arg34Cys 
 De novo 
  
  
 GEN505R015 
 missense_variant 
 c.752G>A 
 p.Arg251His 
 De novo 
  
  
 GEN505R016 
 missense_variant 
 c.1484A>G 
 p.Glu495Gly 
 De novo 
  
 Simplex 
 GEN505R017 
 missense_variant 
 c.1685A>G 
 p.Glu562Gly 
 De novo 
  
  
 GEN505R018 
 frameshift_variant 
 c.1620del 
 p.Asn541MetfsTer4 
 Unknown 
  
  

Common

No Common Variants Available
Chromosome
CNV Locus
CNV Type
# of studies
Animal Model
14
Deletion
 1
 
14
Deletion-Duplication
 19
 
14
Duplication
 2
 

No Animal Model Data Available


Interactor Symbol Interactor Name Interactor Organism Entrez ID Uniprot ID Interaction Type Evidence Reference
ACADVL acyl-CoA dehydrogenase, very long chain 37 P49748 Y2H
Wang J , et al. 2011
ARHGEF9 Cdc42 guanine nucleotide exchange factor (GEF) 9 23229 O43307 IP/WB; Y2H
Kins S , et al. 1999
ARHGEF9 Cdc42 guanine nucleotide exchange factor (GEF) 9 23229 O43307 Y2H
Um JW , et al. 2016
BRCC3 BRCA1/BRCA2-containing complex, subunit 3 79184 P46736 AP-MS; Y2H
Kristensen AR , et al. 2012
FMR1 fragile X mental retardation 1 2332 G8JLE9 PAR-CLIP
Ascano M Jr , et al. 2012
GABRA3 gamma-aminobutyric acid (GABA) A receptor, alpha 3 2556 P34903 in vitro binding assay; Surface plasmon resonance (SPR)
Dejanovic B , et al. 2015
GLRB glycine receptor, beta 2743 P48167 ITC
Dejanovic B , et al. 2015
GLRB glycine receptor, beta 2743 P48167 IP/WB
Meyer G , et al. 1995
GPHN gephyrin 10243 Q9NQX3 Y2H
Wang J , et al. 2011
GPHN gephyrin 10243 Q9NQX3 Size-exclusion chromatography (SEC); IP/WB
Dejanovic B , et al. 2015
GRIP1 glutamate receptor interacting protein 1 23426 Q9Y3R0 IP/WB; GST
Yu W , et al. 2008
IQSEC2 IQ motif and Sec7 domain 2 23096 Q5JU85 Y2H; IP/WB
Um JW , et al. 2016
IQSEC3 IQ motif and Sec7 domain 3 440073 Q9UPP2 Y2H; IP/WB; Co-localization; in vitro binding assay
Um JW , et al. 2016
KHDRBS1 KH domain containing, RNA binding, signal transduction associated 1 10657 Q07666 Y2H
Wang J , et al. 2011
KLKB1 Plasma kallikrein 3818 P03952 IP; LC-MS/MS
Huttlin EL , et al. 2015
KMO Kynurenine 3-monooxygenase 8564 O15229-2 IP; LC-MS/MS
Huttlin EL , et al. 2015
LGALS3BP lectin, galactoside-binding, soluble, 3 binding protein 3959 Q08380 IP; LC-MS/MS
Huttlin EL , et al. 2015
MTA2 metastasis associated 1 family, member 2 9219 O94776 AP-MS; Y2H
Kristensen AR , et al. 2012
MTOR mechanistic target of rapamycin (serine/threonine kinase) 2475 P42345 IP/WB; Y2H
Sabatini DM , et al. 1999
MTOR mechanistic target of rapamycin (serine/threonine kinase) 2475 P42345 IP/WB
Machado CO , et al. 2015
MTOR mechanistic target of rapamycin (serine/threonine kinase) 2475 P42345 Y2H
Um JW , et al. 2016
ODF3L2 outer dense fiber of sperm tails 3-like 2 284451 Q3SX64 IP; LC-MS/MS
Huttlin EL , et al. 2015
OTUD4 OTU domain containing 4 54726 Q01804 LC-MS/MS
Sowa ME , et al. 2009
PAAF1 proteasomal ATPase-associated factor 1 80227 Q9BRP4 AP-MS; Y2H
Kristensen AR , et al. 2012
PCK1 phosphoenolpyruvate carboxykinase 1 (soluble) 5105 P35558 Affinity Capture-MS
Jiang W , et al. 2011
PFN1 profilin 1 5216 P07737 GST; IP/WB
Mammoto A , et al. 1998
PIN1 peptidylprolyl cis/trans isomerase, NIMA-interacting 1 5300 Q13526 IP/WB; GST
Zita MM , et al. 2007
PPP4R1 protein phosphatase 4, regulatory subunit 1 9989 Q8TF05 AP-MS; Y2H
Kristensen AR , et al. 2012
PRPF4 PRP4 pre-mRNA processing factor 4 homolog (yeast) 9128 O43172 LC-MS/MS
Sowa ME , et al. 2009
PRPF4 PRP4 pre-mRNA processing factor 4 homolog (yeast) 9128 O43172 IP; LC-MS/MS
Huttlin EL , et al. 2015
ROCK2 Rho-associated, coiled-coil containing protein kinase 2 9475 O75116 AP-MS; Y2H
Kristensen AR , et al. 2012
SPATS1 spermatogenesis associated, serine-rich 1 221409 Q496A3 Y2H
Wang J , et al. 2011
SPTAN1 spectrin, alpha, non-erythrocytic 1 (alpha-fodrin) 6709 Q13813 AP-MS; Y2H
Kristensen AR , et al. 2012
SRGAP2 SLIT-ROBO Rho GTPase activating protein 2 23380 O75044 IP/WB; Co-localization
Fossati M , et al. 2016
STS steroid sulfatase (microsomal), isozyme S 412 P08842 IP; LC-MS/MS
Huttlin EL , et al. 2015
TSSK1B Testis-specific serine/threonine-protein kinase 1 83942 Q9BXA7 IP; LC-MS/MS
Huttlin EL , et al. 2015
UBC ubiquitin C 7316 P63279 LC-MS/MS
Danielsen JM , et al. 2010
Rbfox1 RNA binding protein, fox-1 homolog (C. elegans) 1 268859 Q9JJ43 HITS-CLIP
Weyn-Vanhentenryck SM , et al. 2014
DYNLL1 dynein light chain LC8-type 1 58945 P63170 IP/WB; Y2H; GST
Fuhrmann JC , et al. 2002
DYNLL2 dynein light chain LC8-type 2 140734 Q78P75 IP/WB; Y2H; GST
Fuhrmann JC , et al. 2002
ENAH enabled homolog (Drosophila) 360891 Q5XHX3 IP/WB
Giesemann T , et al. 2003
GABARAP GABA(A) receptor-associated protein 58974 P60517 IP/WB; Y2H
Kneussel M , et al. 2000
Gabrg2 gamma-aminobutyric acid (GABA) A receptor, gamma 2 29709 P18508 IP/WB
Wang CY , et al. 2015
GAP43 growth associated protein 43 29423 P07936 IP; LC-MS/MS; Co-localization; IP/WB
Wang CY , et al. 2015
TUBA1A tubulin, alpha 1A 64158 P68370 IP/WB
Kirsch J , et al. 1991

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