HELP     Sign In
Search

Relevance to Autism

Whole-exome sequencing of five families in which second- and third-degree relatives were affected with autism identified a novel private missense variant (p.Cys1143Phe) in the second intracellular loop of the Nav1.7 sodium channel (encoded by the SCN9A gene) that exhibited partial loss-of-function effects. An excess of rare missense variants in the same intracellular loop was subsequently observed in a case-control variant-burden study of 1004 familial ASD cases and 1127 controls (29 in cases vs. 2 in controls; P=5.1E-07), with one of the variants (p.Met932Leu/Val991Leu) also showing functional effects (Rubinstein et al., 2016).

Molecular Function

Mediates the voltage-dependent sodium ion permeability of excitable membranes. Assuming opened or closed conformations in response to the voltage difference across the membrane, the protein forms a sodium-selective channel through which Na+ions may pass in accordance with their electrochemical gradient. Plays a role in pain mechanisms, especially in the development of inflammatory pain.

External Links

        

References

Type
Title
Type of Disorder
Associated Disorders
Author, Year
Primary
Association of rare missense variants in the second intracellular loop of NaV1.7 sodium channels with familial autism.
ASD
Support
A role of SCN9A in human epilepsies, as a cause of febrile seizures and as a potential modifier of Dravet syndrome.
Epilepsy/seizures
Febrile seizures
Support
Epilepsy/seizures
Support
Integrating de novo and inherited variants in 42
ASD
Support
Genetic and Phenotype Analysis of a Chinese Cohort of Infants and Children With Epilepsy
Epilepsy/seizures
Support
Next-generation DNA sequencing identifies novel gene variants and pathways involved in specific language impairment.
Specific language impairment
Support
Atypical benign partial epilepsy of childhood with acquired neurocognitive, lexical semantic, and autistic spectrum disorder.
Epilepsy/seizures, PDD-NOS
Support
ASD
Support
Whole-genome sequencing of quartet families with autism spectrum disorder.
ASD
Support
ASD
ADD, OCD, ID, learning disability

Rare

Variant ID
Variant Type
Allele Change
Residue Change
Inheritance Pattern
Inheritance Association
Family Type
Author, Year
 GEN861R001 
 missense_variant 
 c.3428G>T 
 p.Cys1143Phe 
 Familial 
 Unknown 
 Extended multiplex 
 GEN861R002 
 missense_variant 
 c.3523T>A 
 p.Tyr1175Asn 
 Familial 
 Unknown 
 Unknown 
 GEN861R003 
 stop_gained 
 c.3449G>A 
 p.Arg1150Gln 
 Familial 
 Unknown 
 Unknown 
 GEN861R004 
 missense_variant 
 c.3369G>T 
 p.Leu1123Phe 
 Familial 
 Unknown 
 Unknown 
 GEN861R005 
 missense_variant 
 c.3328C>T 
 p.Arg1110Trp 
 Familial 
 Unknown 
 Unknown 
 GEN861R006 
 missense_variant 
 c.3136G>A 
 p.Asp1046Asn 
 Familial 
 Unknown 
 Unknown 
 GEN861R007 
 missense_variant 
 c.3092C>T 
 p.Thr1031Ile 
 Familial 
 Unknown 
 Unknown 
 GEN861R008a 
 missense_variant 
 c.2794A>C 
 p.Met932Leu 
 Familial 
 Unknown 
 Unknown 
 GEN861R008b 
 missense_variant 
 c.2971G>T 
 p.Val991Leu 
 Familial 
 Unknown 
 Unknown 
 GEN861R009 
 missense_variant 
 c.4612C>T 
 p.Trp1538Arg 
 Familial 
 Unknown 
 Unknown 
 GEN861R010 
 missense_variant 
 c.4282G>A 
 p.Val1428Ile 
 Familial 
 Unknown 
 Unknown 
 GEN861R011 
 missense_variant 
 c.4040G>A 
 p.Arg1347Gln 
 Familial 
 Unknown 
 Unknown 
 GEN861R012 
 missense_variant 
 c.3799C>G 
 p.Leu1267Val 
 Familial 
 Unknown 
 Unknown 
 GEN861R013 
 stop_gained 
 c.2391G>A 
 p.Trp797Ter 
 Familial 
 Unknown 
 Unknown 
 GEN861R014 
 missense_variant 
 c.2271G>A 
 p.Met757Ile 
 Familial 
 Unknown 
 Unknown 
 GEN861R015 
 missense_variant 
 c.2215A>G 
 p.Ile739Val 
 Familial 
 Unknown 
 Unknown 
 GEN861R016 
 missense_variant 
 c.1940A>T 
 p.Glu647Val 
 Familial 
 Unknown 
 Unknown 
 GEN861R017 
 missense_variant 
 c.1846G>A 
 p.Gly616Arg 
 Familial 
 Unknown 
 Unknown 
 GEN861R018 
 missense_variant 
 c.1469G>A 
 p.Ser490Asn 
 Familial 
 Unknown 
 Unknown 
 GEN861R019 
 missense_variant 
 c.1115G>A 
 p.Arg372His 
 Familial 
 Unknown 
 Unknown 
 GEN861R020 
 missense_variant 
 c.684C>G 
 p.Ile228Met 
 Familial 
 Unknown 
 Unknown 
 GEN861R021 
 missense_variant 
 c.554G>A 
 p.Arg185His 
 Familial 
 Unknown 
 Unknown 
 GEN861R022 
 frameshift_variant 
 c.298_299dup 
 p.Asn101SerfsTer16 
 Familial 
 Paternal 
 Multiplex 
 GEN861R023 
 missense_variant 
 c.1964A>G 
 p.Lys655Arg 
 Familial 
 Maternal 
  
 GEN861R024 
 missense_variant 
 c.1921A>T 
 p.Asn641Tyr 
 Familial 
  
 Multi-generational 
 GEN861R025a 
 missense_variant 
 c.3799C>G 
 p.Leu1267Val 
 Familial 
  
 Simplex 
 GEN861R025b 
 missense_variant 
 c.3734A>G 
 p.Asn1245Ser 
 Familial 
  
 Simplex 
 GEN861R026 
 missense_variant 
 c.2185T>C 
 p.Tyr729His 
 Unknown 
  
  
 GEN861R027 
 stop_gained 
 c.640C>T 
 p.Arg214Ter 
 Unknown 
  
  
 GEN861R028 
 missense_variant 
 c.4226C>T 
 p.Thr1409Met 
 De novo 
  
 Multiplex 
 GEN861R029 
 synonymous_variant 
 c.129T>C 
 p.Asp43%3D 
 De novo 
  
 Simplex 
 GEN861R030 
 missense_variant 
 c.5131C>T 
 p.Pro1711Ser 
 Unknown 
  
 Simplex 
 GEN861R031 
 missense_variant 
 c.4522A>G 
 p.Ile1508Val 
 Unknown 
  
 Simplex 
 GEN861R032 
 missense_variant 
 c.2827A>C 
 p.Met943Leu 
 Unknown 
  
 Unknown 
  et al.  
 GEN861R033 
 missense_variant 
 c.4645T>C 
 p.Trp1549Arg 
 Familial 
 Paternal 
 Simplex 
  et al.  
 GEN861R034 
 missense_variant 
 c.3506A>C 
 p.Asn1169Thr 
 Familial 
  
 Simplex 
  et al.  

Common

No Common Variants Available
Chromosome
CNV Locus
CNV Type
# of studies
Animal Model
2
Duplication
 1
 
2
Duplication
 1
 
2
Deletion
 3
 
2
Deletion
 1
 
2
Deletion
 5
 
2
Deletion
 1
 
2
Deletion
 19
 
2
Deletion
 3
 
2
Deletion
 1
 

No Animal Model Data Available

 

No Interactions Available
HELP
Copyright © 2017 MindSpec, Inc.