Free for academic non-profit institutions. Other users need a Commercial license

Aliases for HTR3A Gene

Aliases for HTR3A Gene

  • 5-Hydroxytryptamine Receptor 3A 2 3 3 5
  • 5-Hydroxytryptamine (Serotonin) Receptor 3A, Ionotropic 2 3
  • Serotonin-Gated Ion Channel Receptor 3 4
  • 5-Hydroxytryptamine Receptor 3 3 4
  • Serotonin Receptor 3A 3 4
  • 5-HT3-A 3 4
  • 5-HT-3 3 4
  • 5-HT3A 3 4
  • 5-HT3R 3 4
  • 5HT3R 3 4
  • HTR3 3 4
  • 5-Hydroxytryptamine (Serotonin) Receptor 3A 2
  • 5HT3 Serotonin Receptor 3

External Ids for HTR3A Gene

Previous HGNC Symbols for HTR3A Gene

  • HTR3

Previous GeneCards Identifiers for HTR3A Gene

  • GC11P116198
  • GC11P115357
  • GC11P113879
  • GC11P113383
  • GC11P113351
  • GC11P109774

Summaries for HTR3A Gene

Entrez Gene Summary for HTR3A Gene

  • The product of this gene belongs to the ligand-gated ion channel receptor superfamily. This gene encodes subunit A of the type 3 receptor for 5-hydroxytryptamine (serotonin), a biogenic hormone that functions as a neurotransmitter, a hormone, and a mitogen. This receptor causes fast, depolarizing responses in neurons after activation. It appears that the heteromeric combination of A and B subunits is necessary to provide the full functional features of this receptor, since either subunit alone results in receptors with very low conductance and response amplitude. Alternatively spliced transcript variants encoding different isoforms have been identified. [provided by RefSeq, Jul 2008]

GeneCards Summary for HTR3A Gene

HTR3A (5-Hydroxytryptamine Receptor 3A) is a Protein Coding gene. Diseases associated with HTR3A include Serotonin Syndrome and Motion Sickness. Among its related pathways are Sudden Infant Death Syndrome (SIDS) Susceptibility Pathways and Transport of glucose and other sugars, bile salts and organic acids, metal ions and amine compounds. Gene Ontology (GO) annotations related to this gene include extracellular ligand-gated ion channel activity. An important paralog of this gene is HTR3B.

UniProtKB/Swiss-Prot for HTR3A Gene

  • This is one of the several different receptors for 5-hydroxytryptamine (serotonin), a biogenic hormone that functions as a neurotransmitter, a hormone, and a mitogen. This receptor is a ligand-gated ion channel, which when activated causes fast, depolarizing responses in neurons. It is a cation-specific, but otherwise relatively nonselective, ion channel.

Tocris Summary for HTR3A Gene

  • Serotonin 5-HT3 receptors, are ligand-gated ion channels of the Cys-loop family. The receptor consists of four transmembrane domains that form an intrinsic cation-selective channel. So far five human 5-HT3 receptor subtypes have been identified (5-HT3A-E).

Gene Wiki entry for HTR3A Gene

Additional gene information for HTR3A Gene

No data available for CIViC summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HTR3A Gene

Genomics for HTR3A Gene

GeneHancer (GH) Regulatory Elements for HTR3A Gene

Promoters and enhancers for HTR3A Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH11J113974 Promoter/Enhancer 1.6 EPDnew Ensembl ENCODE 650.7 +0.0 39 1.4 NFIB KLF17 ZNF2 ZNF335 GLIS2 ZNF366 SMARCC2 KLF7 ATF7 SP3 HTR3A RBM7 DRD2 GC11M113987
GH11J114174 Promoter/Enhancer 2 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 10.2 +206.7 206732 13.7 FOXA2 RAD21 YY1 ZSCAN5C ZFP91 ATF7 ZNF654 RXRA REST NR2F2 NNMT HTR3A ZBTB16 LOC101928875 PIR38575
GH11J113952 Enhancer 0.8 Ensembl ENCODE 12.6 -22.4 -22378 1 HLF CEBPB MAX ZIC2 ATF2 ZFHX2 POLR2A PATZ1 ZNF341 ZNF600 HTR3A NNMT RNU6-1107P ATF4P4 HTR3B
GH11J113905 Enhancer 0.9 ENCODE 10.9 -68.4 -68410 1.7 PKNOX1 FOXA2 ARNT FEZF1 ZNF2 ZNF213 ZNF143 MIER2 TSHZ1 ZSCAN16 USP28 ENSG00000270179 HTR3A RNU6-1107P HTR3B
GH11J114108 Enhancer 1 Ensembl ENCODE dbSUPER 9.8 +135.5 135459 3.4 RXRA MAX REST RAD21 FOXA1 NR2F2 OSR2 SP1 JUND PRDM6 NNMT HTR3A ENSG00000270179 GC11M114060 ZBTB16 LOC101928875
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around HTR3A on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the HTR3A gene promoter:
  • NRSF form 2
  • NRSF form 1
  • GR-alpha
  • GR

Genomic Locations for HTR3A Gene

Genomic Locations for HTR3A Gene
chr11:113,974,881-113,990,313
(GRCh38/hg38)
Size:
15,433 bases
Orientation:
Plus strand
chr11:113,845,603-113,861,035
(GRCh37/hg19)
Size:
15,433 bases
Orientation:
Plus strand

Genomic View for HTR3A Gene

Genes around HTR3A on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HTR3A Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HTR3A Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HTR3A Gene

Proteins for HTR3A Gene

  • Protein details for HTR3A Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P46098-5HT3A_HUMAN
    Recommended name:
    5-hydroxytryptamine receptor 3A
    Protein Accession:
    P46098
    Secondary Accessions:
    • B4DSY6
    • G5E986
    • O60854
    • Q7KZM7
    • Q99918
    • Q9BSZ9

    Protein attributes for HTR3A Gene

    Size:
    478 amino acids
    Molecular mass:
    55280 Da
    Quaternary structure:
    • Forms pentahomomeric complex as well as pentaheteromeric complex with HTR3B or HTR3C or HTR3D or HTR3E; homomeric complex is functional but exhibits low conductance with modified voltage dependence, and decreased agonist and antagonist affinity. Interacts with RIC3.
    Miscellaneous:
    • The HA-stretch region of HTR3A seems to be responsible for the low conductance of HTR3A homomers compared to that of HTR3A/HTR3B heteromers.

    Alternative splice isoforms for HTR3A Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for HTR3A Gene

Post-translational modifications for HTR3A Gene

  • Glycosylation at Asn186, isoforms=2, 3, 4, 5170, isoforms=2, 3, 4, 5104, and isoforms=2, 3, 4, 528
  • Modification sites at PhosphoSitePlus

Other Protein References for HTR3A Gene

No data available for DME Specific Peptides for HTR3A Gene

Domains & Families for HTR3A Gene

Gene Families for HTR3A Gene

HGNC:
IUPHAR :
Human Protein Atlas (HPA):
  • FDA approved drug targets
  • Predicted membrane proteins
  • Transporters

Graphical View of Domain Structure for InterPro Entry

P46098

UniProtKB/Swiss-Prot:

5HT3A_HUMAN :
  • Belongs to the ligand-gated ion channel (TC 1.A.9) family. 5-hydroxytryptamine receptor (TC 1.A.9.2) subfamily. HTR3A sub-subfamily.
Family:
  • Belongs to the ligand-gated ion channel (TC 1.A.9) family. 5-hydroxytryptamine receptor (TC 1.A.9.2) subfamily. HTR3A sub-subfamily.
genes like me logo Genes that share domains with HTR3A: view

Function for HTR3A Gene

Molecular function for HTR3A Gene

UniProtKB/Swiss-Prot Function:
This is one of the several different receptors for 5-hydroxytryptamine (serotonin), a biogenic hormone that functions as a neurotransmitter, a hormone, and a mitogen. This receptor is a ligand-gated ion channel, which when activated causes fast, depolarizing responses in neurons. It is a cation-specific, but otherwise relatively nonselective, ion channel.
GENATLAS Biochemistry:
5-hydroxytryptamine (serotonin) receptor,subtype 3a,coexpressed with HTR3B in the amygdala,caudate and hyppocampus,also expressed in other tissues,component of HTR3 receptor,mediating rapid excitatory responses

Phenotypes From GWAS Catalog for HTR3A Gene

Gene Ontology (GO) - Molecular Function for HTR3A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004888 transmembrane signaling receptor activity IEA --
GO:0005216 ion channel activity IEA --
GO:0005230 CONTRIBUTES_TO extracellular ligand-gated ion channel activity IBA,IEA --
GO:0005515 protein binding IPI 17392525
GO:0015276 ligand-gated ion channel activity IEA --
genes like me logo Genes that share ontologies with HTR3A: view
genes like me logo Genes that share phenotypes with HTR3A: view

Animal Models for HTR3A Gene

MGI Knock Outs for HTR3A:

Animal Model Products

  • Taconic Biosciences Mouse Models for HTR3A

miRNA for HTR3A Gene

miRTarBase miRNAs that target HTR3A

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for HTR3A Gene

Localization for HTR3A Gene

Subcellular locations from UniProtKB/Swiss-Prot for HTR3A Gene

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

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for HTR3A gene
Compartment Confidence
plasma membrane 5
extracellular 2
nucleus 2
mitochondrion 1
peroxisome 1
endoplasmic reticulum 1
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for HTR3A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IEA --
GO:0005886 plasma membrane TAS --
GO:0005887 integral component of plasma membrane IBA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with HTR3A: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for HTR3A Gene

Pathways & Interactions for HTR3A Gene

genes like me logo Genes that share pathways with HTR3A: view

Pathways by source for HTR3A Gene

Gene Ontology (GO) - Biological Process for HTR3A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006811 ion transport IEA --
GO:0007165 signal transduction IEA --
GO:0007268 chemical synaptic transmission TAS --
GO:0032414 positive regulation of ion transmembrane transporter activity IEA --
GO:0034220 ion transmembrane transport IEA,IBA --
genes like me logo Genes that share ontologies with HTR3A: view

No data available for SIGNOR curated interactions for HTR3A Gene

Drugs & Compounds for HTR3A Gene

(174) Drugs for HTR3A Gene - From: DrugBank, PharmGKB, DGIdb, FDA Approved Drugs, HMDB, Tocris, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Alosetron Approved, Withdrawn Pharma antagonist, Target 5
Granisetron Approved, Investigational Pharma antagonist, Target Serotonin 5-HT3 receptor antagonist 79
Palonosetron Approved, Investigational Pharma antagonist, Target 5-HT3 antagonist 93
Dolasetron Approved, Investigational Pharma antagonist, Target 9
Mirtazapine Approved Pharma antagonist, Target 97

(38) Additional Compounds for HTR3A Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs

(4) Tocris Compounds for HTR3A Gene

Compound Action Cas Number
2-Methyl-5-hydroxytryptamine hydrochloride 5-HT3 agonist/potent 5-HT6 ligand 845861-49-6
m-Chlorophenylbiguanide hydrochloride Potent and specific 5-HT3 agonist 2113-05-5
N-Methylquipazine dimaleate 5-HT3 agonist 171205-17-7
Zacopride hydrochloride Highly potent 5-HT3 receptor antagonist. Also 5-HT4 agonist 101303-98-4
genes like me logo Genes that share compounds with HTR3A: view

Transcripts for HTR3A Gene

mRNA/cDNA for HTR3A Gene

Unigene Clusters for HTR3A Gene

5-hydroxytryptamine (serotonin) receptor 3A, ionotropic:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for HTR3A Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4 ^ 5a · 5b ^ 6 ^ 7a · 7b ^ 8 ^ 9 ^ 10a · 10b
SP1: - -
SP2: - -
SP3: - - - -
SP4: -
SP5:

Relevant External Links for HTR3A Gene

GeneLoc Exon Structure for
HTR3A
ECgene alternative splicing isoforms for
HTR3A

Expression for HTR3A Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for HTR3A Gene

mRNA differential expression in normal tissues according to GTEx for HTR3A Gene

This gene is overexpressed in Minor Salivary Gland (x14.4), Pancreas (x4.8), and Brain - Caudate (basal ganglia) (x4.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for HTR3A Gene



NURSA nuclear receptor signaling pathways regulating expression of HTR3A Gene:

HTR3A

SOURCE GeneReport for Unigene cluster for HTR3A Gene:

Hs.413899

mRNA Expression by UniProt/SwissProt for HTR3A Gene:

P46098-5HT3A_HUMAN
Tissue specificity: Expressed in cerebral cortex, amygdala, hippocampus, and testis. Detected in monocytes of the spleen and tonsil, in small and large intestine, uterus, prostate, ovary and placenta.

Evidence on tissue expression from TISSUES for HTR3A Gene

  • Nervous system(4.6)
  • Intestine(4.5)
  • Blood(4.3)
  • Lung(4.1)
genes like me logo Genes that share expression patterns with HTR3A: view

No data available for Protein differential expression in normal tissues , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for HTR3A Gene

Orthologs for HTR3A Gene

This gene was present in the common ancestor of animals.

Orthologs for HTR3A Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia HTR3A 34 33
  • 98.97 (n)
OneToOne
dog
(Canis familiaris)
Mammalia HTR3A 34 33
  • 87.94 (n)
OneToOne
cow
(Bos Taurus)
Mammalia HTR3A 34 33
  • 87.17 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Htr3a 16 34 33
  • 83.92 (n)
rat
(Rattus norvegicus)
Mammalia Htr3a 33
  • 83.84 (n)
oppossum
(Monodelphis domestica)
Mammalia HTR3A 34
  • 78 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia HTR3A 34
  • 76 (a)
OneToOne
chicken
(Gallus gallus)
Aves HTR3A 34 33
  • 73.85 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia HTR3A 34
  • 67 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii htr3a 34 34
  • 73 (a)
OneToMany
LOC571641 33
  • 67.79 (n)
worm
(Caenorhabditis elegans)
Secernentea acr-17 35
  • 29 (a)
acr-22 35
  • 28 (a)
C04C3.2 35
  • 27 (a)
Y57G11C.2 35
  • 27 (a)
acr-18 35
  • 22 (a)
Species where no ortholog for HTR3A was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • 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)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • 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 squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)

Evolution for HTR3A Gene

ENSEMBL:
Gene Tree for HTR3A (if available)
TreeFam:
Gene Tree for HTR3A (if available)
Aminode:
Evolutionary constrained regions (ECRs) for HTR3A: view image

Paralogs for HTR3A Gene

(17) SIMAP similar genes for HTR3A Gene using alignment to 11 proteins:

  • 5HT3A_HUMAN
  • B3VRG0_HUMAN
  • B3VRG5_HUMAN
  • B3VRH0_HUMAN
  • B3VRH5_HUMAN
  • B3VRI0_HUMAN
  • B3VRI5_HUMAN
  • B3VRJ0_HUMAN
  • B3VRJ5_HUMAN
  • B3VRK0_HUMAN
  • Q9UEP2_HUMAN
genes like me logo Genes that share paralogs with HTR3A: view

Variants for HTR3A Gene

Sequence variations from dbSNP and Humsavar for HTR3A Gene

SNP ID Clin Chr 11 pos Variation AA Info Type
rs1000353375 -- 113,974,711(+) A/G upstream_transcript_variant
rs1000530277 -- 113,979,312(+) C/G intron_variant
rs1000771764 -- 113,989,860(+) C/T 3_prime_UTR_variant, non_coding_transcript_variant
rs1000963538 -- 113,986,967(+) G/C coding_sequence_variant, missense_variant, non_coding_transcript_variant
rs1001089654 -- 113,981,729(+) G/A intron_variant

Structural Variations from Database of Genomic Variants (DGV) for HTR3A Gene

Variant ID Type Subtype PubMed ID
esv3627783 CNV loss 21293372

Variation tolerance for HTR3A Gene

Residual Variation Intolerance Score: 18.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.48; 64.38% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for HTR3A Gene

Human Gene Mutation Database (HGMD)
HTR3A
SNPedia medical, phenotypic, and genealogical associations of SNPs for
HTR3A

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for HTR3A Gene

Disorders for HTR3A Gene

MalaCards: The human disease database

(39) MalaCards diseases for HTR3A Gene - From: HGMD, DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
serotonin syndrome
  • serotonergic syndrome
motion sickness
  • travel sickness
irritable bowel syndrome
  • ibd
rumination disorder
  • psychogenic rumination
social phobia
  • phobia social
- elite association - COSMIC cancer census association via MalaCards
Search HTR3A in MalaCards View complete list of genes associated with diseases

Additional Disease Information for HTR3A

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with HTR3A: view

No data available for UniProtKB/Swiss-Prot and Genatlas for HTR3A Gene

Publications for HTR3A Gene

  1. A cytoplasmic region determines single-channel conductance in 5-HT3 receptors. (PMID: 12867984) Kelley SP … Peters JA (Nature 2003) 2 3 4 22 58
  2. Association between a polymorphism of the HTR3A gene and therapeutic response to risperidone treatment in drug-naive Chinese schizophrenia patients. (PMID: 18622264) Gu B … Xing QH (Pharmacogenetics and genomics 2008) 3 22 44 58
  3. Distinguishable haplotype blocks in the HTR3A and HTR3B region in the Japanese reveal evidence of association of HTR3B with female major depression. (PMID: 16487942) Yamada K … Yoshikawa T (Biological psychiatry 2006) 3 4 44 58
  4. Cell surface expression of 5-hydroxytryptamine type 3 receptors is promoted by RIC-3. (PMID: 15809299) Cheng A … Connolly CN (The Journal of biological chemistry 2005) 3 4 22 58
  5. Mutational analysis of serotonin receptor genes: HTR3A and HTR3B in fibromyalgia patients. (PMID: 15293096) Frank B … Rappold G (Clinical rheumatology 2004) 3 4 44 58

Products for HTR3A Gene

Sources for HTR3A Gene

Content
Loading form....