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Relevance to Autism

This gene has been associated with syndromic autism, where a subpopulation of individuals with a given syndrome develop autism. In particular, rare mutations of the NIPBL gene have been identified with Cornelia de Lange syndrome (Krantz et al., 2004).

Molecular Function

This gene encodes the homolog of the Drosophila melanogaster Nipped-B gene product and fungal Scc2-type sister chromatid cohesion proteins. It is also homologous to a family of chromosomal adherins with broad roles in sister chromatid cohesion, chromosome condensation, and DNA repair. The human protein has a bipartite nuclear targeting sequence and a putative HEAT repeat. Mutations in this gene result in Cornelia de Lange syndrome, a disorder characterized by dysmorphic facial features, growth delay, limb reduction defects, and mental retardation. Two transcript variants encoding different isoforms have been found for this gene.

External Links

        

References

Type
Title
Type of Disorder
Associated Disorders
Author, Year
Primary
Cornelia de Lange syndrome is caused by mutations in NIPBL, the human homolog of Drosophila melanogaster Nipped-B.
Cornelia de Lange syndrome
ASD
Positive Association
De Novo Coding Variants Are Strongly Associated with Tourette Disorder.
Tourette syndrome
Support
Cornelia de Lange syndrome 1, DD
Support
Performance comparison of bench-top next generation sequencers using microdroplet PCR-based enrichment for targeted sequencing in patients with aut...
ASD
ID, epilepsy
Support
Whole genome sequencing and variant discovery in the ASPIRE autism spectrum disorder cohort.
ASD
Cornelia de Lange syndrome, DD, ID
Support
DD
Stereotypy
Support
The combination of whole-exome sequencing and copy number variation sequencing enables the diagnosis of rare neurological disorders.
DD, ID
Support
Genetic and Phenotype Analysis of a Chinese Cohort of Infants and Children With Epilepsy
Epilepsy/seizures
Support
Targeted sequencing and functional analysis reveal brain-size-related genes and their networks in autism spectrum disorders.
ASD
Support
Genetic care in geographically isolated small island communities: 8 years of experience in the Dutch Caribbean
ID
Support
Rates, distribution and implications of postzygotic mosaic mutations in autism spectrum disorder.
ASD
Support
Diagnostic yield of next-generation sequencing in 87 families with neurodevelopmental disorders
ID
Support
High diagnostic yield of syndromic intellectual disability by targeted next-generation sequencing.
Cornelia de Lange syndrome
ID
Support
Prevalence and phenotypic impact of rare potentially damaging variants in autism spectrum disorder
ASD
Support
Large-scale discovery of novel genetic causes of developmental disorders.
Absent speech, dysmorphic features
Support
Inherited and De Novo Genetic Risk for Autism Impacts Shared Networks.
ASD
Recent Recommendation
Diagnosis and management of Cornelia de Lange syndrome: first international consensus statement.
Cornelia de Lange syndrome
Recent Recommendation
Nipbl Interacts with Zfp609 and the Integrator Complex to Regulate Cortical Neuron Migration.
Recent Recommendation
Drosophila Nipped-B Mutants Model Cornelia de Lange Syndrome in Growth and Behavior.

Rare

Variant ID
Variant Type
Allele Change
Residue Change
Inheritance Pattern
Inheritance Association
Family Type
Author, Year
 GEN278R001 
 initiator_codon_variant 
 c.2T>A 
 p.Met1? 
 Familial 
  
 Multiplex 
 GEN278R002 
 frameshift_variant 
 c.150del 
 p.Asn51ThrfsTer27 
 De novo 
  
  
 GEN278R003 
 frameshift_variant 
 c.1547dup 
 p.Ala517CysfsTer5 
 De novo 
  
  
 GEN278R004 
 frameshift_variant 
 c.2520del 
 p.Arg841GlufsTer6 
 De novo 
  
  
 GEN278R005 
 frameshift_variant 
 c.3024_3028del 
 p.Ser1009GlyfsTer2 
  
  
  
 GEN278R006 
 splice_site_variant 
 G>T 
 p.? 
 Familial 
  
 Multiplex 
 GEN278R007 
 missense_variant 
 c.1553C>T 
 p.Thr518Ile 
 Unknown 
  
 Unknown 
 GEN278R008 
 missense_variant 
 c.4841G>C 
 p.Gly1614Ala 
 De novo 
  
 Simplex 
 GEN278R009 
 inframe_deletion 
 c.5689_5691del 
 p.Asn1897del 
 De novo 
  
  
 GEN278R010 
 missense_variant 
 c.5506G>A 
 p.Gly1836Ser 
 De novo 
  
 Simplex 
 GEN278R011 
 missense_variant 
 c.8242T>C 
 p.Trp2748Arg 
 De novo 
  
 Simplex 
 GEN278R012 
 missense_variant 
 c.7515A>C 
 p.Lys2505Asn 
 De novo 
  
 Multiplex 
 GEN278R013 
 missense_variant 
 c.8182G>A 
 p.Val2728Met 
 Familial 
  
 Simplex 
 GEN278R014 
 missense_variant 
 c.8378G>A 
 p.Arg2793Gln 
 Familial 
  
 Simplex 
 GEN278R015 
 missense_variant 
 c.923G>A 
 p.Arg308Gln 
 Familial 
  
 Simplex 
 GEN278R016 
 missense_variant 
 c.7637T>C 
 p.Leu2546Pro 
 De novo 
  
 Simplex 
 GEN278R017 
 missense_variant 
 c.6892C>A 
 p.Arg2298Ser 
 De novo 
  
  
 GEN278R018 
 missense_variant 
 c.7957C>G 
 p.Leu2653Val 
 De novo 
  
 Multiplex 
 GEN278R019 
 missense_variant 
 c.8270G>A 
 p.Arg2757His 
 Unknown 
  
  
 GEN278R020 
 missense_variant 
 c.385T>C 
 p.Ser129Pro 
 De novo 
  
 Simplex 
 GEN278R021 
 intron_variant 
 c.5329-15A>G 
  
 De novo 
  
 Simplex 
 GEN278R022 
 inframe_insertion 
 c.5778_5808+2dup 
  
 Unknown 
  
  
 GEN278R023 
 frameshift_variant 
 c.7816dup 
 p.Ile2606AsnfsTer26 
 De novo 
  
  
 GEN278R024 
 frameshift_variant 
  
  
 De novo 
  
 Simplex 
 GEN278R025 
 missense_variant 
 c.7790T>C 
 p.Leu2597Pro 
 De novo 
  
 Simplex 
  et al.  

Common

No Common Variants Available
Chromosome
CNV Locus
CNV Type
# of studies
Animal Model
5
Deletion-Duplication
 20
 
5
Duplication
 1
 
5
Duplication
 2
 
5
Duplication
 1
 
5
Duplication
 1
 
5
Duplication
 1
 
5
Duplication
 1
 
5
Duplication
 1
 
5
Duplication
 1
 

No Animal Model Data Available


Interactor Symbol Interactor Name Interactor Organism Entrez ID Uniprot ID Interaction Type Evidence Reference
ARFGAP1 ADP-ribosylation factor GTPase activating protein 1 55738 Q8N6T3 IP; LC-MS/MS
Huttlin EL , et al. 2015
CBX3 chromobox homolog 3 11335 Q13185 GST
Lechner MS , et al. 2005
CBX5 chromobox homolog 5 23468 Q61686 in vitro binding assay; IP/WB; GST
Lechner MS , et al. 2005
CHD8 chromodomain helicase DNA binding protein 8 57680 Q9HCK8 CHIP-seq
Cotney J , et al. 2015
DBN1 drebrin 1 1627 Q16643 Y2H
Stelzl U , et al. 2005
FMR1 fragile X mental retardation 1 2332 G8JLE9 PAR-CLIP
Ascano M Jr , et al. 2012
HDAC1 histone deacetylase 1 3065 Q13547 Y2H; IP/WB
Jahnke P , et al. 2008
HDAC3 Histone deacetylase 3 8841 O15379 Y2H; IP/WB
Jahnke P , et al. 2008
MAU2 MAU2 chromatid cohesion factor homolog (C. elegans) 23383 Q9Y6X3 IP/WB; Y2H
Seitan VC , et al. 2006
MLLT3 myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 3 4300 P42568 Affinity chromatography; MS
Park G , et al. 2010
PRSS23 protease, serine, 23 11098 O95084 Y2H
Stelzl U , et al. 2005
Smc1 Structural maintenance of chromosomes protein 1A 8243 Q14683 FRAP; GST; IP/WB; ATPase assay
Ladurner R , et al. 2014
Smc3 structural maintenance of chromosomes 3 9126 Q9UQE7 FRAP; GST; IP/WB; ATPase assay
Ladurner R , et al. 2014
TOP3B topoisomerase (DNA) III beta 8940 O95985 HITS-CLIP
Xu D , et al. 2013
HBB hemoglobin, beta adult major chain 15129 P02088 ChIP
Chien R , et al. 2011
Khdrbs3 KH domain containing, RNA binding, signal transduction associated 3 13992 Q9R226 RNA-Seq
Traunmller L , et al. 2016
CUX1 cut 44540 P10180 ChIP
Misulovin Z , et al. 2007
HOXA9 Abdominal B 47763 P09087 ChIP
Misulovin Z , et al. 2007

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