Scn11a sodium voltage-gated channel alpha subunit 11 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Scn11aprovided by RGD
Official Full Name: sodium voltage-gated channel alpha subunit 11provided by RGD
Primary source: RGD:3630
See related: EnsemblRapid:ENSRNOG00000032884 AllianceGenome:RGD:3630
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: NaN
Summary: Predicted to enable voltage-gated sodium channel activity. Predicted to be involved in several processes, including neuronal action potential; regulation of sensory perception of pain; and sodium ion transmembrane transport. Predicted to act upstream of or within sodium ion transport. Located in axon. Is active in glutamatergic synapse. Is integral component of presynaptic membrane. Human ortholog(s) of this gene implicated in familial episodic pain syndrome 3 and hereditary sensory and autonomic neuropathy type 7. Orthologous to human SCN11A (sodium voltage-gated channel alpha subunit 11). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 4.9), Spleen (RPKM 4.2) and 3 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 8q32

Exon count:: 27

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	8	NC_086026.1 (128374441..128444718, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	8	NC_051343.1 (119495550..119567044, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	8	NC_005107.4 (128450793..128527510, complement)

Chromosome 8 - NC_086026.1 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?

the protein expressions of voltage-gated sodium channels (VGSCs) alpha-subunits Nav1.3, Nav1.7 and Nav1.9 increased in dorsal root ganglionof diabetic rats and were normalized by TIIA application.
Title: Tanshinone IIA Improves Painful Diabetic Neuropathy by Suppressing the Expression and Activity of Voltage-Gated Sodium Channel in Rat Dorsal Root Ganglia.
The mRNA expression of the SCN11a gene (which encodes the Nav1.9 channel) in mPFC tissue was significantly higher in young rats than in late adolescent and adult rats.
Title: Age-dependent expression of Nav1.9 channels in medial prefrontal cortex pyramidal neurons in rats.
We conclude that Nav1.9 acts as a subthreshold amplifier in cold-sensitive nociceptive neurons and is required for the perception of cold pain under normal and pathological conditions.
Title: The Nav1.9 channel is a key determinant of cold pain sensation and cold allodynia.
verapamil and lidocaine significantly reduce the degree of ischemia-reperfusion injury due to effects to TRPM and Nav1.9 genes
Title: Effect of verapamil and lidocaine on TRPM and NaV1.9 gene expressions in renal ischemia-reperfusion.
The effects of insecticides and pyridostimine bromide on the exprssion of Nav1.9 in muscle and vascular nociceptors is reported.
Title: Persistent modification of Nav1.9 following chronic exposure to insecticides and pyridostigmine bromide.
These results suggest that Nav1.9 may contribute to the firing pattern of MSC of the SON, and that careful assessment of hypothalamic function be performed as NaV1.9 blocking agents are studied as potential pain therapies.
Title: Nav1.9 expression in magnocellular neurosecretory cells of supraoptic nucleus.
Upregulation of NaV1.9 in small-sized dorsal root ganglion neurons contributes to melittin-induced heat hypersensitivity.
Title: Activation of tetrodotoxin-resistant sodium channel NaV1.9 in rat primary sensory neurons contributes to melittin-induced pain behavior.
The up-regulation of mRNA and protein levels of Nav1.9 suggested it's potential involvement in the development and maintenance of bone cancer pain.
Title: Increased expression of tetrodotoxin-resistant sodium channels Nav1.8 and Nav1.9 within dorsal root ganglia in a rat model of bone cancer pain.
The pain caused by molar extraction is related to the up-regulation of expressions of sodium channels protein Nav1.8 and Nav1.9 mRNA.
Title: [Nav1.8 and Nav1.9 mRNA expression in rat trigeminal ganglion at different interval after molar extraction].
trigeminal ganglion sodium channel transcripts mature in steps that are specific for each transcript in development
Title: Differential expression of neuronal voltage-gated sodium channel mRNAs during the development of the rat trigeminal ganglion.

Submit: New GeneRIF Correction See all GeneRIFs (17)

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables voltage-gated sodium channel activity	IBA Inferred from Biological aspect of Ancestor more info
enables voltage-gated sodium channel activity	IDA Inferred from Direct Assay more info	PubMed
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

Process	Evidence Code	Pubs
involved_in G protein-coupled receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in action potential	ISO Inferred from Sequence Orthology more info
involved_in action potential initiation	IEA Inferred from Electronic Annotation more info
involved_in action potential initiation	ISO Inferred from Sequence Orthology more info
involved_in acute inflammatory response	IEA Inferred from Electronic Annotation more info
involved_in acute inflammatory response	ISO Inferred from Sequence Orthology more info
involved_in artery development	IEA Inferred from Electronic Annotation more info
involved_in artery development	ISO Inferred from Sequence Orthology more info
involved_in axonogenesis	IEA Inferred from Electronic Annotation more info
involved_in axonogenesis	ISO Inferred from Sequence Orthology more info
involved_in behavioral response to acetic acid induced pain	IEA Inferred from Electronic Annotation more info
involved_in behavioral response to acetic acid induced pain	ISO Inferred from Sequence Orthology more info
involved_in behavioral response to formalin induced pain	IEA Inferred from Electronic Annotation more info
involved_in behavioral response to formalin induced pain	ISO Inferred from Sequence Orthology more info
involved_in behavioral response to pain	ISO Inferred from Sequence Orthology more info
involved_in cAMP/PKA signal transduction	IEA Inferred from Electronic Annotation more info
involved_in calcitonin gene-related peptide receptor signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in calcitonin gene-related peptide receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in calcium ion transmembrane transport	IEA Inferred from Electronic Annotation more info
involved_in calcium ion transmembrane transport	ISO Inferred from Sequence Orthology more info
involved_in cell motility	IEA Inferred from Electronic Annotation more info
involved_in cell motility	ISO Inferred from Sequence Orthology more info
involved_in cellular response to cold	IEA Inferred from Electronic Annotation more info
involved_in cellular response to cold	ISO Inferred from Sequence Orthology more info
involved_in chemosensory behavior	ISO Inferred from Sequence Orthology more info
involved_in chronic inflammatory response	IEA Inferred from Electronic Annotation more info
involved_in chronic inflammatory response	ISO Inferred from Sequence Orthology more info
involved_in circadian rhythm	IEA Inferred from Electronic Annotation more info
involved_in circadian rhythm	ISO Inferred from Sequence Orthology more info
involved_in detection of mechanical stimulus involved in sensory perception	ISO Inferred from Sequence Orthology more info
involved_in detection of mechanical stimulus involved in sensory perception of pain	IEA Inferred from Electronic Annotation more info
involved_in detection of mechanical stimulus involved in sensory perception of pain	ISO Inferred from Sequence Orthology more info
involved_in detection of temperature stimulus involved in sensory perception of pain	IEA Inferred from Electronic Annotation more info
involved_in detection of temperature stimulus involved in sensory perception of pain	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within establishment of localization in cell	ISO Inferred from Sequence Orthology more info
involved_in inflammatory response	ISO Inferred from Sequence Orthology more info
involved_in mast cell degranulation	IEA Inferred from Electronic Annotation more info
involved_in mast cell degranulation	ISO Inferred from Sequence Orthology more info
involved_in membrane depolarization during action potential	IBA Inferred from Biological aspect of Ancestor more info
involved_in membrane depolarization during action potential	IDA Inferred from Direct Assay more info	PubMed
involved_in membrane depolarization during action potential	IEA Inferred from Electronic Annotation more info
involved_in membrane depolarization during action potential	ISO Inferred from Sequence Orthology more info
involved_in micturition	IEA Inferred from Electronic Annotation more info
involved_in micturition	ISO Inferred from Sequence Orthology more info
involved_in neuronal action potential	IBA Inferred from Biological aspect of Ancestor more info
involved_in neuronal action potential	IEA Inferred from Electronic Annotation more info
involved_in neuronal action potential	ISO Inferred from Sequence Orthology more info
involved_in optic nerve development	IEP Inferred from Expression Pattern more info	PubMed
involved_in protein kinase A signaling	ISO Inferred from Sequence Orthology more info
involved_in reflex	IEA Inferred from Electronic Annotation more info
involved_in reflex	ISO Inferred from Sequence Orthology more info
involved_in regulation of membrane potential	ISO Inferred from Sequence Orthology more info
involved_in response to auditory stimulus	IEA Inferred from Electronic Annotation more info
involved_in response to auditory stimulus	ISO Inferred from Sequence Orthology more info
involved_in response to cold	ISO Inferred from Sequence Orthology more info
involved_in response to heat	IEA Inferred from Electronic Annotation more info
involved_in response to heat	ISO Inferred from Sequence Orthology more info
involved_in response to high light intensity	IEA Inferred from Electronic Annotation more info
involved_in response to high light intensity	ISO Inferred from Sequence Orthology more info
involved_in response to nitric oxide	IEA Inferred from Electronic Annotation more info
involved_in response to nitric oxide	ISO Inferred from Sequence Orthology more info
involved_in response to pain	ISO Inferred from Sequence Orthology more info
involved_in response to prostaglandin E	IEA Inferred from Electronic Annotation more info
involved_in response to prostaglandin E	ISO Inferred from Sequence Orthology more info
involved_in response to toxic substance	IEA Inferred from Electronic Annotation more info
involved_in response to toxic substance	ISO Inferred from Sequence Orthology more info
involved_in response to xenobiotic stimulus	IEA Inferred from Electronic Annotation more info
involved_in response to xenobiotic stimulus	ISO Inferred from Sequence Orthology more info
involved_in sensory perception of itch	IEA Inferred from Electronic Annotation more info
involved_in sensory perception of itch	ISO Inferred from Sequence Orthology more info
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 skeletal muscle organ development	IEA Inferred from Electronic Annotation more info
involved_in skeletal muscle organ development	ISO Inferred from Sequence Orthology more info
involved_in small intestine smooth muscle contraction	IEA Inferred from Electronic Annotation more info
involved_in small intestine smooth muscle contraction	ISO Inferred from Sequence Orthology more info
involved_in sodium ion transmembrane transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in sodium ion transmembrane transport	IEA Inferred from Electronic Annotation more info
involved_in sodium ion transmembrane transport	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within sodium ion transport	ISO Inferred from Sequence Orthology more info
involved_in thermosensory behavior	IEA Inferred from Electronic Annotation more info
involved_in thermosensory behavior	ISO Inferred from Sequence Orthology more info
involved_in thigmotaxis	IEA Inferred from Electronic Annotation more info
involved_in thigmotaxis	ISO Inferred from Sequence Orthology more info
involved_in transmission of nerve impulse	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in C-fiber	IEA Inferred from Electronic Annotation more info
located_in C-fiber	ISO Inferred from Sequence Orthology more info
is_active_in axon	IBA Inferred from Biological aspect of Ancestor more info
located_in axon	IDA Inferred from Direct Assay more info	PubMed
is_active_in axon	ISO Inferred from Sequence Orthology more info
located_in axon	ISO Inferred from Sequence Orthology more info
located_in axonal growth cone	IEA Inferred from Electronic Annotation more info
is_active_in axonal growth cone	ISO Inferred from Sequence Orthology more info
is_active_in cell body	ISO Inferred from Sequence Orthology more info
is_active_in glutamatergic synapse	IDA Inferred from Direct Assay more info	PubMed
located_in neuronal cell body	IEA Inferred from Electronic Annotation more info
is_active_in neuronal cell body	ISO Inferred from Sequence Orthology more info
is_active_in plasma membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
is_active_in presynaptic membrane	IDA Inferred from Direct Assay more info	PubMed
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

General protein information

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Preferred Names: sodium channel protein type 11 subunit alpha

Names: sensory neuron sodium channel 2; sodium channel protein type XI subunit alpha; sodium channel, voltage-gated, type 11, alpha polypeptide; sodium channel, voltage-gated, type XI, alpha polypeptide; sodium channel, voltage-gated, type XI, alpha subunit; sodium channel, voltage-gated, type11, alpha polypeptide; voltage-gated sodium channel NAV1.9b; voltage-gated sodium channel subunit alpha Nav1.9

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_019265.2 → NP_062138.1 sodium channel protein type 11 subunit alpha

See identical proteins and their annotated locations for NP_062138.1

Status: PROVISIONAL

Source sequence(s)

AF059030

UniProtKB/Swiss-Prot

O88457

UniProtKB/TrEMBL

A6I3X8

Conserved Domains (3) summary

cd13433
Location:1289 → 1341

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

pfam00520
Location:1051 → 1297

Ion_trans; Ion transport protein

pfam06512
Location:812 → 1029

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_086026.1 Reference GRCr8

Range

128374441..128444718 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039080974.2 → XP_038936902.1 sodium channel protein type 11 subunit alpha isoform X1

UniProtKB/TrEMBL

A6I3X8

Related

ENSRNOP00000033224.4, ENSRNOT00000034025.5

Conserved Domains (3) summary

cd13433
Location:1289 → 1341

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

pfam00520
Location:1033 → 1297

Ion_trans; Ion transport protein

pfam06512
Location:812 → 1029

Na_trans_assoc; Sodium ion transport-associated