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Aliases for CHRNA3 Gene

Aliases for CHRNA3 Gene

  • Cholinergic Receptor, Nicotinic, Alpha 3 (Neuronal) 2 3
  • Cholinergic Receptor, Nicotinic, Alpha Polypeptide 3 2 3
  • NACHRA3 3 4
  • LNCR2 3 6
  • PAOD2 3 6
  • Neuronal Nicotinic Acetylcholine Receptor, Alpha3 Subunit 3
  • Neuronal Acetylcholine Receptor Subunit Alpha-3 3
  • Acetylcholine Receptor 2
  • Alpha 3 (Neuronal) 2
  • Nicotinic 2

External Ids for CHRNA3 Gene

Previous GeneCards Identifiers for CHRNA3 Gene

  • GC15P074984
  • GC15M071975
  • GC15M076461
  • GC15M076601
  • GC15M076672
  • GC15M078885
  • GC15M055642

Summaries for CHRNA3 Gene

Entrez Gene Summary for CHRNA3 Gene

  • This locus encodes a member of the nicotinic acetylcholine receptor family of proteins. Members of this family of proteins form pentameric complexes comprised of both alpha and beta subunits. This locus encodes an alpha-type subunit, as it contains characteristic adjacent cysteine residues. The encoded protein is a ligand-gated ion channel that likely plays a role in neurotransmission. Polymorphisms in this gene have been associated with an increased risk of smoking initiation and an increased susceptibility to lung cancer. Alternatively spliced transcript variants have been described. [provided by RefSeq, Nov 2009]

GeneCards Summary for CHRNA3 Gene

CHRNA3 (Cholinergic Receptor, Nicotinic, Alpha 3 (Neuronal)) is a Protein Coding gene. Diseases associated with CHRNA3 include lung cancer susceptibility 2 and frontal lobe epilepsy. Among its related pathways are CREB Pathway and Nanog in Mammalian ESC Pluripotency. GO annotations related to this gene include acetylcholine-activated cation-selective channel activity and ligand-gated ion channel activity. An important paralog of this gene is CHRNA2.

UniProtKB/Swiss-Prot for CHRNA3 Gene

  • After binding acetylcholine, the AChR responds by an extensive change in conformation that affects all subunits and leads to opening of an ion-conducting channel across the plasma membrane

Gene Wiki entry for CHRNA3 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CHRNA3 Gene

Genomics for CHRNA3 Gene

Regulatory Elements for CHRNA3 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for CHRNA3 Gene

78,593,052 bp from pter
78,621,295 bp from pter
28,244 bases
Minus strand

Genomic View for CHRNA3 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for CHRNA3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CHRNA3 Gene

Proteins for CHRNA3 Gene

  • Protein details for CHRNA3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Neuronal acetylcholine receptor subunit alpha-3
    Protein Accession:
    Secondary Accessions:
    • Q15823
    • Q4KMN8
    • Q86U77
    • Q96RH3
    • Q99553
    • Q9BQ93
    • Q9BRR4

    Protein attributes for CHRNA3 Gene

    505 amino acids
    Molecular mass:
    57480 Da
    Quaternary structure:
    • Neuronal AChR is composed of two different types of subunits: alpha and beta. Alpha-3 subunit can be combined to beta-2 or beta-4 to give rise to functional receptors. Interacts with RIC3; which is required for proper folding and assembly.

    Alternative splice isoforms for CHRNA3 Gene


neXtProt entry for CHRNA3 Gene

Proteomics data for CHRNA3 Gene at MOPED

Post-translational modifications for CHRNA3 Gene

  • Glycosylation at Asn54 and Asn171
  • Modification sites at PhosphoSitePlus

Other Protein References for CHRNA3 Gene

ENSEMBL proteins:
Reactome Protein details:
REFSEQ proteins:

Antibody Products

No data available for DME Specific Peptides for CHRNA3 Gene

Domains for CHRNA3 Gene

Gene Families for CHRNA3 Gene

  • CHR :Cholinergic receptors
  • CHRN :Ligand-gated ion channels / Acetylcholine receptors, nicotinic

Graphical View of Domain Structure for InterPro Entry



  • P32297
  • Belongs to the ligand-gated ion channel (TC 1.A.9) family. Acetylcholine receptor (TC 1.A.9.1) subfamily. Alpha-3/CHRNA3 sub-subfamily.
genes like me logo Genes that share domains with CHRNA3: view

Function for CHRNA3 Gene

Molecular function for CHRNA3 Gene

GENATLAS Biochemistry:
cholinergic receptor,nicotinic,alpha 3 polypeptide,neuronal
UniProtKB/Swiss-Prot Function:
After binding acetylcholine, the AChR responds by an extensive change in conformation that affects all subunits and leads to opening of an ion-conducting channel across the plasma membrane

Gene Ontology (GO) - Molecular Function for CHRNA3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004889 acetylcholine-activated cation-selective channel activity TAS 20438829
GO:0005230 extracellular ligand-gated ion channel activity --
GO:0005515 protein binding --
GO:0015276 ligand-gated ion channel activity TAS 20438829
GO:0015464 acetylcholine receptor activity IDA 8906617
genes like me logo Genes that share ontologies with CHRNA3: view
genes like me logo Genes that share phenotypes with CHRNA3: view

Animal Models for CHRNA3 Gene

MGI Knock Outs for CHRNA3:

Animal Model Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for CHRNA3

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , miRNA , Transcription Factor Targeting and HOMER Transcription for CHRNA3 Gene

Localization for CHRNA3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CHRNA3 Gene

Cell junction, synapse, postsynaptic cell membrane; Multi-pass membrane protein. Cell membrane; Multi-pass membrane protein.

Subcellular locations from

Jensen Localization Image for CHRNA3 Gene COMPARTMENTS Subcellular localization image for CHRNA3 gene
Compartment Confidence
plasma membrane 5
cytoskeleton 4
endoplasmic reticulum 1

Gene Ontology (GO) - Cellular Components for CHRNA3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane TAS --
GO:0005892 acetylcholine-gated channel complex IDA 8906617
GO:0014069 postsynaptic density ISS --
GO:0016020 membrane --
GO:0016021 integral component of membrane NAS 8906617
genes like me logo Genes that share ontologies with CHRNA3: view

Pathways for CHRNA3 Gene

genes like me logo Genes that share pathways with CHRNA3: view

PCR Array Products

  • Pathway & Disease-focused RT² Profiler PCR Arrays

Gene Ontology (GO) - Biological Process for CHRNA3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006810 transport --
GO:0006811 ion transport NAS 8906617
GO:0006812 cation transport --
GO:0006937 regulation of muscle contraction --
GO:0006940 regulation of smooth muscle contraction ISS --
genes like me logo Genes that share ontologies with CHRNA3: view

Compounds for CHRNA3 Gene

(7) Drugbank Compounds for CHRNA3 Gene

Compound Synonyms Cas Number Type Actions PubMed IDs
  • Amfebutamone
34841-39-9 target antagonist
  • (-)-Galanthamine
357-70-0 target allosteric modulator
  • dl-Tetramisol
14769-73-4 target agonist
Levomethadyl Acetate
  • 1-alpha-acetylmethadol
1477-40-3 target antagonist
  • L-Nicotine
54-11-5 target agonist

(12) IUPHAR Ligand for CHRNA3 Gene

Ligand Type Action Affinity Pubmed IDs
[125I]epibatidine None None 9.64
[3H]epibatidine None None 9.64
mecamylamine Channel blocker None 6.41
alpha-conotoxin TxIA Antagonist Antagonist
A-867744 Channel blocker None
alpha-conotoxin-GIC Antagonist Antagonist
alpha-conotoxin AuIB Antagonist Antagonist
[3H]cytisine None None
alpha-conotoxin MII Antagonist Antagonist
NS1738 Channel blocker None
alpha-conotoxin PnIA Antagonist Antagonist
hexamethonium Channel blocker None

(2) Novoseek inferred chemical compound relationships for CHRNA3 Gene

Compound -log(P) Hits PubMed IDs
nicotine 55.2 2
acetylcholine 44.2 2

(1) PharmGKB related drug/compound annotations for CHRNA3 Gene

Drug/compound Annotation
Drugs used in nicotine dependence CA
genes like me logo Genes that share compounds with CHRNA3: view

Transcripts for CHRNA3 Gene

Unigene Clusters for CHRNA3 Gene

Cholinergic receptor, nicotinic, alpha 3 (neuronal):
Representative Sequences:

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for CHRNA3

Primer Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for CHRNA3 Gene

No ASD Table

Relevant External Links for CHRNA3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for CHRNA3 Gene

mRNA expression in normal human tissues for CHRNA3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CHRNA3 Gene

This gene is overexpressed in Colon - Sigmoid (8.3), Adrenal Gland (5.6), and Brain - Cerebellum (5.4).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for CHRNA3 Gene

SOURCE GeneReport for Unigene cluster for CHRNA3 Gene Hs.89605

genes like me logo Genes that share expressions with CHRNA3: view

In Situ Assay Products

No data available for Protein differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Expression partners for CHRNA3 Gene

Orthologs for CHRNA3 Gene

This gene was present in the common ancestor of animals.

Orthologs for CHRNA3 Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia CHRNA3 35
  • 91.58 (n)
  • 95.82 (a)
  • 96 (a)
(Canis familiaris)
Mammalia CHRNA3 35
  • 87.3 (n)
  • 93.26 (a)
  • 66 (a)
(Mus musculus)
Mammalia Chrna3 35
  • 88.91 (n)
  • 93.93 (a)
Chrna3 16
Chrna3 36
  • 91 (a)
(Pan troglodytes)
Mammalia CHRNA3 35
  • 99.01 (n)
  • 99.01 (a)
  • 88 (a)
(Rattus norvegicus)
Mammalia Chrna3 35
  • 88.54 (n)
  • 93.92 (a)
(Monodelphis domestica)
Mammalia CHRNA3 36
  • 84 (a)
(Ornithorhynchus anatinus)
Mammalia CHRNA3 36
  • 86 (a)
(Gallus gallus)
Aves CHRNA3 35
  • 77.22 (n)
  • 85.23 (a)
  • 82 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100498049 35
  • 69.92 (n)
  • 75.49 (a)
(Danio rerio)
Actinopterygii chrna3 35
  • 70.75 (n)
  • 76.16 (a)
chrna3 36
  • 72 (a)
fruit fly
(Drosophila melanogaster)
Insecta nAcRalpha-30D 37
  • 31 (a)
nAcRalpha-7E 37
  • 54 (a)
nAcRalpha-80B 37
  • 41 (a)
nAcRalpha-96Aa 37
  • 55 (a)
nAcRalpha-96Ab 37
  • 42 (a)
nAcRbgr-64B 37
  • 44 (a)
nAcRbgr-96A 37
  • 44 (a)
nAcRalpha-80B 35
  • 52.86 (n)
  • 49.14 (a)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP000138 35
  • 54.63 (n)
  • 49.89 (a)
(Caenorhabditis elegans)
Secernentea acr-10 37
  • 42 (a)
acr-11 37
  • 36 (a)
acr-12 37
  • 37 (a)
acr-13 37
  • 31 (a)
acr-14 37
  • 28 (a)
acr-15 37
  • 30 (a)
acr-16 37
  • 37 (a)
acr-17 37
  • 27 (a)
acr-18 37
  • 26 (a)
acr-2 37
  • 39 (a)
acr-22 37
  • 29 (a)
acr-23 37
  • 27 (a)
acr-3 37
  • 39 (a)
acr-5 37
  • 29 (a)
acr-7 37
  • 32 (a)
acr-8 37
  • 33 (a)
acr-9 37
  • 34 (a)
C04C3.2 37
  • 27 (a)
deg-3 37
  • 29 (a)
F11C7.1 37
  • 29 (a)
F18G5.4 37
  • 33 (a)
lev-1 37
  • 37 (a)
unc-29 37
  • 39 (a)
unc-38 37
  • 42 (a)
Y44A6E.1 37
  • 29 (a)
Y73F8A.30 37
  • 29 (a)
ZK973.5 37
  • 30 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 60 (a)
Species with no ortholog for CHRNA3:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for CHRNA3 Gene

Gene Tree for CHRNA3 (if available)
Gene Tree for CHRNA3 (if available)

Paralogs for CHRNA3 Gene

genes like me logo Genes that share paralogs with CHRNA3: view

Variants for CHRNA3 Gene

Polymorphic Variants from UniProtKB/Swiss-Prot for CHRNA3 Gene

Genetic variations in CHRNA3 have been associated with susceptibility to smoking-related behavioral traits and lung cancer, contributing to the smoking quantitative trait locus 3 (SQTL3) [MIM:612052]

Sequence variations from dbSNP and Humsavar for CHRNA3 Gene

SNP ID Clin Chr 15 pos Sequence Context AA Info Type MAF
rs578776 -- 78,596,058(-) TATAC(C/T)ATGAG utr-variant-3-prime, intron-variant
rs938682 -- 78,604,205(-) TGCCC(C/T)TGGAG intron-variant
rs1051730 other 78,601,997(-) GGCTA(C/T)AAACA reference, synonymous-codon, nc-transcript-variant
rs1051731 -- 78,601,460(-) GAGGG(C/T)TACCC reference, synonymous-codon, nc-transcript-variant
rs1317286 -- 78,603,787(+) CCCCA(A/G)TGGTG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for CHRNA3 Gene

Variant ID Type Subtype PubMed ID
nsv518840 CNV Loss 19592680
nsv513434 CNV Insertion 21212237
esv1448423 CNV Insertion 17803354
nsv457208 CNV Gain 19166990
nsv1628 CNV Insertion 18451855

Relevant External Links for CHRNA3 Gene

HapMap Linkage Disequilibrium report
Human Gene Mutation Database (HGMD)

Disorders for CHRNA3 Gene

(1) OMIM Diseases for CHRNA3 Gene (118503)

(1) Novoseek inferred disease relationships for CHRNA3 Gene

Disease -log(P) Hits PubMed IDs
megacystis-microcolon-intestinal hypoperistalsis syndrome 83.4 1

Relevant External Links for CHRNA3

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
genes like me logo Genes that share disorders with CHRNA3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CHRNA3 Gene

Publications for CHRNA3 Gene

  1. The structures of the human neuronal nicotinic acetylcholine receptor beta2- and alpha3-subunit genes (CHRNB2 and CHRNA3). (PMID: 9921897) Rempel N. … Steinlein O.K. (Hum. Genet. 1998) 3 4 23
  2. Association of novel and established polymorphisms in neuronal nicotinic acetylcholine receptors with sporadic Alzheimer's disease. (PMID: 12214130) Kawamata J. … Shimohama S. (J. Alzheimers Dis. 2002) 3 23 48
  3. Association and interaction analysis of variants in CHRNA5/CHRNA3/CHRNB4 gene cluster with nicotine dependence in African and European Americans. (PMID: 19859904) Li M.D. … Ma J.Z. (Am. J. Med. Genet. B Neuropsychiatr. Genet. 2010) 3 23 48
  4. Sensorimotor gating is associated with CHRNA3 polymorphisms in schizophrenia and healthy volunteers. (PMID: 20393456) Petrovsky N. … Kumari V. (Neuropsychopharmacology 2010) 3 23 48
  5. Rare missense variants of neuronal nicotinic acetylcholine receptor altering receptor function are associated with sporadic amyotrophic lateral sclerosis. (PMID: 19628475) Sabatelli M. … Zollino M. (Hum. Mol. Genet. 2009) 3 23 48

Products for CHRNA3 Gene

Sources for CHRNA3 Gene

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