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Relevance to Autism

A de novo missense variant that was predicted to be damaging was observed in the ARID2 gene in an ASD proband from the Simons Simplex Collection in Iossifov et al., 2014, while a de novo splice-site variant in this gene was identified in an ASD proband from the ASPIRE cohort in Callaghan et al., 2019. Heterozygous variants in the ARID2 gene are also associated with a form of Coffin-Siris syndrome (Coffin-Siris syndrome 6; OMIM 617808); in addition to intellectual disability and dysmorphic features, individuals with this syndrome frequently present with behavioral abnormalities such as ADHD, tics, and autistic behavior such as routine-driven and/or rigid behavior and hand-flapping (Shang et al., 2015; Branswig et al., 2017; Van Paemel et al., 2017; Gazdagh et al., 2019).

Molecular Function

This gene encodes a member of the AT-rich interactive domain (ARID)-containing family of DNA-binding proteins. Members of the ARID family have roles in embryonic patterning, cell lineage gene regulation, cell cycle control, transcriptional regulation and chromatin structure modification. This protein functions as a subunit of the polybromo- and BRG1-associated factor or PBAF (SWI/SNF-B) chromatin remodeling complex which facilitates ligand-dependent transcriptional activation by nuclear receptors.

External Links

        

References

Type
Title
Type of Disorder
Associated Disorders
Author, Year
Primary
The contribution of de novo coding mutations to autism spectrum disorder
ASD
Support
Prevalence and architecture of de novo mutations in developmental disorders
Developmental disorders
Support
Clinical Targeted Panel Sequencing Analysis in Clinical Evaluation of Children with Autism Spectrum Disorder in China
ASD
Support
Coffin-Siris syndrome 6, DD
ASD, ADHD, ID, epilepsy/seizures
Support
Heterozygosity for ARID2 loss-of-function mutations in individuals with a Coffin-Siris syndrome-like phenotype.
Coffin-Siris syndrome 6
Support
Phenotypic and molecular spectra of patients with switch/sucrose nonfermenting complex-related intellectual disability disorders in Korea
Coffin-Siris syndrome 6, DD, ID
Support
ASD, ID
Support
Mutations in ARID2 are associated with intellectual disabilities.
Coffin-Siris syndrome 6
DD, ID, ADHD
Support
Large-scale targeted sequencing identifies risk genes for neurodevelopmental disorders
ASD, DD
Support
ID
Epilepsy/seizures
Support
A recurrent PJA1 variant in trigonocephaly and neurodevelopmental disorders
ID, epilepsy/seizures
Support
Extending the clinical and genetic spectrum of ARID2 related intellectual disability. A case series of 7 patients.
Coffin-Siris syndrome 6
Support
Confirmation of an ARID2 defect in SWI/SNF-related intellectual disability.
Coffin-Siris syndrome 6
Support
Integrating de novo and inherited variants in 42
ASD
Recent Recommendation
Whole genome sequencing and variant discovery in the ASPIRE autism spectrum disorder cohort.
ASD

Rare

Variant ID
Variant Type
Allele Change
Residue Change
Inheritance Pattern
Inheritance Association
Family Type
Author, Year
 GEN1089R001 
 missense_variant 
 c.940C>T 
 p.Arg314Cys 
 De novo 
  
 Simplex 
 GEN1089R002 
 splice_site_variant 
 c.1330+1G>A 
  
 De novo 
  
  
 GEN1089R003 
 frameshift_variant 
 c.2406del 
 p.Phe802LeufsTer20 
 De novo 
  
  
 GEN1089R004 
 stop_gained 
 c.1028T>A 
 p.Leu343Ter 
 Unknown 
  
  
 GEN1089R005 
 frameshift_variant 
 c.4310del 
 p.Ala1437GlyfsTer16 
 De novo 
  
  
 GEN1089R006 
 stop_gained 
 c.4318C>T 
 p.Gln1440Ter 
 De novo 
  
  
 GEN1089R007 
 frameshift_variant 
 c.3280_3281del 
 p.Ser1094ProfsTer10 
 De novo 
  
  
 GEN1089R008 
 frameshift_variant 
 c.26del 
 p.Pro9LeufsTer49 
 De novo 
  
  
 GEN1089R009 
 copy_number_loss 
  
  
  
  
  
 GEN1089R010 
 copy_number_loss 
  
  
 Unknown 
  
  
 GEN1089R011 
 frameshift_variant 
 c.1158dup 
 p.Asn387Ter 
 De novo 
  
  
 GEN1089R012 
 stop_gained 
 c.399C>G 
 p.Tyr133Ter 
 De novo 
  
  
 GEN1089R013 
 stop_gained 
 c.4444C>T 
 p.Gln1482Ter 
 De novo 
  
  
 GEN1089R014 
 frameshift_variant 
 c.4687_4690dup 
 p.Thr1564LysfsTer5 
 De novo 
  
  
 GEN1089R015 
 frameshift_variant 
 c.2645_2646insCT 
 p.Val883LeufsTer10 
 De novo 
  
  
 GEN1089R016 
 copy_number_loss 
  
  
 Unknown 
  
  
 GEN1089R017a 
 missense_variant 
 c.2122C>T 
 p.Pro708Ser 
 Unknown 
  
 Unknown 
 GEN1089R018 
 missense_variant 
 c.5036G>A 
 p.Arg1679Gln 
 De novo 
  
  
 GEN1089R019 
 stop_gained 
 c.2377C>T 
 p.Gln793Ter 
 De novo 
  
  
 GEN1089R020 
 initiator_codon_variant 
 c.327T>G 
 p.Asp109Glu 
 Unknown 
  
  
 GEN1089R021 
 initiator_codon_variant 
 c.2T>G 
 p.Met1? 
 Unknown 
  
  
 GEN1089R022 
 missense_variant 
 c.5141C>T 
 p.Ser1714Phe 
 Unknown 
  
  
 GEN1089R023 
 missense_variant 
 c.4390C>T 
 p.Arg1464Cys 
 Familial 
 Paternal 
  
 GEN1089R024 
 frameshift_variant 
 c.1932_1936del 
 p.Gln644HisfsTer61 
 De novo 
  
  
 GEN1089R025 
 frameshift_variant 
 c.300del 
 p.Tyr100Ter 
 Unknown 
 Not maternal 
  
 GEN1089R026 
 initiator_codon_variant 
 c.2T>G 
 p.Met1? 
 Unknown 
  
  
 GEN1089R027 
 missense_variant 
 c.1652C>T 
 p.Ser551Leu 
 Unknown 
  
  
 GEN1089R028 
 missense_variant 
 c.940C>T 
 p.Arg314Cys 
 Unknown 
  
  
 GEN1089R029 
 frameshift_variant 
 c.4687_4690dup 
 p.Thr1564LysfsTer5 
 De novo 
  
  
 GEN1089R030 
 frameshift_variant 
 c.2645_2646insCT 
 p.Val883LeufsTer10 
 De novo 
  
  
 GEN1089R031 
 stop_gained 
 c.4444C>T 
 p.Gln1482Ter 
 De novo 
  
  
 GEN1089R032 
 copy_number_loss 
  
  
 De novo 
  
  
 GEN1089R033 
 stop_gained 
 c.2983C>T 
 p.Gln995Ter 
 De novo 
  
  
 GEN1089R034 
 missense_variant 
 c.625G>A 
 p.Val209Met 
 De novo 
  
 Simplex 
 GEN1089R035 
 synonymous_variant 
 c.2796A>G 
 p.Pro932%3D 
 De novo 
  
 Simplex 
 GEN1089R036 
 frameshift_variant 
 c.5399_5402dup 
 p.Ile1802SerfsTer3 
 De novo 
  
 Simplex 
 GEN1089R037 
 frameshift_variant 
 c.4425del 
 p.Ser1476LeufsTer9 
 Unknown 
  
 Simplex 
 GEN1089R038 
 frameshift_variant 
 c.857_902del 
 p.Val286AlafsTer27 
 Unknown 
  
 Simplex 
 GEN1089R039 
 missense_variant 
 c.4867G>C 
 p.Asp1623His 
 Unknown 
  
 Simplex 
 GEN1089R040 
 missense_variant 
 c.5198T>C 
 p.Ile1733Thr 
 Unknown 
  
 Simplex 
 GEN1089R041 
 frameshift_variant 
 c.1746_1747del 
 p.Arg582SerfsTer6 
 De novo 
  
  
  et al.  
 GEN1089R042 
 stop_gained 
 c.2872C>T 
 p.Gln958Ter 
 De novo 
  
  
  et al.  
 GEN1089R043 
 frameshift_variant 
 c.237del 
 p.Arg80GlufsTer10 
 De novo 
  
  
  et al.  
 GEN1089R044 
 stop_gained 
 c.5305C>T 
 p.Arg1769Ter 
 De novo 
  
  
  et al.  
 GEN1089R045 
 copy_number_loss 
  
  
 Unknown 
  
  
  et al.  
 GEN1089R046 
 copy_number_loss 
  
  
 Unknown 
  
  
  et al.  
 GEN1089R047 
 frameshift_variant 
 c.415del 
 p.Ser139ArgfsTer76 
 De novo 
  
  
  et al.  
 GEN1089R048 
 frameshift_variant 
 c.1199del 
 p.Tyr400SerfsTer16 
 De novo 
  
  
  et al.  
 GEN1089R049 
 stop_gained 
 c.5260C>T 
 p.Arg1754Ter 
 De novo 
  
  
  et al.  
 GEN1089R050 
 copy_number_loss 
  
  
 Unknown 
  
  
  et al.  
 GEN1089R051 
 frameshift_variant 
 c.1332del 
 p.Asp444GlufsTer3 
 Unknown 
  
  
  et al.  
 GEN1089R052 
 frameshift_variant 
 c.2814_2815del 
 p.Tyr939CysfsTer11 
 Unknown 
  
  
  et al.  
 GEN1089R053 
 copy_number_loss 
  
  
 Unknown 
  
  
  et al.  
 GEN1089R054 
 copy_number_loss 
  
  
 Unknown 
  
  
  et al.  
 GEN1089R055 
 stop_gained 
 c.3680C>T 
 p.Gln1227Ter 
 De novo 
  
  
  et al.  
 GEN1089R056 
 copy_number_loss 
  
  
 Unknown 
  
  
  et al.  
 GEN1089R057 
 stop_gained 
 c.5070C>G 
 p.His1690Gln 
 Unknown 
  
  
  et al.  
 GEN1089R058 
 frameshift_variant 
 c.4255_4256del 
 p.Pro1419CysfsTer24 
 De novo 
  
  
  et al.  

Common

No Common Variants Available
Chromosome
CNV Locus
CNV Type
# of studies
Animal Model
12
Duplication
 1
 
12
Deletion-Duplication
 20
 
12
Deletion
 2
 
12
Duplication
 1
 

No Animal Model Data Available

 

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