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Relevance to Autism

De novo missense variants in the AGAP2 gene have previously been identified in ASD cases (De Rubeis et al., 2014; Iossifov et al., 2014). An additional de novo missense variant in this gene was identified by whole genome sequencing in an ASD proband from a multiplex family as part of the MSSNG initiative in Yuen et al., 2017. Based on the discovery of multiple de novo missense variants in ASD cases, a z-score >2.0 for missense mutations, and a higher-than expected mutation rate (a false discovery rate < 15%), AGAP2 was determined to be an ASD candidate gene in Yuen et al., 2017.

Molecular Function

The protein encoded by this gene belongs to the centaurin gamma-like family. It mediates anti-apoptotic effects of nerve growth factor by activating nuclear phosphoinositide 3-kinase.

External Links

        

References

Type
Title
Type of Disorder
Associated Disorders
Author, Year
Primary
Synaptic, transcriptional and chromatin genes disrupted in autism.
ASD
Support
Inherited and multiple de novo mutations in autism/developmental delay risk genes suggest a multifactorial model.
ASD
Support
The contribution of de novo coding mutations to autism spectrum disorder
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
Recent Recommendation
Whole genome sequencing resource identifies 18 new candidate genes for autism spectrum disorder
ASD

Rare

Variant ID
Variant Type
Allele Change
Residue Change
Inheritance Pattern
Inheritance Association
Family Type
Author, Year
 GEN889R001 
 missense_variant 
 c.2057G>A 
 p.Arg686Gln 
 De novo 
  
  
 GEN889R002 
 missense_variant 
 c.2755A>G 
 p.Ser919Gly 
 De novo 
  
 Simplex 
 GEN889R003a 
 missense_variant 
 c.1214C>T 
 p.Pro405Leu 
 De novo 
  
 Simplex 
 GEN889R003b 
 missense_variant 
 c.901C>G 
 p.Pro301Ala 
 De novo 
  
 Simplex 
 GEN889R004 
 missense_variant 
 c.1394G>A;c.2402G>A 
 p.Arg465Gln;p.Arg801Gln 
 De novo 
  
 Multiplex 
 GEN889R005 
 missense_variant 
 c.1819G>A 
 p.Asp607Asn 
 Familial 
 Paternal 
  
 GEN889R006 
 splice_site_variant 
 c.1401+1G>T 
  
 Unknown 
  
  
 GEN889R007 
 missense_variant 
 c.2506A>G 
 p.Lys836Glu 
 Unknown 
  
  
 GEN889R008 
 missense_variant 
 c.1876G>A 
 p.Glu626Lys 
 Unknown 
  
  
 GEN889R009 
 missense_variant 
 c.1483G>T 
 p.Gly495Trp 
 Unknown 
  
  
 GEN889R010 
 missense_variant 
 c.1432G>A 
 p.Val478Ile 
 Unknown 
  
  
 GEN889R011 
 missense_variant 
 c.2521C>G 
 p.Pro841Ala 
 Unknown 
  
  
 GEN889R012 
 missense_variant 
 c.1414G>A 
 p.Ala472Thr 
 Familial 
 Maternal 
 Simplex 
 GEN889R013 
 missense_variant 
 c.1414G>A 
 p.Ala472Thr 
 Familial 
 Maternal 
 Simplex 
 GEN889R014 
 stop_gained 
 c.450G>A 
 p.Trp150Ter 
 De novo 
  
  
 GEN889R015 
 synonymous_variant 
 c.2427G>A 
 p.Thr809%3D 
 De novo 
  
 Simplex 

Common

No Common Variants Available
Chromosome
CNV Locus
CNV Type
# of studies
Animal Model
12
Duplication
 1
 
12
Duplication
 2
 
12
Deletion
 4
 
12
Deletion
 2
 
12
Deletion
 1
 
12
Deletion
 1
 

No Animal Model Data Available

 

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