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Relevance to Autism

De novo missense variants in the PLXNA1 gene have been identified in probands diagnosed with ASD (De Rubeis et al., 2014; Satterstrom et al., 2020), epilepsy (Epi4K Consortium 2013), and schizophrenia (Fromer et al., 2014). Park et al., 2017 reported a male patient with a de novo missense variant in the PLXNA1 gene presenting with infantile-onset epilepsy, intellectual disability, autism spectrum disorder, and other syndromic features. Dworschak et al., 2021 assembled ten patients from seven families with biallelic or de novo PLXNA1 variants; global developmental delay (9/10), brain anomalies (6/10), and eye anomalies (7/10) were frequently observed in this cohort, and autism spectrum disorder was reported in 3/7 individuals with biallelic PLXNA1 variants. PLXNA1 was also identified as an ASD candidate gene in Wilfert et al., 2021 based on the discovery of private likely gene-disruptive (LGD) variants in this highly constrained (pLI 0.99) gene that were exclusively transmitted to ASD probands in four independent families.

Molecular Function

Coreceptor for SEMA3A, SEMA3C, SEMA3F and SEMA6D. Necessary for signaling by class 3 semaphorins and subsequent remodeling of the cytoskeleton. Plays a role in axon guidance, invasive growth and cell migration. Class 3 semaphorins bind to a complex composed of a neuropilin and a plexin. The plexin modulates the affinity of the complex for specific semaphorins, and its cytoplasmic domain is required for the activation of down-stream signaling events in the cytoplasm.

External Links

        

References

Type
Title
Type of Disorder
Associated Disorders
Author, Year
Primary
Synaptic, transcriptional and chromatin genes disrupted in autism.
ASD
Support
Integrating de novo and inherited variants in 42
ASD
Support
Mutational Landscape of Autism Spectrum Disorder Brain Tissue
ASD
Support
Large-Scale Exome Sequencing Study Implicates Both Developmental and Functional Changes in the Neurobiology of Autism
ASD
Support
PLXNA1 developmental encephalopathy with syndromic features: A case report and review of the literature
ASD, DD, ID, epilepsy/seizures
Support
De novo mutations in schizophrenia implicate synaptic networks.
SCZ
Support
De novo mutations in epileptic encephalopathies.
Epilepsy/seizures
Recent Recommendation
Biallelic and monoallelic variants in PLXNA1 are implicated in a novel neurodevelopmental disorder with variable cerebral and eye anomalies
DD
ASD
Recent Recommendation
Recent ultra-rare inherited variants implicate new autism candidate risk genes
ASD

Rare

Variant ID
Variant Type
Allele Change
Residue Change
Inheritance Pattern
Inheritance Association
Family Type
Author, Year
 GEN1257R001 
 missense_variant 
 c.2185G>A 
 p.Ala729Thr 
 De novo 
  
  
 GEN1257R002 
 missense_variant 
 c.5086G>A 
 p.Asp1696Asn 
 De novo 
  
  
 GEN1257R003 
 missense_variant 
 c.1262T>C 
 p.Ile421Thr 
 De novo 
  
  
 GEN1257R004 
 missense_variant 
 c.752G>A 
 p.Arg251His 
 De novo 
  
 Simplex 
 GEN1257R005 
 missense_variant 
 c.4201A>T 
 p.Met1401Leu 
 De novo 
  
 Simplex 
 GEN1257R006 
 missense_variant 
 c.3184G>A 
 p.Gly1062Ser 
 De novo 
  
  
 GEN1257R007a 
 missense_variant 
 c.356T>C 
 p.Leu119Pro 
 Familial 
 Paternal 
 Simplex 
 GEN1257R007b 
 missense_variant 
 c.3230G>A 
 p.Arg1077His 
 Familial 
 Maternal 
 Simplex 
 GEN1257R008a 
 stop_gained 
 c.1549C>T 
 p.Gln517Ter 
 Familial 
 Paternal 
 Multiplex 
 GEN1257R008b 
 missense_variant 
 c.2446T>C 
 p.Cys816Arg 
 Familial 
 Maternal 
 Multiplex 
 GEN1257R009a 
 frameshift_variant 
 c.1574_1575del 
 p.Leu525ArgfsTer23 
 Familial 
 Both parents 
 Multiplex 
 GEN1257R010a 
 missense_variant 
 c.2641C>T 
 p.Arg881Trp 
 Familial 
 Both parents 
 Simplex 
 GEN1257R011 
 missense_variant 
 c.3554G>A 
 p.Arg1185Gln 
 De novo 
  
 Simplex 
 GEN1257R012 
 missense_variant 
 c.4483C>T 
 p.Arg1495Trp 
 De novo 
  
 Simplex 
 GEN1257R013 
 missense_variant 
 c.5242C>T 
 p.Arg1748Cys 
 De novo 
  
 Simplex 
 GEN1257R014 
 stop_gained 
 c.2674C>T 
 p.Arg892Ter 
 Familial 
  
 Simplex 
 GEN1257R015 
 frameshift_variant 
 c.1591del 
 p.His531ThrfsTer36 
 Familial 
  
 Simplex 
 GEN1257R016 
 stop_gained 
 c.1138G>T 
 p.Glu380Ter 
 Familial 
  
 Simplex 
 GEN1257R017 
 frameshift_variant 
 c.817_818del 
 p.Ala273ArgfsTer24 
 Familial 
  
 Simplex 
 GEN1257R018 
 missense_variant 
 c.1964A>G 
 p.Asp655Gly 
 Unknown 
  
  
 GEN1257R019 
 synonymous_variant 
 c.2103C>T 
 p.Asn701%3D 
 De novo 
  
  
 GEN1257R020 
 missense_variant 
 c.1213G>A 
 p.Asp405Asn 
 De novo 
  
  
 GEN1257R021 
 missense_variant 
 c.4190T>A 
 p.Leu1397Gln 
 De novo 
  
  
 GEN1257R022 
 missense_variant 
 c.5174A>C 
 p.Gln1725Pro 
 De novo 
  
  

Common

No Common Variants Available
Chromosome
CNV Locus
CNV Type
# of studies
Animal Model
3
Deletion-Duplication
 16
 

No Animal Model Data Available

 

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