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Relevance to Autism

A de novo missense variant in the UNC13A gene (p.Pro814Leu) was identified in a 6-year-old diagnosed with ASD and comorbid ADHD and presenting with developmental delay and a dyskinetic movement disorder in Lipstein et al., 2017. Functional analysis in murine neuronal cultures and C. elegans demonstrated that this variant resulted in a gain-of-function effect characterized by increased fusion propensity of synaptic vesicles, leading to increased initial synaptic vesicle release probability and abnormal short-term synaptic plasticity. Additional de novo variants in this gene, including a mosaic loss-of-function variant and several missense variants, have been reported in ASD probands from the Simons Simplex Collection, the Autism Sequencing Consortium, and the SPARK cohort (De Rubeis et al., 2014; Krupp et al., 2017; Zhou et al., 2022). Genotype-phenotype-functional correlation analysis of an cohort of individuals with monoallelic or biallelic variants in the UNC13A gene in Asadollahi et al., 2025 led the authors to classify three UNC13A neurodevelopmental syndrome subtypes: subtype A was an autosomal recessive disorder caused by biallelic likely gene-disruptive, splice-site, or missense variants that were experimentally shown to result in decreased UNC13A expression, lower synaptic strength, a smaller readily releasable synaptic vesicle pool (RRP), and increased potentiation by synaptic activity and the membrane-permeable diacylglycerol analog Phorbol 12,13-dibutyrate (PDBu) and characterized by profound global developmental delay/intellectual disability, largely controllable epilepsy, and death in early childhood in some cases; subtype B was an autosomal dominant disorder caused by de novo missense variants in the UNC13A hinge that were experimentally shown to result in increased synaptic strength, increased freqeuency of spontaneous activity, and decreased potentiation by synaptic activity and PDBu and characterized by moderate-to-severe global developmental delay/intellectual disability, largely refractory epilepsy, and ataxia and tremor or dyskinetic movements; and subtype C was an autosomal dominant disorder caused by an inherited missense variant that was experimentally shown to result in a block of potentiation by synaptic activity and PDBu and an increased tendency towards synaptic depression during high frequency activity and characterized by mild developmental delay/intellectual disability and controllable epilepsy. Notably, three of the six individuals with the pathogenic gain-of-function Pro814Leu missense variant described in Asadollahi et al., 2025 were reported to have either autism (n=2) or autistic features (n=1).

Molecular Function

Plays a role in vesicle maturation during exocytosis as a target of the diacylglycerol second messenger pathway. Involved in neurotransmitter release by acting in synaptic vesicle priming prior to vesicle fusion and participates in the activity-dependent refilling of readily releasable vesicle pool (RRP). Essential for synaptic vesicle maturation in most excitatory/glutamatergic but not inhibitory/GABA-mediated synapses. Also involved in secretory granule priming in insulin secretion.

External Links

        

References

Type
Title
Type of Disorder
Associated Disorders
Author, Year
Primary
Synaptic UNC13A protein variant causes increased neurotransmission and dyskinetic movement disorder.
ASD, ADHD, DD, dyskinetic movement disorder
Support
Exonic Mosaic Mutations Contribute Risk for Autism Spectrum Disorder.
ASD
Support
Improved diagnostic yield compared with targeted gene sequencing panels suggests a role for whole-genome sequencing as a first-tier genetic test.
DD, epilepsy/seizures, microcephaly
Support
Next-generation phenotyping integrated in a national framework for patients with ultrarare disorders improves genetic diagnostics and yields new molecular findings
DD
Stereotypy
Support
Synaptic, transcriptional and chromatin genes disrupted in autism.
ASD
Support
ASD
DD, ID
Support
Rare complete knockouts in humans: population distribution and significant role in autism spectrum disorders.
ASD
Support
Integrating de novo and inherited variants in 42
ASD
Support
The landscape of somatic mutation in cerebral cortex of autistic and neurotypical individuals revealed by ultra-deep whole-genome sequencing
ASD
Support
Lessons Learned from Large-Scale, First-Tier Clinical Exome Sequencing in a Highly Consanguineous Population.
DD
Recent Recommendation
A multidimensional precision medicine approach identifies an autism subtype characterized by dyslipidemia
ASD
Recent Recommendation
Pathogenic UNC13A variants cause a neurodevelopmental syndrome by impairing synaptic function
DD, ID, epilepsy/seizures
ASD or autistic features

Rare

Variant ID
Variant Type
Allele Change
Residue Change
Inheritance Pattern
Inheritance Association
Family Type
Author, Year
 GEN869R001 
 missense_variant 
 c.2441C>T 
 p.Pro814Leu 
 De novo 
  
 Simplex 
 GEN869R002 
 missense_variant 
 c.3428C>A 
 p.Ala1143Glu 
 De novo 
  
  
 GEN869R003a 
 splice_site_variant 
 c.4197+7C>T 
  
 Familial 
 Both parents 
 Multiplex 
 GEN869R004a 
 missense_variant 
 c.154G>A 
 p.Glu52Lys 
 Unknown 
  
  
 GEN869R005 
 stop_gained 
 c.4781G>A 
 p.Trp1594Ter 
 De novo 
  
 Simplex 
 GEN869R006 
 missense_variant 
 c.4379C>T 
 p.Ala1460Val 
 De novo 
  
 Unknown 
 GEN869R007 
 inframe_insertion 
 c.1082_1083insAGGAGG 
 p.Arg361_Glu362insGlyGly 
 Unknown 
  
 Unknown 
 GEN869R008 
 splice_region_variant 
 c.4197+7C>T 
  
 Familial 
  
  
 GEN869R009 
 frameshift_variant 
 c.1800del 
 p.Asn600LysfsTer32 
 Familial 
  
  
 GEN869R010 
 missense_variant 
 ENSG00000130477:ENST00000552293:exon20:c.G2425A:p.E809K,ENSG00000130477:ENST00000428389:exon21:c.G26 
  
 De novo 
  
  
 GEN869R011 
 missense_variant 
 c.4484G>A 
 p.Arg1495His 
 De novo 
  
  
 GEN869R012 
 missense_variant 
 c.3409C>T 
 p.Arg1137Cys 
 De novo 
  
  
 GEN869R013 
 synonymous_variant 
 c.1647G>A 
 p.Ser549= 
 De novo 
  
  
 GEN869R014 
 synonymous_variant 
 c.834G>A 
 p.Glu278= 
 De novo 
  
  
 GEN869R015 
 missense_variant 
 c.70G>A 
 p.Val24Met 
 Familial 
 Paternal 
 Simplex 
 GEN869R016a 
 splice_site_variant 
 c.4811+2_4811+3del 
  
 Unknown 
  
  
 GEN869R016b 
 missense_variant 
 c.4787C>G 
 p.Pro1596Arg 
 Unknown 
  
  
 GEN869R017a 
 missense_variant 
 c.154G>A 
 p.Glu52Lys 
 Familial 
 Both parents 
 Simplex 
 GEN869R018a 
 frameshift_variant 
 c.338_339insAAAGGACC 
 p.Thr117ArgfsTer18 
 Familial 
 Maternal 
 Simplex 
 GEN869R018b 
 missense_variant 
 c.605G>A 
 p.Arg202His 
 De novo 
  
 Simplex 
 GEN869R019a 
 splice_region_variant 
 c.523+6T>C 
 p.Asp132ValfsTer6 
 Familial 
 Both parents 
 Simplex 
 GEN869R020a 
 missense_variant 
 c.604C>T 
 p.Arg202Cys 
 Familial 
 Both parents 
 Extended multiplex 
 GEN869R021a 
 splice_site_variant 
 c.767+1G>T 
 p.? 
 Familial 
 Paternal 
 Simplex 
 GEN869R021b 
 splice_site_variant 
 c.4073+1G>A 
 p.? 
 Familial 
 Maternal 
 Simplex 
 GEN869R022 
 missense_variant 
 c.1760_1761delinsTT 
 p.Cys587Phe 
 Familial 
 Paternal 
 Extended multiplex 
 GEN869R023a 
 splice_site_variant 
 c.2186+5G>A 
 p.Ala607GlyfsTer16 
 Familial 
 Both parents 
 Simplex 
 GEN869R024 
 missense_variant 
 c.2422G>T 
 p.Gly808Cys 
 De novo 
  
 Simplex 
 GEN869R025 
 missense_variant 
 c.2423G>A 
 p.Gly808Asp 
 De novo 
  
 Simplex 
 GEN869R026 
 missense_variant 
 c.2423G>A 
 p.Gly808Asp 
 De novo 
  
 Simplex 
 GEN869R027 
 missense_variant 
 c.2423G>A 
 p.Gly808Asp 
 De novo 
  
 Simplex 
 GEN869R028 
 missense_variant 
 c.2423G>A 
 p.Gly808Asp 
 De novo 
  
 Simplex 
 GEN869R029 
 missense_variant 
 c.2423G>T 
 p.Gly808Val 
 De novo 
  
 Simplex 
 GEN869R030 
 missense_variant 
 c.2431A>G 
 p.Lys811Glu 
 De novo 
  
 Simplex 
 GEN869R031 
 missense_variant 
 c.2441C>T 
 p.Pro814Leu 
 De novo 
  
 Simplex 
 GEN869R032 
 missense_variant 
 c.2441C>T 
 p.Pro814Leu 
 De novo 
  
 Simplex 
 GEN869R033 
 missense_variant 
 c.2441C>T 
 p.Pro814Leu 
 De novo 
  
 Simplex 
 GEN869R034 
 missense_variant 
 c.2441C>T 
 p.Pro814Leu 
 De novo 
  
 Simplex 
 GEN869R035 
 missense_variant 
 c.2441C>T 
 p.Pro814Leu 
 De novo 
  
 Simplex 
 GEN869R036 
 missense_variant 
 c.2441C>T 
 p.Pro814Leu 
 De novo 
  
 Simplex 
 GEN869R037a 
 splice_site_variant 
 c.52+1G>A 
 p.Val8_Gln17del 
 Unknown 
  
  
 GEN869R037b 
 missense_variant 
 c.65C>T 
 p.Thr22Met 
 Unknown 
  
  
 GEN869R038 
 missense_variant 
 c.350C>T 
 p.Thr117Ile 
 De novo 
  
 Multiplex 
 GEN869R039a 
 missense_variant 
 c.473C>T 
 p.Ser158Leu 
 Familial 
 Paternal 
  
 GEN869R039b 
 missense_variant 
 c.1402G>A 
 p.Glu468Lys 
 Familial 
 Maternal 
  
 GEN869R040a 
 missense_variant 
 c.547G>A 
 p.Gly183Ser 
 Unknown 
  
  
 GEN869R040b 
 missense_variant 
 c.2515G>A 
 p.Val839Met 
 Unknown 
  
  
 GEN869R041a 
 missense_variant 
 c.1450G>A 
 p.Gly484Ser 
 Familial 
 Maternal 
  
 GEN869R041b 
 missense_variant 
 c.4484G>A 
 p.Arg1495His 
 Familial 
 Paternal 
  
 GEN869R042a 
 missense_variant 
 c.2141C>T 
 p.Thr714Ile 
 Familial 
 Both parents 
 Multiplex 
 GEN869R043 
 missense_variant 
 c.2242G>A 
 p.Asp748Asn 
 De novo 
  
  
 GEN869R044 
 missense_variant 
 c.2317C>T 
 p.Arg773Trp 
 Familial 
 Paternal 
 Multi-generational 
 GEN869R045 
 missense_variant 
 c.2328C>A 
 p.Ser776Arg 
 De novo 
  
  
 GEN869R046 
 missense_variant 
 c.2338G>A 
 p.Asp780Asn 
 Unknown 
  
 Multiplex 
 GEN869R047 
 missense_variant 
 c.2786G>A 
 p.Gly929Glu 
 De novo 
  
  
 GEN869R048 
 missense_variant 
 c.2831T>C 
 p.Leu944Pro 
 De novo 
  
  
 GEN869R049 
 missense_variant 
 c.3025G>A 
 p.Glu1009Lys 
 De novo 
  
  
 GEN869R050 
 missense_variant 
 c.3249C>G 
 p.Ser1083Arg 
 De novo 
  
  
 GEN869R051a 
 missense_variant 
 c.3250G>A 
 p.Ala1084Thr 
 Unknown 
  
  
 GEN869R051b 
 inframe_indel 
 c.5102_5109delinsTA 
 p.Pro1701_Pro1703delinsLeu 
 Unknown 
  
  
 GEN869R052 
 missense_variant 
 c.3401T>C 
 p.Phe1134Ser 
 De novo 
  
  
 GEN869R053a 
 missense_variant 
 c.3728A>G 
 p.Tyr1243Cys 
 Familial 
 Both parents 
  
 GEN869R054a 
 missense_variant 
 c.4004G>T 
 p.Ser1335Ile 
 Familial 
 Both parents 
 Multiplex 
 GEN869R055 
 missense_variant 
 c.4046A>C 
 p.Gln1349Pro 
 De novo 
  
  
 GEN869R056a 
 missense_variant 
 c.4787C>G 
 p.Pro1596Arg 
 Familial 
 Maternal 
  
 GEN869R056b 
 splice_site_variant 
 c.4811+2_4811+3del 
 p.? 
 De novo 
  
  
 GEN869R057 
 missense_variant 
 c.164G>A 
 p.Arg55His 
 De novo 
  
  
 GEN869R058a 
 missense_variant 
 c.739G>A 
 p.Glu247Lys 
 Familial 
 Both parents 
  
 GEN869R059a 
 missense_variant 
 c.739G>A 
 p.Glu247Lys 
 Unknown 
  
  
 GEN869R060 
 missense_variant 
 c.805C>G 
 p.Leu269Val 
 De novo 
  
  
 GEN869R061a 
 missense_variant 
 c.2396G>A 
 p.Arg799Gln 
 Unknown 
  
  
 GEN869R062 
 missense_variant 
 c.3038A>G 
 p.Asn1013Ser 
 De novo 
  
  
 GEN869R063 
 missense_variant 
 c.4379C>T 
 p.Ala1460Val 
 De novo 
  
  
 GEN869R064 
 missense_variant 
 c.4829C>T 
 p.Ala1610Val 
 Unknown 
  
  

Common

No Common Variants Available
Chromosome
CNV Locus
CNV Type
# of studies
Animal Model
19
Deletion-Duplication
 18
 
19
Duplication
 1
 
19
Duplication
 1
 
19
Duplication
 1
 
19
Duplication
 1
 
19
Duplication
 3
 

No Animal Model Data Available

No PIN Data Available
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