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Scn9a
Gene Detail
Symbol

Name
ID
Scn9a
sodium channel, voltage-gated, type IX, alpha
MGI:107636
Synonyms
PN1
Feature Type
protein coding gene
Genetic Map
Chromosome 2
39.13 cM
Detailed Genetic Map ± 1 cM


Mapping data(7)
Sequence Map
Chr2:66480080-66634962 bp, - strand
From VEGA annotation of GRCm38

  154883 bp   ±  kb flank

VEGA Genome Browser | Ensembl Genome Browser | UCSC Browser | NCBI Map Viewer


Mouse Genome Browser
Vertebrate
homology
HomoloGene:2237  Vertebrate Homology Class
1 human; 1 mouse; 1 rat; 1 chimpanzee; 1 rhesus macaque; 1 cattle; 1 dog; 1 chicken; 1 western clawed frog

Protein SuperFamily: voltage-gated sodium channel
Gene Tree: Scn9a

Human
homologs
Human Homolog SCN9A, sodium channel, voltage-gated, type IX, alpha subunit
NCBI Gene ID 6335
neXtProt AC  NX_Q15858
Human Synonyms  ETHA, FEB3B, GEFSP7, HSAN2D, Nav1.7, NENA, NE-NA, PN1, SFNP
Human Chr (Location)  2q24; chr2:166195185-166375987 (-)  GRCh38
Disease Associations  (5) Diseases Associated with Human SCN9A
Mutations,
alleles, and
phenotypes
All mutations/alleles(5) : Targeted(5)
Incidental mutations (data from Mutagenetix , APF )
 
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.
 
Interactions
Scn9a interacts with 380 markers (Mir1b, Mir7-1, Mir7-2, ...)
Gene Ontology
(GO)
classifications
All GO classifications: (27 annotations)
Process behavioral response to pain, inflammatory response, ...
Component integral component of membrane, membrane, ...
Function ion channel activity, sodium channel activity, ...
External Resources: FuncBase
Expression
Literature Summary: (3 records)
Data Summary: Results (94)    Tissues (53)    Images (11)    Tissue x Stage Matrix (view)
Assay TypeResults
In situ reporter (knock in) 56
RT-PCR 38
cDNA source data(14)
External Resources: Allen Institute   GEO   Expression Atlas
Molecular
reagents
All nucleic(18) Genomic(1) cDNA(15) Primer pair(1) Other(1)
Microarray probesets(8)
Other database
links
VEGA Gene ModelOTTMUSG00000013103 (Evidence)
Ensembl Gene ModelENSMUSG00000075316 (Evidence)
Entrez Gene20274 (Evidence)
UniGene440889
DFCITC1592176, TC1650272, TC1672541
DoTSDT.91333438, DT.91295122, DT.40174597
NIA Mouse Gene IndexU222184
Consensus CDS ProjectCCDS38132.1, CCDS71063.1
International Mouse Knockout Project StatusScn9a
Sequences
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 sequences
All sequences(73) RefSeq(16) UniProt(17)
Polymorphisms
RFLP(4) : SNPs within 2kb(1246 from dbSNP Build 137)    SNPs within 2kb including multiple locations(1252)
Protein-related
information
ResourceIDDescription
InterPro IPR024583 Domain of unknown function DUF3451
InterPro IPR005821 Ion transport domain
InterPro IPR000048 IQ motif, EF-hand binding site
InterPro IPR010526 Sodium ion transport-associated
InterPro IPR027359 Voltage-dependent potassium channel, four helix bundle domain
InterPro IPR001696 Voltage gated sodium channel, alpha subunit
Protein Ontology PR:000002104 sodium channel protein type 9 subunit alpha
References
(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:208794 Minett MS, et al., Pain without nociceptors? Nav1.7-independent pain mechanisms. Cell Rep. 2014 Jan 30;6(2):301-12
All references(45)
Other
accession IDs
MGD-MRK-36210

Contributing Projects:
Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Tumor Biology (MTB), Gene Ontology (GO), MouseCyc
Citing These Resources
Funding Information
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last database update
12/09/2014
MGI 5.20
The Jackson Laboratory