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Relevance to Autism

A rare G>A mutation within the human accelerated region HAR426, for which existing ChIA-Pet data showed an interaction with the dosage-sensitive CUX1 promoter 200 kb distal, was homozygous in three individuals presenting with ASD and ID from two unrelated consanguineous families; functional analysis of this variant in luciferase reporter assays demonstrated that while HAR426 joined to the human CUX1 promoter showed strong enhancer activity (1.5-fold increase), the G>A variant boosted activity over 3-fold (Doan et al., 2016). In the same report, overexpression of CUX1 in cortical cultured neurons was shown to increase synaptic spine density and spine head area in an activity-dependent manner. CUX1 was found to bind to a transcriptional activator containing an ASD-associated intronic haplotype in the EN2 gene (Choi et al., 2012).

Molecular Function

The protein encoded by this gene is a member of the homeodomain family of DNA binding proteins. It may regulate gene expression, morphogenesis, and differentiation and it may also play a role in the cell cycle progession.

External Links

        

References

Type
Title
Type of Disorder
Associated Disorders
Author, Year
Primary
Mutations in Human Accelerated Regions Disrupt Cognition and Social Behavior.
ASD
Support
Synaptic, transcriptional and chromatin genes disrupted in autism.
ASD
Support
Integrating de novo and inherited variants in 42
ASD
Support
Cut-like homeobox 1 and nuclear factor I/B mediate ENGRAILED2 autism spectrum disorder-associated haplotype function.
Support
CUX2 deficiency causes facilitation of excitatory synaptic transmission onto hippocampus and increased seizure susceptibility to kainate
Epilepsy/seizures
ASD, DD, ID
Support
Cux1 and Cux2 regulate dendritic branching, spine morphology, and synapses of the upper layer neurons of the cortex.
Support
Mutational Landscape of Autism Spectrum Disorder Brain Tissue
ASD
Support
Rare variants in the outcome of social skills group training for autism
ASD
Support
Whole genome sequencing and variant discovery in the ASPIRE autism spectrum disorder cohort.
ASD
Support
Haploinsufficiency of CUX1 Causes Nonsyndromic Global Developmental Delay With Possible Catch-up Development.
DD
ID, ASD
Support
Genome-wide rare variant score associates with morphological subtypes of autism spectrum disorder
ASD
Recent Recommendation
DD, ID
ASD, ADHD, epilepsy/seizures

Rare

Variant ID
Variant Type
Allele Change
Residue Change
Inheritance Pattern
Inheritance Association
Family Type
Author, Year
 GEN847R001a 
 intergenic_variant 
 G>A 
  
 Familial 
 Both parents 
 Multiplex 
 GEN847R002a 
 intergenic_variant 
 G>A 
  
 Familial 
 Both parents 
 Simplex 
 GEN847R003 
 missense_variant 
 c.902T>C 
 p.Val301Ala 
 De novo 
  
  
 GEN847R004 
 stop_gained 
 c.61C>T 
 p.Gln21Ter 
 De novo 
  
 Simplex 
 GEN847R005 
 frameshift_variant 
 c.2398del 
 p.Gln800ArgfsTer19 
 De novo 
  
 Simplex 
 GEN847R006 
 stop_gained 
 c.2617C>T 
 p.Gln873Ter 
 De novo 
  
 Simplex 
 GEN847R007 
 frameshift_variant 
 c.3197dup 
 p.Ala1067CysfsTer3 
 Familial 
 Maternal 
 Multiplex 
 GEN847R008 
 frameshift_variant 
 c.3783_3784dup 
 p.Leu1262ArgfsTer10 
 De novo 
  
  
 GEN847R009 
 copy_number_loss 
  
  
 De novo 
  
  
 GEN847R010 
 copy_number_loss 
  
  
 De novo 
  
  
 GEN847R011 
 missense_variant 
 c.115G>A 
 p.Glu39Lys 
 Unknown 
  
 Simplex 
 GEN847R012 
 missense_variant 
 c.1943G>T 
 p.Ser648Ile 
 Unknown 
  
  
 GEN847R013 
 synonymous_variant 
 c.3081C>T 
 p.Pro1027%3D 
 Unknown 
  
  
 GEN847R014 
 missense_variant 
 c.3161C>T 
 p.Ser1054Leu 
 Unknown 
  
  
 GEN847R015 
 missense_variant 
 c.3161C>T 
 p.Ser1054Leu 
 Unknown 
  
  
 GEN847R016 
 missense_variant 
 c.3281C>T 
 p.Ala1094Val 
 Unknown 
  
 Simplex 
 GEN847R017 
 missense_variant 
 c.3815G>A 
 p.Arg1272Gln 
 Unknown 
  
  
 GEN847R018 
 missense_variant 
 c.4172C>T 
 p.Thr1391Ile 
 Unknown 
  
 Simplex 
 GEN847R019 
 missense_variant 
 c.2839G>A 
 p.Glu947Lys 
 De novo 
  
 Simplex 
 GEN847R020 
 missense_variant 
 c.3986C>G 
 p.Ala1329Gly 
 De novo 
  
 Simplex 
 GEN847R021 
 frameshift_variant 
 c.1702del 
 p.Ala568ProfsTer8 
 Familial 
 Paternal 
 Simplex 
 GEN847R022 
 missense_variant 
 c.1588A>C 
 p.Lys530Gln 
 Familial 
  
 Multiplex 
 GEN847R023 
 missense_variant 
 c.4288G>T 
 p.Glu1430Ter 
 De novo 
  
  
 GEN847R024 
 frameshift_variant 
 c.3461del 
 p.Asn1154ThrfsTer12 
 De novo 
  
  
 GEN847R025 
 splice_site_variant 
 c.63+1G>A 
  
 Unknown 
  
  
 GEN847R026 
 splice_site_variant 
 c.223-2A>G 
  
 De novo 
  
 Simplex 
 GEN847R027 
 stop_gained 
 c.571C>T 
 p.Gln191Ter 
 De novo 
  
 Simplex 
 GEN847R028 
 missense_variant 
 c.795G>C 
 p.Arg265Ser 
 De novo 
  
 Simplex 
 GEN847R029 
 stop_gained 
 c.985G>T 
 p.Glu329Ter 
 Familial 
 Maternal 
 Simplex 
 GEN847R030 
 frameshift_variant 
 c.1091del 
 p.Glu364GlyfsTer2 
 Familial 
 Paternal 
 Extended multiplex 
 GEN847R031 
 stop_gained 
 c.1606C>T 
 p.Gln536Ter 
 De novo 
  
 Simplex 
 GEN847R032 
 frameshift_variant 
 c.1609del 
 p.Ser537AlafsTer39 
 De novo 
  
 Simplex 
 GEN847R033 
 frameshift_variant 
 c.1626del 
 p.Met543TrpfsTer33 
 De novo 
  
 Simplex 
 GEN847R034 
 stop_gained 
 c.1720C>T 
 p.Gln574Ter 
 De novo 
  
 Simplex 
 GEN847R035 
 frameshift_variant 
 c.2902del 
 p.Ala968ProfsTer35 
 Familial 
 Paternal 
 Simplex 
 GEN847R036 
 frameshift_variant 
 c.3334del 
 p.Gln1112SerfsTer19 
 De novo 
  
 Simplex 
 GEN847R037 
 frameshift_variant 
 c.3533_3536del 
 p.Arg1178ProfsTer9 
 Familial 
 Maternal 
 Simplex 
 GEN847R038 
 stop_gained 
 c.3596G>A 
 p.Trp1199Ter 
 De novo 
  
 Simplex 
 GEN847R039 
 missense_variant 
 c.3634A>T 
 p.Met1212Leu 
 De novo 
  
 Simplex 
 GEN847R040 
 frameshift_variant 
 c.3819del 
 p.Tyr1274IlefsTer21 
 De novo 
  
 Simplex 
 GEN847R041 
 missense_variant 
 c.4064C>T 
 p.Thr1355Ile 
 De novo 
  
 Simplex 
 GEN847R042 
 frameshift_variant 
 c.4321dup 
 p.Glu1441GlyfsTer121 
 Unknown 
 Not maternal 
  
 GEN847R043 
 frameshift_variant 
 c.4440_4448del 
 p.Ser1482_Asp1484del 
 De novo 
  
 Simplex 
 GEN847R044 
 copy_number_loss 
  
  
 Familial 
 Maternal 
 Simplex 
 GEN847R045 
 translocation 
  
 p.Glu307_Glu1055delinsThrLeuGluAlaSerPheSerProAlaLysTrpAlaTer 
 De novo 
  
 Simplex 
 GEN847R046 
 inversion 
  
 p.? 
 De novo 
  
 Simplex 

Common

No Common Variants Available
Chromosome
CNV Locus
CNV Type
# of studies
Animal Model
7
Deletion
 2
 
7
Duplication
 2
 
7
Deletion-Duplication
 28
 
7
Deletion-Duplication
 1
 
7
Deletion
 1
 

No Animal Model Data Available

 

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