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Relevance to Autism

LMTK3 was identified as an ASD candidate gene based on having a p-value < 0.001 following DeNovoWEST analysis of de novo variants in 16,877 ASD trios from the Simons Simplex Collection, the Autism Sequencing Consortium, the MSSNG cohort, and the SPARK cohort in Zhou et al., 2022; among the de novo variants observed in ASD cases in this analysis were two de novo loss-of-function variants and two damaging de novo missense variants (defined as having a REVEL score > 0.5). Inoue et al., 2014 demonstrated that Lmtk3-knockout mice exhibited behavioral abnormalities (locomotor hyperactivity, reduced anxiety, and decreased depression-like behavior) and impaired endocytotic trafficking of NMDA receptors, while Montrose et al., 2019 demonstrated that Lmtk3-knockout mice displayed behavioral abnormalities (including hypersociability, PPI defects, and impaired cognitive function), severely impaired long-term potentiation induction, and abnormal GluA1 trafficking after AMPA stimulation.

Molecular Function

Predicted to enable protein kinase activity. Predicted to be involved in protein phosphorylation. Predicted to be located in Golgi membrane; axon; and dendrite. Predicted to be integral component of membrane. Involved in endocytic trafficking of N-methyl-D-aspartate receptors (NMDAR) in neurons.

External Links

        

References

Type
Title
Type of Disorder
Associated Disorders
Author, Year
Primary
Integrating de novo and inherited variants in 42
ASD
Support
Whole genome sequencing resource identifies 18 new candidate genes for autism spectrum disorder
ASD
Support
The contribution of de novo coding mutations to autism spectrum disorder
ASD
Support
LMTK3 deficiency causes pronounced locomotor hyperactivity and impairs endocytic trafficking
Support
Lmtk3-KO Mice Display a Range of Behavioral Abnormalities and Have an Impairment in GluA1 Trafficking

Rare

Variant ID
Variant Type
Allele Change
Residue Change
Inheritance Pattern
Inheritance Association
Family Type
Author, Year
 GEN1357R001 
 stop_gained 
 c.915_916insTGACCTG 
 p.Asp306Ter 
 De novo 
  
 Simplex 
 GEN1357R002 
 frameshift_variant 
 c.1737del 
 p.Glu579AspfsTer58 
 De novo 
  
 Simplex 
 GEN1357R003 
 missense_variant 
 c.1519G>C 
 p.Glu507Gln 
 De novo 
  
 Simplex 
 GEN1357R004 
 missense_variant 
 c.854A>G 
 p.His285Arg 
 De novo 
  
 Simplex 
 GEN1357R005 
 missense_variant 
 c.3560C>G 
 p.Pro1187Arg 
 De novo 
  
  
 GEN1357R006 
 missense_variant 
 c.1265G>A 
 p.Arg422Gln 
 De novo 
  
  
 GEN1357R007 
 missense_variant 
 c.848T>C 
 p.Leu283Pro 
 De novo 
  
  
 GEN1357R008 
 frameshift_variant 
 c.2637_2638del 
 p.Lys879AsnfsTer689 
 Familial 
 Maternal 
 Multiplex 

Common

No Common Variants Available
Chromosome
CNV Locus
CNV Type
# of studies
Animal Model
19
Duplication
 2
 
19
Duplication
 1
 
19
Deletion-Duplication
 19
 

No Animal Model Data Available

No PIN Data Available
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