Summary Statistics:
ASD Reports: 18
Recent Reports: 1
Annotated variants: 26
Associated CNVs: 8
Evidence score: 3
Gene Score: 3
Relevance to Autism
An analysis of 2,377 families from the Simons Simplex Collection revealed statistically significant over-transmission of private likely gene-disruptive variants in the LZTR1 gene to ASD probands (6 inherited CNVs/SNVs in probands compared to none in unaffected siblings; inherited p-value=0.03) (Krumm et al., 2015).
Molecular Function
Initially described as a putative transcriptional regulator based on weak homology to members of the basic leucine zipper-like family, the protein encoded by the LZTR1 gene subsequently has been shown to localize exclusively to the Golgi network where it may help stabilize the Gogli complex. Deletion of this gene may be associated with DiGeorge syndrome. Mutations in the LZTR1 gene are responsible for autosomal-dominant and autosomal-recessive forms of Noonan syndrome (Yamamoto et al., 2015; Johnston et al., 2018; Pagnamenta et al., 2019).
References
Primary
Excess of rare, inherited truncating mutations in autism.
ASD
Support
Rare variants in SOS2 and LZTR1 are associated with Noonan syndrome.
Noonan syndrome 10
Support
Inherited and De Novo Genetic Risk for Autism Impacts Shared Networks.
ASD
Support
Integrating de novo and inherited variants in 42
ASD
Support
The contribution of de novo coding mutations to autism spectrum disorder
ASD
Support
Delineation of dominant and recessive forms of LZTR1-associated Noonan syndrome.
Noonan syndrome 2, Noonan syndrome 10
Support
Impaired Neurodevelopmental Genes in Slovenian Autistic Children Elucidate the Comorbidity of Autism With Other Developmental Disorders
DD
Autistic behavior
Support
Inherited and multiple de novo mutations in autism/developmental delay risk genes suggest a multifactorial model.
ASD
ID
Support
Assessing Utility of Clinical Exome Sequencing in Diagnosis of Rare Idiopathic Neurodevelopmental Disorders in Indian Population
Noonan syndrome 10
Support
Genome sequencing identifies multiple deleterious variants in autism patients with more severe phenotypes.
ASD
Support
Prevalence and phenotypic impact of rare potentially damaging variants in autism spectrum disorder
ASD
Support
Autosomal recessive Noonan syndrome associated with biallelic LZTR1 variants.
Noonan syndrome 2
Support
Genetic and phenotypic analysis of 101 patients with developmental delay or intellectual disability using whole-exome sequencing
DD
Support
Integrative Analyses of De Novo Mutations Provide Deeper Biological Insights into Autism Spectrum Disorder.
ASD
Support
Exome sequencing of 457 autism families recruited online provides evidence for autism risk genes
ASD
Recent Recommendation
An interactome perturbation framework prioritizes damaging missense mutations for developmental disorders.
GEN730R001
copy_number_gain
Familial
Maternal
Simplex
GEN730R002
stop_gained
c.1018C>T
p.Arg340Ter
Familial
Maternal
Simplex
GEN730R003
frameshift_variant
c.1394_1395insT
p.Arg466AlafsTer203
Familial
Paternal
Simplex
GEN730R004
splice_site_variant
c.263+1G>A
Familial
Maternal
Simplex
GEN730R005
stop_gained
c.180C>A
p.Cys60Ter
Familial
Paternal
Simplex
GEN730R006
frameshift_variant
c.2267dup
p.Gln757AlafsTer25
Familial
Maternal
Simplex
GEN730R007
missense_variant
c.1988G>T
p.Gly663Val
De novo
Simplex
GEN730R008
missense_variant
c.850C>T
p.Arg284Cys
De novo
Simplex
GEN730R009
frameshift_variant
c.774del
p.Phe258LeufsTer93
Familial
Maternal
Simplex
GEN730R010
frameshift_variant
c.2106del
p.Asp703MetfsTer4
Familial
Maternal
Simplex
GEN730R011
frameshift_variant
c.393dup
p.Val132CysfsTer14
Familial
Maternal
Simplex
GEN730R012
missense_variant
c.548A>T
p.Tyr183Phe
Familial
Paternal
Simplex
GEN730R013
missense_variant
c.2471T>C
p.Leu824Pro
Familial
Paternal
Simplex
GEN730R014
missense_variant
c.2306C>T
p.Thr769Met
Familial
Maternal
Simplex
GEN730R015
splice_site_variant
c.1615+2T>C
Familial
Maternal
Multiplex
GEN730R016
stop_gained
c.1549G>T
p.Glu517Ter
De novo
GEN730R017
missense_variant
c.2062C>T
p.Arg688Cys
De novo
Simplex
GEN730R018
stop_gained
c.365C>A
p.Ser122Ter
Unknown
GEN730R019
missense_variant
c.1904C>T
p.Pro635Leu
De novo
Simplex
GEN730R020a
missense_variant
c.451G>A
p.Asp151Asn
De novo
GEN730R020b
stop_gained
c.1672C>T
p.Gln558Ter
Familial
Maternal
GEN730R021
missense_variant
c.433A>G
p.Asn145Asp
De novo
GEN730R022
synonymous_variant
c.603C>T
p.Asp201%3D
De novo
Simplex
GEN730R023
missense_variant
c.850C>T
p.Arg284Cys
De novo
GEN730R024
missense_variant
c.509G>A
p.Arg170Gln
Familial
Paternal
GEN730R025
frameshift_variant
c.2487dup
p.Asp830ArgfsTer21
Familial
Maternal
Simplex
No Common Variants Available
22
Deletion-Duplication
111
22
Deletion-Duplication
14
No Animal Model Data Available
No Interactions Available