Scn4a sodium voltage-gated channel alpha subunit 4 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Scn4aprovided by RGD
Official Full Name: sodium voltage-gated channel alpha subunit 4provided by RGD
Primary source: RGD:3636
See related: EnsemblRapid:ENSRNOG00000012134 AllianceGenome:RGD:3636
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: NCHVS; Nav1.4; microI
Summary: Predicted to enable voltage-gated sodium channel activity. Involved in choline transport; potassium ion transport; and sodium ion transmembrane transport. Is integral component of plasma membrane. Human ortholog(s) of this gene implicated in congenital myasthenic syndrome 16; hyperkalemic periodic paralysis; and paramyotonia congenita of Von Eulenburg. Orthologous to human SCN4A (sodium voltage-gated channel alpha subunit 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Restricted expression toward (RPKM 389.5) See more
Orthologs: human mouse all
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Genomic context

Location:: 10q32.1

Exon count:: 26

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	10	NC_086028.1 (91745459..91796452, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	10	NC_051345.1 (91246936..91296670, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	10	NC_005109.4 (94505026..94557803, complement)

Chromosome 10 - NC_086028.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Intramolecular distances computed from the LRET signals define a geometrical map of Nav1.4 with the bound toxins, and reveal voltage-dependent structural changes related to channel gating
Title: Mapping of voltage sensor positions in resting and inactivated mammalian sodium channels by LRET.
the role of the intracellular IFM motif of rNav1.4 (skeletal muscle isoform of the rat Na(+) channel) on the alpha-beta1 functional interaction
Title: Characterization of specific allosteric effects of the Na(+) channel β1 subunit on the Na(v)1.4 isoform.
Role of Asparagines in Coupling the Pore and Votage-Sensor Domain in Voltage-Gated Sodium Channels
Title: Important Role of Asparagines in Coupling the Pore and Votage-Sensor Domain in Voltage-Gated Sodium Channels.
The study constructs a homology model for the pore domain of the NaV1.4 channel and uses the functional data for the binding of micro-conotoxin GIIIA to NaV1.4 to validate the model.
Title: Molecular dynamics study of binding of µ-conotoxin GIIIA to the voltage-gated sodium channel Na(v)1.4.
The relationships between voltage sensors and pore conformations in an inactivation deficient Nav1.4 channel, were investigated.
Title: Multiple pore conformations driven by asynchronous movements of voltage sensors in a eukaryotic sodium channel.
Effectiveness of SkM1-based antiarrhythmic therapy critically depends on the delivery vehicle, with viral gene delivery seeming to be superior.
Title: Effect of skeletal muscle Na(+) channel delivered via a cell platform on cardiac conduction and arrhythmia induction.
SkM1 gene transfer reduces the incidence of inducible ventricular tachycardia / ventricular fibrillation.
Title: SkM1 and Cx32 improve conduction in canine myocardial infarcts yet only SkM1 is antiarrhythmic.
Anthopleurin elicited opposing effects on the gating mode, kinetics and charge immobilized during open- versus closed-state fast inactivation of Nav1.4 channels.
Title: Open- and closed-state fast inactivation in sodium channels: differential effects of a site-3 anemone toxin.
amino acid Ile-1575 in the middle of transmembrane segment 6 of domain IV in the adult rat skeletal muscle isoform of rNa(V)1.4 may act as molecular switch allowing for interaction between outer and inner vestibules
Title: A molecular switch between the outer and the inner vestibules of the voltage-gated Na+ channel.
Our results demonstrated the unique permeability of guanidine through NaV1.4 gating pores, and defined voltage-dependent and voltage-independent block by divalent and trivalent cations, respectively.
Title: Ion permeation and block of the gating pore in the voltage sensor of NaV1.4 channels with hypokalemic periodic paralysis mutations.

Submit: New GeneRIF Correction See all GeneRIFs (25)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH94568 (e-PCR)
- UniSTS:119816

Scn1a (e-PCR), detects polymorphism
- UniSTS:516634

Scn4a (e-PCR), detects polymorphism
- UniSTS:516642

Scn4a (e-PCR), detects polymorphism
- UniSTS:516643

UniSTS:224857 (e-PCR)
- UniSTS:224857

D10Wox43 (e-PCR)
- UniSTS:239256

BE099716 (e-PCR)
- UniSTS:245735

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables voltage-gated sodium channel activity	IBA Inferred from Biological aspect of Ancestor more info
enables voltage-gated sodium channel activity	IEA Inferred from Electronic Annotation more info
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
enables voltage-gated sodium channel activity	TAS Traceable Author Statement more info	PubMed

Process	Evidence Code	Pubs
involved_in choline transport	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in membrane depolarization during action potential	IBA Inferred from Biological aspect of Ancestor more info
involved_in monoatomic cation transport	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in neuronal action potential	IBA Inferred from Biological aspect of Ancestor more info
involved_in potassium ion transport	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of skeletal muscle contraction by action potential	IEA Inferred from Electronic Annotation more info
involved_in regulation of skeletal muscle contraction by action potential	ISO Inferred from Sequence Orthology more info
involved_in regulation of skeletal muscle contraction by action potential	ISS Inferred from Sequence or Structural Similarity more info
involved_in sodium ion transmembrane transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in sodium ion transmembrane transport	IDA Inferred from Direct Assay more info	PubMed
involved_in sodium ion transmembrane transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within sodium ion transmembrane transport	ISO Inferred from Sequence Orthology more info
involved_in sodium ion transmembrane transport	ISO Inferred from Sequence Orthology more info
involved_in sodium ion transmembrane transport	ISS Inferred from Sequence or Structural Similarity more info
involved_in sodium ion transport	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within sodium ion transport	ISO Inferred from Sequence Orthology more info
involved_in sodium ion transport	TAS Traceable Author Statement more info	PubMed

Component	Evidence Code	Pubs
is_active_in axon	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	ISS Inferred from Sequence or Structural Similarity more info
part_of voltage-gated sodium channel complex	IBA Inferred from Biological aspect of Ancestor more info
part_of voltage-gated sodium channel complex	IEA Inferred from Electronic Annotation more info
part_of voltage-gated sodium channel complex	ISO Inferred from Sequence Orthology more info
part_of voltage-gated sodium channel complex	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: sodium channel protein type 4 subunit alpha

Names: Sodium channel voltage-gated type IV alpha polypeptide; mu-1; skM1; sodium channel protein skeletal muscle subunit alpha; sodium channel protein type IV subunit alpha; sodium channel, voltage-gated, type 4, alpha polypeptide; sodium channel, voltage-gated, type 4, alpha subunit; sodium channel, voltage-gated, type IV, alpha polypeptide; sodium channel, voltage-gated, type IV, alpha subunit; voltage-gated sodium channel subunit alpha Nav1.4

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)

NM_013178.2 → NP_037310.2 sodium channel protein type 4 subunit alpha

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000010

UniProtKB/Swiss-Prot

O70611, P15390

UniProtKB/TrEMBL

D3ZW75

Related

ENSRNOP00000016841.4, ENSRNOT00000016841.6

Conserved Domains (3) summary

cd13433
Location:1289 → 1341

Na_channel_gate; Inactivation gate of the voltage-gated sodium channel alpha subunits

pfam00520
Location:1023 → 1297

Ion_trans; Ion transport protein

pfam06512
Location:810 → 1019

Na_trans_assoc; Sodium ion transport-associated

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086028.1 Reference GRCr8

Range

91745459..91796452 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006247559.5 → XP_006247621.1 sodium channel protein type 4 subunit alpha isoform X1

UniProtKB/Swiss-Prot

O70611, P15390

UniProtKB/TrEMBL

D3ZW75

Conserved Domains (3) summary

cd13433
Location:1289 → 1341

Na_channel_gate; Inactivation gate of the voltage-gated sodium channel alpha subunits

pfam00520
Location:1023 → 1297

Ion_trans; Ion transport protein

pfam06512
Location:810 → 1019

Na_trans_assoc; Sodium ion transport-associated