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Relevance to Autism

A number of de novo coding variants in the MYCBP2 gene, includiing three de novo loss-of-function (LoF) variants, have been identified in ASD probands from multiple cohorts (De Rubeis et al., 2014; Yuen et al., 2016; Yuen et al., 2017; Feliciano et al., 2019; Satterstrom et al., 2020; Zhou et al., 2022). AlAbdiet al., 2022 described a cohort of eight patients with a neurodevelopmental disorder characterized by a range of deficits including corpus callosum abnormalities, developmental delay, intellectual disability, epilepsy, and autism or autistic features who harbored de novo variants in the MYCBP2 gene; introduction of these disease-associated variants into conserved residues in the C. elegans MYCBP2 ortholog, RPM-1, demonstrated that C. elegans carrying the corresponding human mutations in rpm-1 displayed axonal and behavioral abnormalities.

Molecular Function

This gene encodes an E3 ubiquitin-protein ligase and member of the PHR (Phr1/MYCBP2, highwire and RPM-1) family of proteins. The encoded protein plays a role in axon guidance and synapse formation in the developing nervous system. In mammalian cells, this protein regulates the cAMP and mTOR signaling pathways, and may additionally regulate autophagy. Reduced expression of this gene has been observed in acute lymphoblastic leukemia patients and a mutation in this gene has been identified in patients with a rare inherited vision defect.

External Links

        

References

Type
Title
Type of Disorder
Associated Disorders
Author, Year
Primary
Synaptic, transcriptional and chromatin genes disrupted in autism.
ASD
Support
Large-Scale Exome Sequencing Study Implicates Both Developmental and Functional Changes in the Neurobiology of Autism
ASD
Support
Exome sequencing of 457 autism families recruited online provides evidence for autism risk genes
ASD
Support
Whole genome sequencing resource identifies 18 new candidate genes for autism spectrum disorder
ASD
Support
Genome-wide characteristics of de novo mutations in autism
ASD
Support
ASD
DD, ID
Recent Recommendation
Loss-of-function variants in MYCBP2 cause neurobehavioural phenotypes and corpus callosum defects
DD
ASD or autistic features, ID, epilepsy/seizures
Recent Recommendation
Integrating de novo and inherited variants in 42
ASD

Rare

Variant ID
Variant Type
Allele Change
Residue Change
Inheritance Pattern
Inheritance Association
Family Type
Author, Year
 GEN1362R001 
 missense_variant 
 c.7769T>C 
 p.Met2590Thr 
 De novo 
  
  
 GEN1362R002 
 synonymous_variant 
 c.4392C>G 
 p.Thr1464%3D 
 De novo 
  
  
 GEN1362R003 
 missense_variant 
 c.2081G>A 
 p.Cys694Tyr 
 De novo 
  
 Simplex 
 GEN1362R004 
 synonymous_variant 
 c.5055C>T 
 p.Ser1685%3D 
 De novo 
  
 Multiplex 
 GEN1362R005 
 missense_variant 
 c.2359C>T 
 p.Arg787Trp 
 De novo 
  
  
 GEN1362R006 
 missense_variant 
 c.3721G>A 
 p.Gly1241Arg 
 De novo 
  
  
 GEN1362R007 
 missense_variant 
 c.2708A>G 
 p.Gln903Arg 
 De novo 
  
  
 GEN1362R008 
 intron_variant 
 c.13438-21A>C 
  
 De novo 
  
  
 GEN1362R009 
 stop_gained 
 c.12463C>T 
 p.Arg4155Ter 
 De novo 
  
  
 GEN1362R010 
 missense_variant 
 c.10357A>G 
 p.Met3453Val 
 De novo 
  
  
 GEN1362R011 
 missense_variant 
 c.10279G>A 
 p.Val3427Ile 
 De novo 
  
  
 GEN1362R012 
 missense_variant 
 c.6754G>T 
 p.Gly2252Cys 
 De novo 
  
  
 GEN1362R013 
 missense_variant 
 c.2708A>G 
 p.Gln903Arg 
 De novo 
  
  
 GEN1362R014 
 synonymous_variant 
 c.9084C>T 
 p.Ala3028%3D 
 De novo 
  
  
 GEN1362R015 
 synonymous_variant 
 c.120G>A 
 p.Pro40%3D 
 De novo 
  
  
 GEN1362R016 
 frameshift_variant 
 c.9629dup 
 p.Lys3211GlufsTer8 
 De novo 
  
 Simplex 
 GEN1362R017 
 splice_site_variant 
 c.5472+1_5472+13del 
  
 De novo 
  
 Simplex 
 GEN1362R018 
 missense_variant 
 c.4859T>C 
 p.Val1620Ala 
 De novo 
  
  
 GEN1362R019 
 missense_variant 
 c.2763G>C 
 p.Lys921Asn 
 De novo 
  
  
 GEN1362R020 
 stop_gained 
 c.8005C>T 
 p.Arg2669Ter 
 De novo 
  
  
 GEN1362R021 
 missense_variant 
 c.9896T>G 
 p.Val3299Gly 
 De novo 
  
  
 GEN1362R022 
 missense_variant 
 c.11840A>T 
 p.Asp3947Val 
 De novo 
  
  
 GEN1362R023 
 missense_variant 
 c.11843T>A 
 p.Leu3948Gln 
 De novo 
  
  
 GEN1362R024 
 missense_variant 
 c.11888C>T 
 p.Thr3963Ile 
 De novo 
  
  
 GEN1362R025 
 splice_site_variant 
 c.13647+1G>C 
  
 De novo 
  
  
 GEN1362R026 
 missense_variant 
 c.13669C>T 
 p.Arg4557Cys 
 De novo 
  
  
 GEN1362R027 
 missense_variant 
 c.13406C>A 
 p.Thr4469Lys 
 De novo 
  
  
 GEN1362R028 
 missense_variant 
 c.6856A>G 
 p.Thr2286Ala 
 De novo 
  
 Simplex 
 GEN1362R029 
 missense_variant 
 c.12553G>A 
 p.Gly4185Ser 
 Unknown 
  
 Simplex 

Common

No Common Variants Available
Chromosome
CNV Locus
CNV Type
# of studies
Animal Model
13
Duplication
 1
 
13
Deletion
 1
 
13
Duplication
 2
 
13
Duplication
 1
 
13
Duplication
 1
 
13
Duplication
 1
 
13
Deletion
 1
 
13
Duplication
 1
 
13
Deletion
 1
 
13
Deletion
 1
 
13
Deletion
 1
 
13
N/A
 1
 
13
Deletion
 1
 
13
Duplication
 2
 
13
Duplication
 1
 
13
Deletion
 1
 
13
Deletion
 3
 

No Animal Model Data Available

 

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