Chrna4 cholinergic receptor nicotinic alpha 4 subunit [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Chrna4provided by RGD
Official Full Name: cholinergic receptor nicotinic alpha 4 subunitprovided by RGD
Primary source: RGD:2346
See related: Ensembl:ENSRNOG00000011202 AllianceGenome:RGD:2346
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: NARAC
Summary: Enables acetylcholine binding activity; acetylcholine-gated cation-selective channel activity; and quaternary ammonium group binding activity. Contributes to heterocyclic compound binding activity. Involved in cholinergic synaptic transmission; regulation of acetylcholine-gated cation channel activity; and response to acetylcholine. Located in dendrite; membrane; and neuronal cell body. Part of acetylcholine-gated channel complex. Is active in cholinergic synapse. Is integral component of postsynaptic specialization membrane and integral component of presynaptic membrane. Biomarker of congestive heart failure. Human ortholog(s) of this gene implicated in autosomal dominant nocturnal frontal lobe epilepsy 1 and nicotine dependence. Orthologous to human CHRNA4 (cholinergic receptor nicotinic alpha 4 subunit). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Brain (RPKM 43.2), Adrenal (RPKM 9.4) and 4 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 3q43

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (188506802..188535558, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (168136246..168157839, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (176533182..176547965, complement)

Chromosome 3 - NC_086021.1 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
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?

Decreased expression of Chrna4 by METTL3-mediated m6A modification participates in BPA-induced spatial memory deficit.
Title: Decreased expression of Chrna4 by METTL3-mediated m6A modification participates in BPA-induced spatial memory deficit.
Hippocampal asymmetry and regional dispersal of nAChRs alpha4 and alpha7 subtypes in the adult rat.
Title: Hippocampal asymmetry and regional dispersal of nAChRs alpha4 and alpha7 subtypes in the adult rat.
Pathogenesis and pathophysiology of autosomal dominant sleep-related hypermotor epilepsy with S284L-mutant alpha4 subunit of nicotinic ACh receptor.
Title: Pathogenesis and pathophysiology of autosomal dominant sleep-related hypermotor epilepsy with S284L-mutant α4 subunit of nicotinic ACh receptor.
Lovastatin Differentially Regulates alpha7 and alpha4 Neuronal Nicotinic Acetylcholine Receptor Levels in Rat Hippocampal Neurons.
Title: Lovastatin Differentially Regulates α7 and α4 Neuronal Nicotinic Acetylcholine Receptor Levels in Rat Hippocampal Neurons.
the mechanism of interaction between [Upsilon4E]GID and the agonist binding pockets of the alpha4beta2 and the halpha7 receptors, and to estimate their relative binding affinities, was investigated.
Title: Molecular simulation study of the unbinding of α-conotoxin [ϒ4E]GID at the α7 and α4β2 neuronal nicotinic acetylcholine receptors.
findings indicate that alterations in expression of the alpha4beta2 subtype of nAChR may be involved in the molecular mechanism(s) underlying the cognitive deficit associated with vascular dementia
Title: Inhibited Expression of α(4)β(2) Nicotinic Acetylcholine Receptor in Blood Leukocytes of Chinese Patients with Vascular Dementia and in Blood Leukocytes as Well as the Hippocampus of Brain from Ischemic Rats.
These results demonstrate that nicotine modulates gamma oscillations via a7 and a4b2 nAChR as well as NMDA activation, suggesting that nAChR activation may have a therapeutic role for the clinical disorder such as schizophrenia
Title: The modulation of nicotinic acetylcholine receptors on the neuronal network oscillations in rat hippocampal CA3 area.
maternal stress alters the development of hippocampal alpha4 beta2 (alpha4beta2 *) and alpha7 (alpha7 *) nicotinic receptor levels in adult offspring.
Title: The effects of prenatal stress on alpha4 beta2 and alpha7 hippocampal nicotinic acetylcholine receptor levels in adult offspring.
Data indicate that compounds showed favorable subtype selectivity for beta2*-nAChRs over beta4*-nAChRs.
Title: Chemistry, pharmacology, and behavioral studies identify chiral cyclopropanes as selective α4β2-nicotinic acetylcholine receptor partial agonists exhibiting an antidepressant profile. Part II.
Artificial food colors and additives led to a decrease in the expressions of nAChR alpha4 subunits in male rats.
Title: Effects of maternally exposed coloring food additives on receptor expressions related to learning and memory in rats.

Submit: New GeneRIF Correction See all GeneRIFs (46)

General gene information

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Markers

D2Ucl29 (e-PCR), detects polymorphism
- UniSTS:142357

RH94428 (e-PCR)
- UniSTS:119676

RH94555 (e-PCR)
- UniSTS:119803

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables acetylcholine binding	IDA Inferred from Direct Assay more info	PubMed
contributes_to acetylcholine receptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables acetylcholine receptor activity	IEA Inferred from Electronic Annotation more info
contributes_to acetylcholine receptor activity	ISO Inferred from Sequence Orthology more info
enables acetylcholine receptor activity	ISO Inferred from Sequence Orthology more info
enables acetylcholine-gated monoatomic cation-selective channel activity	IBA Inferred from Biological aspect of Ancestor more info
enables acetylcholine-gated monoatomic cation-selective channel activity	IC Inferred by Curator more info	PubMed
enables acetylcholine-gated monoatomic cation-selective channel activity	IDA Inferred from Direct Assay more info	PubMed
enables acetylcholine-gated monoatomic cation-selective channel activity	IEA Inferred from Electronic Annotation more info
enables acetylcholine-gated monoatomic cation-selective channel activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables acetylcholine-gated monoatomic cation-selective channel activity	ISO Inferred from Sequence Orthology more info
contributes_to heterocyclic compound binding	IDA Inferred from Direct Assay more info	PubMed
enables heterocyclic compound binding	IDA Inferred from Direct Assay more info	PubMed
contributes_to heterocyclic compound binding	IPI Inferred from Physical Interaction more info	PubMed
enables monoatomic ion channel activity	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein-containing complex binding	IDA Inferred from Direct Assay more info	PubMed
enables quaternary ammonium group binding	IDA Inferred from Direct Assay more info	PubMed
enables transmitter-gated monoatomic ion channel activity involved in regulation of postsynaptic membrane potential	EXP Inferred from Experiment more info	PubMed
enables transmitter-gated monoatomic ion channel activity involved in regulation of postsynaptic membrane potential	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within B cell activation	ISO Inferred from Sequence Orthology more info
involved_in DNA repair	IEA Inferred from Electronic Annotation more info
involved_in DNA repair	ISO Inferred from Sequence Orthology more info
involved_in acetylcholine receptor signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within acetylcholine receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in behavioral response to nicotine	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within behavioral response to nicotine	ISO Inferred from Sequence Orthology more info
involved_in behavioral response to nicotine	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within calcium ion transport	ISO Inferred from Sequence Orthology more info
involved_in cognition	IEA Inferred from Electronic Annotation more info
involved_in cognition	ISO Inferred from Sequence Orthology more info
involved_in excitatory postsynaptic potential	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within exploration behavior	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within inhibitory postsynaptic potential	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within locomotory behavior	ISO Inferred from Sequence Orthology more info
involved_in membrane depolarization	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within membrane depolarization	ISO Inferred from Sequence Orthology more info
involved_in monoatomic ion transmembrane transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in monoatomic ion transmembrane transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within nervous system process	ISO Inferred from Sequence Orthology more info
involved_in nervous system process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neuronal action potential	ISO Inferred from Sequence Orthology more info
involved_in presynaptic modulation of chemical synaptic transmission	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of dopamine secretion	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of membrane potential	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within respiratory gaseous exchange by respiratory system	ISO Inferred from Sequence Orthology more info
involved_in response to acetylcholine	IDA Inferred from Direct Assay more info	PubMed
involved_in response to hypoxia	IEA Inferred from Electronic Annotation more info
involved_in response to hypoxia	ISO Inferred from Sequence Orthology more info
involved_in response to nicotine	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within response to nicotine	ISO Inferred from Sequence Orthology more info
involved_in response to nicotine	ISO Inferred from Sequence Orthology more info
involved_in response to oxidative stress	IEA Inferred from Electronic Annotation more info
involved_in response to oxidative stress	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within sensory perception of pain	ISO Inferred from Sequence Orthology more info
involved_in signal transduction	ISO Inferred from Sequence Orthology more info
involved_in synaptic transmission, cholinergic	IBA Inferred from Biological aspect of Ancestor more info
involved_in synaptic transmission, cholinergic	IEA Inferred from Electronic Annotation more info
involved_in synaptic transmission, cholinergic	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within synaptic transmission, cholinergic	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of acetylcholine-gated channel complex	IBA Inferred from Biological aspect of Ancestor more info
part_of acetylcholine-gated channel complex	IDA Inferred from Direct Assay more info	PubMed
part_of acetylcholine-gated channel complex	IEA Inferred from Electronic Annotation more info
part_of acetylcholine-gated channel complex	ISO Inferred from Sequence Orthology more info
part_of acetylcholine-gated channel complex	TAS Traceable Author Statement more info	PubMed
is_active_in cholinergic synapse	EXP Inferred from Experiment more info	PubMed
is_active_in cholinergic synapse	IDA Inferred from Direct Assay more info	PubMed
located_in dendrite	IDA Inferred from Direct Assay more info	PubMed
is_active_in dopaminergic synapse	ISO Inferred from Sequence Orthology more info
located_in external side of plasma membrane	ISO Inferred from Sequence Orthology more info
located_in membrane	ISO Inferred from Sequence Orthology more info
is_active_in neuron projection	IBA Inferred from Biological aspect of Ancestor more info
located_in neuronal cell body	IDA Inferred from Direct Assay more info	PubMed
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in postsynaptic membrane	IEA Inferred from Electronic Annotation more info
is_active_in postsynaptic specialization membrane	IDA Inferred from Direct Assay more info	PubMed
located_in presynapse	ISO Inferred from Sequence Orthology more info
is_active_in presynaptic membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in presynaptic membrane	ISO Inferred from Sequence Orthology more info
part_of protein-containing complex	IDA Inferred from Direct Assay more info	PubMed
is_active_in synapse	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: neuronal acetylcholine receptor subunit alpha-4

Names: Neuronal nicotinic acetylcholine receptor alpha 4 subunit; cholinergic receptor, nicotinic, alpha 4 (neuronal); cholinergic receptor, nicotinic, alpha polypeptide 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_024354.3 → NP_077330.2 neuronal acetylcholine receptor subunit alpha-4 precursor

Status: VALIDATED

Source sequence(s)

JAXUCZ010000003

UniProtKB/TrEMBL

A0A0G2K6W5, A6KM60, A6KM61

Related

ENSRNOP00000073967.1, ENSRNOT00000084339.3

Conserved Domains (3) summary

cd03558
Location:163 → 177

LGIC_ECD; Cys-loop [structural motif]

cl28912
Location:39 → 245

LGIC_ECD; extracellular domain (ECD) of Cys-loop neurotransmitter-gated ion channels (also known as ligand-gated ion channel (LGIC))

pfam02932
Location:252 → 621

Neur_chan_memb; Neurotransmitter-gated ion-channel transmembrane region

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_086021.1 Reference GRCr8

Range

188506802..188535558 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039104383.2 → XP_038960311.1 neuronal acetylcholine receptor subunit alpha-4 isoform X1

Conserved Domains (3) summary

cd03558
Location:323 → 337

LGIC_ECD; Cys-loop [structural motif]

cl28912
Location:199 → 405

LGIC_ECD; extracellular domain (ECD) of Cys-loop neurotransmitter-gated ion channels (also known as ligand-gated ion channel (LGIC))

pfam02932
Location:412 → 781

Neur_chan_memb; Neurotransmitter-gated ion-channel transmembrane region
XM_039104384.2 → XP_038960312.1 neuronal acetylcholine receptor subunit alpha-4 isoform X2

UniProtKB/TrEMBL

K4DIC3

Related

ENSRNOP00000009041.8

Conserved Domains (3) summary

cd03558
Location:80 → 94

LGIC_ECD; Cys-loop [structural motif]

cl28912
Location:1 → 161

LGIC_ECD; extracellular domain (ECD) of Cys-loop neurotransmitter-gated ion channels (also known as ligand-gated ion channel (LGIC))

pfam02932
Location:169 → 538

Neur_chan_memb; Neurotransmitter-gated ion-channel transmembrane region