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Scn9a sodium voltage-gated channel alpha subunit 9 [ Rattus norvegicus (Norway rat) ]

Gene ID: 78956, updated on 9-May-2021

Summary

Official Symbol
Scn9aprovided by RGD
Official Full Name
sodium voltage-gated channel alpha subunit 9provided by RGD
Primary source
RGD:69368
See related
Ensembl:ENSRNOG00000006639
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
PN1; Scn2a; Nav1.7
Summary
voltage-dependent sodium channel alpha subunit which may be the major channel in the peripheral nervous system [RGD, Feb 2006]
Expression
Biased expression in Brain (RPKM 67.9), Adrenal (RPKM 18.0) and 3 other tissues See more
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Genomic context

See Scn9a in Genome Data Viewer
Location:
3q21
Exon count:
27
Annotation release Status Assembly Chr Location
108 current mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (51145148..51293342, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (52583953..52664209, complement)

Chromosome 3 - NC_051338.1Genomic Context describing neighboring genes Neighboring gene 60S ribosomal protein L7a-like Neighboring gene tetratricopeptide repeat domain 21B Neighboring gene sodium voltage-gated channel alpha subunit 1 Neighboring gene uncharacterized LOC108350387 Neighboring gene histone deacetylase 1-like Neighboring gene sodium voltage-gated channel alpha subunit 7 Neighboring gene similar to 40S ribosomal protein S3

Genomic regions, transcripts, and products

Expression

  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables sodium ion binding IDA
Inferred from Direct Assay
more info
PubMed 
enables voltage-gated ion channel activity IEA
Inferred from Electronic Annotation
more info
 
enables voltage-gated sodium channel activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables voltage-gated sodium channel activity IDA
Inferred from Direct Assay
more info
PubMed 
enables voltage-gated sodium channel activity ISO
Inferred from Sequence Orthology
more info
 
enables voltage-gated sodium channel activity ISS
Inferred from Sequence or Structural Similarity
more info
 
Process Evidence Code Pubs
acts_upstream_of_or_within behavioral response to pain ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within inflammatory response ISO
Inferred from Sequence Orthology
more info
 
involved_in membrane depolarization during action potential IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in neuronal action potential IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in neuronal action potential IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within post-embryonic development ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of ion transmembrane transport IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within response to toxic substance ISO
Inferred from Sequence Orthology
more info
 
involved_in rhythmic excitation NAS
Non-traceable Author Statement
more info
PubMed 
involved_in sensory perception of pain ISO
Inferred from Sequence Orthology
more info
 
involved_in sensory perception of pain ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in sodium ion transmembrane transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in sodium ion transmembrane transport ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
is_active_in axon IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in axon IDA
Inferred from Direct Assay
more info
PubMed 
located_in integral component of plasma membrane ISO
Inferred from Sequence Orthology
more info
 
part_of voltage-gated sodium channel complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of voltage-gated sodium channel complex IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
sodium channel protein type 9 subunit alpha
Names
peripheral sodium channel 1
sodium channel protein type IX subunit alpha
sodium channel, voltage-gated, type 9, alpha polypeptide
sodium channel, voltage-gated, type IX, alpha subunit
voltage-gated sodium channel subunit alpha Nav1.7

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_133289.2NP_579823.1  sodium channel protein type 9 subunit alpha

    See identical proteins and their annotated locations for NP_579823.1

    Status: VALIDATED

    Source sequence(s)
    JACYVU010000115
    UniProtKB/Swiss-Prot
    O08562
    Related
    ENSRNOP00000059170.1, ENSRNOT00000065126.3
    Conserved Domains (6) summary
    smart00015
    Location:18861908
    IQ; Calmodulin-binding motif
    cd13433
    Location:14561508
    Na_channel_gate; Inactivation gate of the voltage-gated sodium channel alpha subunits
    pfam00520
    Location:12241464
    Ion_trans; Ion transport protein
    pfam06512
    Location:9811185
    Na_trans_assoc; Sodium ion transport-associated
    pfam11933
    Location:487606
    Na_trans_cytopl; Cytoplasmic domain of voltage-gated Na+ ion channel
    pfam16905
    Location:17801835
    GPHH; Voltage-dependent L-type calcium channel, IQ-associated

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 108 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference mRatBN7.2 Primary Assembly

Genomic

  1. NC_051338.1 Reference mRatBN7.2 Primary Assembly

    Range
    51145148..51293342 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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