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Scn9a Gene Detail
Summary
  • Symbol
    Scn9a
  • Name
    sodium channel, voltage-gated, type IX, alpha
  • Synonyms
    PN1
  • Feature Type
    protein coding gene
  • IDs
    MGI:107636
    NCBI Gene: 20274
  • Gene Overview
    MyGene.info: SCN9A
  • Alliance
Location & Maps
more
  • Sequence Map
    Chr2:66480080-66634962 bp, - strand
  • From VEGA annotation of GRCm38

    Mouse Genome Browser

  • Download
    Sequence
      154883 bp   ±  kb flank

  • Genome Browsers
  • Genetic Map
    Chromosome 2, 39.13 cM
  • Mapping Data
    8 experiments
Homology
more
  • Human Ortholog
    SCN9A, sodium voltage-gated channel alpha subunit 9
  • Vertebrate Orthologs
    9
  • Human Ortholog
    SCN9A, sodium voltage-gated channel alpha subunit 9
    Orthology source: HGNC, HomoloGene
  • Synonyms
    ETHA, FEB3B, GEFSP7, HSAN2D, Nav1.7, NENA, NE-NA, PN1, SFNP
  • Links
    NCBI Gene ID: 6335
    neXtProt AC: NX_Q15858
    UniProt: Q15858

  • Chr Location
    2q24.3; chr2:166195185-166375987 (-)  GRCh38.p7

Human Diseases
more
  • Diseases
    3 with human SCN9A associations

Human Disease Mouse Models
      
IDs
IDs
IDs
Click on a disease name to see all genes associated with that disease.

Mutations,
Alleles, and
Phenotypes
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  • Phenotype Summary
    20 phenotypes from 5 alleles in 8 genetic backgrounds
    19 phenotype references
Phenotype Overview

adipose tissue
behavior/neurological
cardiovascular system
cellular
craniofacial
digestive/alimentary system
embryo
endocrine/exocrine glands
growth/size/body
hearing/vestibular/ear
hematopoietic system
homeostasis/metabolism
immune system
integument
limbs/digits/tail
liver/biliary system
mortality/aging
muscle
neoplasm
nervous system
pigmentation
renal/urinary system
reproductive system
respiratory system
skeleton
taste/olfaction
vision/eye

Click cells to view annotations.
Mice homozygous for a knock-out allele exhibit prenatal/neonatal lethality. Mice homozygous for a knock-in allele exhibit increased susceptibility to electrically induced seizures.
Gene Ontology
(GO)
Classifications
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  • All GO Annotations
  • GO References
Molecular Function

carbohydrate derivative binding
cytoskeletal protein binding
DNA binding
enzyme regulator
hydrolase
ligase
lipid binding
oxidoreductase
RNA binding
signaling receptor activity
signaling receptor binding
transcription
transferase
transporter
Biological Process

carbohydrate derivative metabolism
cell death
cell differentiation
cell proliferation
cellular component organization
establishment of localization
homeostatic process
immune system process
lipid metabolic process
nucleic acid-templated transcription
protein metabolic process
response to stimulus
signaling
system development
Cellular Component

cell projection
cytoplasmic vesicle
cytoskeleton
cytosol
endoplasmic reticulum
endosome
extracellular region
Golgi apparatus
mitochondrion
non-membrane-bounded organelle
nucleus
organelle envelope
organelle lumen
plasma membrane
synapse
vacuole
Click cells to view annotations.
Expression
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Expression Overview

early conceptus
embryo ectoderm
embryo endoderm
embryo mesoderm
embryo mesenchyme
extraembryonic component
alimentary system
auditory system
branchial arches
cardiovascular system
connective tissue
endocrine system
exocrine system
hemolymphoid system
integumental system
limbs
liver and biliary system
musculoskeletal system
nervous system
olfactory system
reproductive system
respiratory system
urinary system
visual system
Click cells to view annotations.


  • Assay Results
  • Tissues
  • cDNA Data
  • Literature Summary
  • Comparison Matrix
  • Interactions
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    Sequences &
    Gene Models
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    Representative SequencesLengthStrain/SpeciesFlank
    genomic OTTMUSG00000013103 VEGA Gene Model | MGI Sequence Detail 154883 C57BL/6J ±  kb
    transcript OTTMUST00000031622 VEGA | MGI Sequence Detail 9840 Not Applicable  
    polypeptide OTTMUSP00000014089 VEGA | MGI Sequence Detail 1984 Not Applicable  
    For the selected sequence
    Polymorphisms
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    • SNPs within 2kb
      1243 from dbSNP Build 142
    • RFLP
    Protein
    Information
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    • UniProt
      11 Sequences
    • Protein Ontology
      PR:000002104 sodium channel protein type 9 subunit alpha
    • InterPro Domains
      IPR005821 Ion transport domain
      IPR000048 IQ motif, EF-hand binding site
      IPR010526 Sodium ion transport-associated
      IPR027359 Voltage-dependent channel domain superfamily
      IPR024583 Voltage-gated Na+ ion channel, cytoplasmic domain
      IPR028803 Voltage gated sodium channel, alpha-9 subunit
      IPR001696 Voltage gated sodium channel, alpha subunit
    Molecular
    Reagents
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    • All nucleic 20
      Genomic 2
      cDNA 16
      Primer pair 1
      Other 1

      Microarray probesets 8
    Other
    Accession IDs
    less
    MGD-MRK-36210
    References
    more
    • Summaries
      All 58
      Developmental Gene Expression 5
      Gene Ontology 7
      Phenotypes 19
    • Earliest
      J:45865 D'Arcangelo G, et al., Neuronal growth factor regulation of two different sodium channel types through distinct signal transduction pathways. J Cell Biol. 1993 Aug;122(4):915-21
    • Latest
      J:258321 Kanellopoulos AH, et al., Mapping protein interactions of sodium channel NaV1.7 using epitope-tagged gene-targeted mice. EMBO J. 2018 Feb 1;37(3):427-445

    Contributing Projects:
    Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Tumor Biology (MTB), Gene Ontology (GO), MouseCyc
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    last database update
    09/11/2018
    MGI 6.12
    The Jackson Laboratory