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Relevance to Autism

A de novo splice-site variant in the PLXNA3 gene was identified in an ASD proband from the Simons Simplex Collection in Krumm et al., 2015. targeted sequencing of 536 Chinese ASD probands and 1457 Chinese controls in Guo et al., 2017 identified three rare deleterious variants in PLXNA3 in Chinese ASD probands; subsequent Transmission and De Novo Association (TADA) analysis of a combined cohort of Chinese ASD probands and controls, as well as ASD probands and controls from the Simons Simplex Collection and the Autism Sequencing Consortium, identified PLXNA3 as an ASD candidate gene with a PTADA of 0.006567. Steele et al., 2021 reported 14 males with maternally-inherited hemizygous PLXNA3 variants; all 14 individuals presented with intellectual disability, and 13 of these individuals also presented with autism spectrum disorder.

Molecular Function

This gene encodes a member of the plexin class of proteins. The encoded protein is a class 3 semaphorin receptor, and may be involved in cytoskeletal remodeling and as well as apoptosis. Studies of a similar gene in zebrafish suggest that it is important for axon pathfinding in the developing nervous system.

External Links

        

References

Type
Title
Type of Disorder
Associated Disorders
Author, Year
Primary
Excess of rare, inherited truncating mutations in autism.
ASD
Support
A recurrent PJA1 variant in trigonocephaly and neurodevelopmental disorders
DD, epilepsy/seizures
Support
Genetic landscape of autism spectrum disorder in Vietnamese children
ASD
Support
Lessons Learned from Large-Scale, First-Tier Clinical Exome Sequencing in a Highly Consanguineous Population.
DD, ID, epilepsy/seizures
Autistic features
Support
Integrating de novo and inherited variants in 42
ASD
Support
Exploring the biological role of postzygotic and germinal de novo mutations in ASD
ASD
Recent Recommendation
Semaphorin-Plexin Signaling: From Axonal Guidance to a New X-Linked Intellectual Disability Syndrome
ASD, ID
ADHD, epilepsy/seizures
Recent Recommendation
Targeted sequencing and functional analysis reveal brain-size-related genes and their networks in autism spectrum disorders.
ASD

Rare

Variant ID
Variant Type
Allele Change
Residue Change
Inheritance Pattern
Inheritance Association
Family Type
Author, Year
 GEN962R001 
 splice_site_variant 
 c.1928+1G>A 
  
 De novo 
  
 Simplex 
 GEN962R002 
 stop_gained 
 c.2497A>T 
 p.Lys833Ter 
 Familial 
  
  
 GEN962R003 
 missense_variant 
 c.1366G>A 
 p.Val456Met 
 Familial 
  
  
 GEN962R004 
 missense_variant 
 c.5051C>T 
 p.Ser1684Leu 
 Familial 
  
  
 GEN962R005 
 missense_variant 
 c.1828G>A 
 p.Gly610Arg 
 Unknown 
  
 Unknown 
 GEN962R006 
 missense_variant 
 c.2454C>T 
 p.Thr818= 
 Unknown 
  
 Multiplex 
 GEN962R007 
 missense_variant 
 c.2113C>T 
 p.Arg705Trp 
 Familial 
 Maternal 
 Simplex 
 GEN962R008 
 missense_variant 
 c.800C>T 
 p.Ala267Val 
 Familial 
 Maternal 
 Simplex 
 GEN962R009 
 splice_region_variant 
 c.3441+4C>G 
  
 De novo 
  
 Simplex 
 GEN962R010 
 missense_variant 
 c.5023A>G 
 p.Thr1675Ala 
 Familial 
 Maternal 
 Simplex 
 GEN962R011 
 missense_variant 
 c.653T>C 
 p.Leu218Ser 
 Familial 
 Maternal 
 Simplex 
 GEN962R012 
 missense_variant 
 c.1143G>C 
 p.Gln381His 
 Familial 
 Maternal 
 Simplex 
 GEN962R013 
 missense_variant 
 c.1400T>A 
 p.Leu467His 
 Familial 
 Maternal 
 Multiplex 
 GEN962R014 
 missense_variant 
 c.2041G>A 
 p.Glu681Lys 
 Familial 
 Maternal 
 Multiplex 
 GEN962R015 
 missense_variant 
 c.2342C>G 
 p.Ala781Gly 
 Familial 
 Maternal 
 Simplex 
 GEN962R016 
 missense_variant 
 c.2363C>T 
 p.Ala788Val 
 Familial 
 Maternal 
 Multiplex 
 GEN962R017 
 missense_variant 
 c.2494C>A 
 p.Gln832Lys 
 Familial 
 Maternal 
 Multiplex 
 GEN962R018 
 missense_variant 
 c.3407T>C 
 p.Leu1136Pro 
 Familial 
 Maternal 
  
 GEN962R019 
 missense_variant 
 c.4250C>T 
 p.Thr1417Ile 
 Familial 
 Maternal 
 Simplex 
 GEN962R020 
 missense_variant 
 c.4601G>A 
 p.Arg1534His 
 Familial 
 Maternal 
 Simplex 
 GEN962R021 
 missense_variant 
 c.4616C>G 
 p.Thr1539Ser 
 Familial 
 Maternal 
 Simplex 
 GEN962R022 
 missense_variant 
 c.5041C>A 
 p.His1681Asn 
 Familial 
 Maternal 
 Simplex 
 GEN962R023 
 splice_site_variant 
 c.5156+1G>T 
 p.? 
 Familial 
 Maternal 
  
 GEN962R024 
 missense_variant 
 c.4970G>A 
 p.Arg1657Gln 
 De novo 
  
  
 GEN962R025 
 missense_variant 
 c.1051C>T 
 p.Arg351Cys 
 De novo 
  
  
 GEN962R026 
 missense_variant 
 c.3640C>T 
 p.Arg1214Trp 
 De novo 
  
  

Common

No Common Variants Available
Chromosome
CNV Locus
CNV Type
# of studies
Animal Model
X
Deletion
 1
 
X
Duplication
 1
 
X
Deletion-Duplication
 21
 
X
Deletion
 2
 
X
Deletion
 1
 
X
Deletion
 1
 
X
Deletion-Duplication
 1
 
X
Deletion
 2
 
X
Deletion-Duplication
 1
 
X
Deletion
 10
 
X
Deletion-Duplication
 78
 

No Animal Model Data Available

 

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