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Relevance to Autism

Li et al., 2023 determined that a de novo coding-synonymous variant in the NPTN gene originally identified in an ASD proband from the Autism Sequencing Consortium in Satterstrom et al., 2020 was a non-canonical splicing variant; subsequent functional analysis by minigene splicing assays demonstrated that this variant resulted in loss of 180 base pairs from exon 6 of this gene. De novo missense variants have also been identified in two ASD probands from the SPARK cohort (Trost et al., 2022).

Molecular Function

This gene encodes a type I transmembrane protein belonging to the Ig superfamily. The protein is believed to be involved in cell-cell interactions or cell-substrate interactions.

External Links

        

References

Type
Title
Type of Disorder
Associated Disorders
Author, Year
Primary
Prioritizing de novo potential non-canonical splicing variants in neurodevelopmental disorders
ASD
Support
Genomic architecture of autism from comprehensive whole-genome sequence annotation
ASD
Support
Large-Scale Exome Sequencing Study Implicates Both Developmental and Functional Changes in the Neurobiology of Autism
ASD

Rare

Variant ID
Variant Type
Allele Change
Residue Change
Inheritance Pattern
Inheritance Association
Family Type
Author, Year
 GEN1431R001 
 synonymous_variant 
 c.936C>T 
 p.Gly312= 
 De novo 
  
  
 GEN1431R002 
 missense_variant 
 c.1114G>A 
 p.Asp372Asn 
 De novo 
  
  
 GEN1431R003 
 missense_variant 
 c.139G>C 
 p.Ala47Pro 
 De novo 
  
  

Common

No Common Variants Available
Chromosome
CNV Locus
CNV Type
# of studies
Animal Model
15
Duplication
 89
  construct
15
Duplication
 1
 
15
Deletion-Duplication
 13
 
15
Deletion
 9
 
15
Deletion
 3
 
15
Deletion
 1
 
15
Duplication
 2
 
15
Deletion-Duplication
 13
 
15
Deletion
 12
 

No Animal Model Data Available

 

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