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Relevance to Autism

A homozygous missense variant in the POMGNT1 gene that was predicted to be damaging in silico was identifed in a male ASD proband born to consanguineous parents (Yu et al., 2013). Additional homozygous variants in the POMGNT1 gene had previously been identified in patients with a form of congenital muscular dystrophy-dystroglycanopathy with brain and eye anomalies (type A3; MDDGA3; OMIM 253280), previously designated Walker-Warburg syndrome (WWS) or muscle-eye-brain disease (MEB), who also presented with severe autistic features (Haliloglu et al., 2004; Hehr et al., 2007).

Molecular Function

This gene encodes a type II transmembrane protein that resides in the Golgi apparatus. It participates in O-mannosyl glycosylation and is specific for alpha linked terminal mannose. Mutations in this gene may be associated with muscle-eye-brain disease and several congenital muscular dystrophies.

External Links

        

References

Type
Title
Type of Disorder
Associated Disorders
Author, Year
Primary
Using whole-exome sequencing to identify inherited causes of autism.
ASD
Support
Clinical spectrum of muscle-eye-brain disease: from the typical presentation to severe autistic features.
Muscular dystrophy-dystroglycanopathy (congenital
Support
Integrating de novo and inherited variants in 42
ASD
Support
Complex Diagnostics of Non-Specific Intellectual Developmental Disorder
DD, ID
Support
Unravelling the genetic causes of multiple malformation syndromes: A whole exome sequencing study of the Cypriot population
DD, ID
Stereotypy
Support
Inherited and De Novo Genetic Risk for Autism Impacts Shared Networks.
ASD
Support
Targeted sequencing and functional analysis reveal brain-size-related genes and their networks in autism spectrum disorders.
ASD
Support
DD, epilepsy/seizures
Support
Novel POMGnT1 mutations define broader phenotypic spectrum of muscle-eye-brain disease.
Muscular dystrophy-dystroglycanopathy (congenital

Rare

Variant ID
Variant Type
Allele Change
Residue Change
Inheritance Pattern
Inheritance Association
Family Type
Author, Year
 GEN528R001a 
 missense_variant 
 c.1100G>A 
 p.Arg367His 
 Familial 
 Both parents 
 Simplex 
 GEN528R002a 
 missense_variant 
 c.1324C>T 
 p.Arg442Cys 
 Familial 
 Both parents 
 Simplex 
 GEN528R003a 
 splice_site_variant 
 c.1540-2A>G 
  
 Familial 
 Both parents 
 Simplex 
 GEN528R004a 
 frameshift_variant 
 c.593del 
 p.Ser198ThrfsTer43 
 Unknown 
  
 Simplex 
 GEN528R004b 
 splice_site_variant 
 c.1539+1G>A 
  
 Unknown 
  
 Simplex 
 GEN528R005a 
 missense_variant 
  
 p.Arg442Cys 
 Familial 
 Both parents 
 Multiplex 
 GEN528R006a 
 frameshift_variant 
 c.25dup 
 p.Leu9ProfsTer20 
 Unknown 
  
 Simplex 
 GEN528R006b 
 frameshift_variant 
 c.593del 
 p.Ser198ThrfsTer43 
 Unknown 
  
 Simplex 
 GEN528R007a 
 frameshift_variant 
 c.1350_1354del 
 p.Trp451AlafsTer11 
 Familial 
 Both parents 
 Simplex 
 GEN528R008a 
 missense_variant 
 c.1325G>A 
 p.Arg442His 
 Familial 
 Both parents 
 Simplex 
 GEN528R009a 
 stop_gained 
  
 p.Arg580Ter 
 Unknown 
  
 Simplex 
 GEN528R009b 
 missense_variant 
 c.1814G>A 
 p.Arg605His 
 Unknown 
  
 Simplex 
 GEN528R010 
 frameshift_variant 
 c.1735del 
 p.Ile579PhefsTer45 
 Familial 
  
 Simplex 
 GEN528R011 
 frameshift_variant 
 c.462dup 
 p.His155SerfsTer2 
 Familial 
  
 Simplex 
 GEN528R012 
 missense_variant 
 c.1721G>T 
 p.Cys574Phe 
 Familial 
  
 Simplex 
 GEN528R013 
 stop_gained 
 c.643C>T 
 p.Arg215Ter 
 Familial 
 Paternal 
 Multiplex 
 GEN528R014a 
 stop_gained 
 c.304G>T 
 p.Glu102Ter 
 Familial 
  
 Multiplex 
 GEN528R014b 
 missense_variant 
 c.385C>T 
 p.Arg129Trp 
 Familial 
  
 Multiplex 
 GEN528R015a 
 missense_variant 
 c.385C>T 
 p.Arg129Trp 
 Unknown 
  
 Unknown 
 GEN528R016 
 missense_variant 
 c.290G>A 
 p.Arg97Gln 
 De novo 
  
  
 GEN528R017 
 frameshift_variant 
 c.793_796del 
 p.Arg265GlyfsTer67 
 Familial 
 Maternal 
 Multiplex 
 GEN528R018a 
 stop_gained 
 c.1462C>T 
 p.Arg488Ter 
 Familial 
 Both parents 
 Unknown 
  et al.  

Common

No Common Variants Available
Chromosome
CNV Locus
CNV Type
# of studies
Animal Model
1
Deletion-Duplication
 16
 
1
Duplication
 1
 

No Animal Model Data Available


Interactor Symbol Interactor Name Interactor Organism Entrez ID Uniprot ID Interaction Type Evidence Reference
ACCN4 Acid-sensing ion channel 4 55515 Q96FT7-4 IP; LC-MS/MS
Huttlin EL , et al. 2015
ADAM32 Disintegrin and metalloproteinase domain-containing protein 32 203102 Q8TC27 IP; LC-MS/MS
Huttlin EL , et al. 2015
ATP6V0A2 ATPase, H+ transporting, lysosomal V0 subunit a2 23545 Q9Y487 IP; LC-MS/MS
Huttlin EL , et al. 2015
BRCA1 breast cancer 1, early onset 672 P38398 Y2H
Wang J , et al. 2011
CLEC2D C-type lectin domain family 2, member D 29121 Q9UHP7 IP; LC-MS/MS
Huttlin EL , et al. 2015
FMR1 fragile X mental retardation 1 2332 G8JLE9 PAR-CLIP
Ascano M Jr , et al. 2012
IL8 interleukin 8 3576 P10145 Y2H
Wang J , et al. 2011
LNX1 ligand of numb-protein X 1, E3 ubiquitin protein ligase 84708 Q8TBB1 Y2H; bimolecular fluorescence complementation assay
Rolland T , et al. 2014
MBD1 methyl-CpG binding domain protein 1 4152 Q9UIS9 Y2H
Sakai Y , et al. 2011
MCOLN3 mucolipin 3 55283 Q8TDD5 IP; LC-MS/MS
Huttlin EL , et al. 2015
MME membrane metallo-endopeptidase 4311 P08473 IP; LC-MS/MS
Huttlin EL , et al. 2015
RANBP6 RAN binding protein 6 26953 O60518 IP; LC-MS/MS
Huttlin EL , et al. 2015
SOX6 SRY (sex determining region Y)-box 6 55553 P35712 Y2H
Wang J , et al. 2011
TMEM5 Transmembrane protein 5 10329 Q9Y2B1 IP; LC-MS/MS
Huttlin EL , et al. 2015
TMPRSS11B Transmembrane protease serine 11B 132724 Q86T26 IP; LC-MS/MS
Huttlin EL , et al. 2015
TOP3B topoisomerase (DNA) III beta 8940 O95985 HITS-CLIP
Xu D , et al. 2013
TOR1AIP2 torsin A interacting protein 2 163590 Q8NFQ8 IP; LC-MS/MS
Huttlin EL , et al. 2015
UBC ubiquitin C 7316 P63279 LC-MS/MS
Denis NJ , et al. 2007
ZNF238 zinc finger and BTB domain containing 18 10472 Q99592 Y2H
Wang J , et al. 2011

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