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Relevance to Autism

A de novo likely gene disruptive (LGD) variant in SMC3 was identified in an ASD proband from the Autism Simplex Collection in Stessman et al., 2017. Mutations in the SMC3 gene are associated with a form of Cornelia de Lange syndrome (Cornelia de Lange syndrome 3; OMIM 610759) (Deardorff et al., 2007; Gil-Rodrguez et al., 2015). Phenotypic characterization of 16 patients with Cornelia de Lange-like features caused by SMC3 variants in Gil-Rodrguez et al., 2015 demonstrated that, while intellectual disability was a prominent feature, behavioral problems were less frequently reported (1 individual presented with autism, whereas another presented with autistic features; poor eye contact, attention deficit disorder, aggression, and self-injurious behavior were also observed).

Molecular Function

Central component of cohesin, a complex required for chromosome cohesion during the cell cycle.

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
De novo heterozygous mutations in SMC3 cause a range of Cornelia de Lange syndrome-overlapping phenotypes.
Cornelia de Lange syndrome-3 (CDLS3)
Support
DD, ID, epilepsy/seizures
Support
Large-scale discovery of novel genetic causes of developmental disorders.
DD
Support
Integrating de novo and inherited variants in 42
ASD
Support
Prevalence and phenotypic impact of rare potentially damaging variants in autism spectrum disorder
ASD
Support
Diagnostic Yields of Trio-WES Accompanied by CNVseq for Rare Neurodevelopmental Disorders.
DD
Support
Whole genome sequencing and variant discovery in the ASPIRE autism spectrum disorder cohort.
ASD
Support
DD
ASD, ADD, ADHD, ID, epilepsy/seizures
Support
Genomic diagnosis for children with intellectual disability and/or developmental delay.
ID
Highly Cited
Mutations in cohesin complex members SMC3 and SMC1A cause a mild variant of cornelia de Lange syndrome with predominant mental retardation.
Cornelia de Lange syndrome-3 (CDLS3)
Recent Recommendation
Diagnosis and management of Cornelia de Lange syndrome: first international consensus statement.
Cornelia de Lange syndrome-3 (CDLS3)
Recent Recommendation
Targeted sequencing identifies 91 neurodevelopmental-disorder risk genes with autism and developmental-disability biases.
ASD

Rare

Variant ID
Variant Type
Allele Change
Residue Change
Inheritance Pattern
Inheritance Association
Family Type
Author, Year
 GEN877R001 
 missense_variant 
 c.2413C>T 
 p.Arg805Cys 
 De novo 
  
 Simplex 
 GEN877R002 
 frameshift_variant 
 c.2412dup 
 p.Arg805SerfsTer13 
 De novo 
  
 Simplex 
 GEN877R003 
 frameshift_variant 
 TGAAAAGAA>TGAA 
  
 De novo 
  
  
 GEN877R004 
 missense_variant 
 c.3563G>C 
 p.Gly1188Ala 
 De novo 
  
  
 GEN877R005 
 missense_variant 
 c.283G>A 
 p.Glu95Lys 
 De novo 
  
  
 GEN877R006 
 inframe_deletion 
 c.1464_1466del 
 p.Glu488del 
 De novo 
  
  
 GEN877R007 
 missense_variant 
 c.1892T>C 
 p.Leu631Pro 
 Unknown 
  
 Simplex 
 GEN877R008 
 frameshift_variant 
 c.1071_1074del 
 p.Glu358AsnfsTer44 
 De novo 
  
  
 GEN877R009 
 missense_variant 
 c.324G>C 
 p.Gln108His 
 Unknown 
  
  
 GEN877R010 
 inframe_deletion 
 c.2062_2064del 
 p.Glu688del 
 De novo 
  
  
 GEN877R011 
 missense_variant 
 c.2372T>G 
 p.Leu791Trp 
 De novo 
  
  
 GEN877R012 
 missense_variant 
 c.3035A>T 
 p.Lys1012Ile 
 De novo 
  
 Multiplex 
 GEN877R013 
 inframe_deletion 
 c.2005_2007del 
 p.Tyr669del 
 De novo 
  
  
 GEN877R014 
 inframe_deletion 
 c.3002_3004del 
 p.Ile1001del 
 De novo 
  
 Simplex 
 GEN877R015 
 splice_site_variant 
 c.430-1G>T 
  
 De novo 
  
  
  et al.  
 GEN877R016 
 frameshift_variant 
 c.461dup 
 p.Arg155GlufsTer12 
 Unknown 
  
  
  et al.  
 GEN877R017 
 stop_gained 
 c.661C>T 
 p.Arg221Ter 
 Familial 
 Maternal 
  
  et al.  
 GEN877R018 
 stop_gained 
 c.778C>T 
 p.Gln260Ter 
 De novo 
  
  
  et al.  
 GEN877R019 
 stop_gained 
 c.1078C>T 
 p.Arg360Ter 
 Familial 
 Paternal 
  
  et al.  
 GEN877R020 
 frameshift_variant 
 c.1474_1478del 
 p.Lys492AlafsTer5 
 De novo 
  
  
  et al.  
 GEN877R021 
 frameshift_variant 
 c.1539del 
 p.Asn513LysfsTer4 
 Unknown 
  
  
  et al.  
 GEN877R022 
 stop_gained 
 c.1561C>T 
 p.Arg521Ter 
 Unknown 
  
  
  et al.  
 GEN877R023 
 stop_gained 
 c.2899C>T 
 p.Arg967Ter 
 De novo 
  
  
  et al.  
 GEN877R024 
 frameshift_variant 
 c.3646_3647dup 
 p.Gly1217MetfsTer39 
 Unknown 
  
  
  et al.  
 GEN877R025 
 copy_number_loss 
  
  
 De novo 
  
  
  et al.  
 GEN877R026 
 copy_number_loss 
  
  
 De novo 
  
  
  et al.  
 GEN877R027 
 copy_number_loss 
  
  
 Unknown 
 Not maternal 
  
  et al.  
 GEN877R028 
 copy_number_loss 
  
  
 Familial 
 Paternal 
  
  et al.  

Common

No Common Variants Available
Chromosome
CNV Locus
CNV Type
# of studies
Animal Model
10
Duplication
 1
 
10
Duplication
 1
 
10
Duplication
 1
 
10
Duplication
 2
 
10
Duplication
 1
 
10
Deletion
 1
 
10
Duplication
 2
 
10
Deletion-Duplication
 7
 
10
Duplication
 1
 

No Animal Model Data Available

 

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