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    Htr3a 5-hydroxytryptamine (serotonin) receptor 3A [ Mus musculus (house mouse) ]

    Gene ID: 15561, updated on 9-Dec-2024

    Summary

    Official Symbol
    Htr3aprovided by MGI
    Official Full Name
    5-hydroxytryptamine (serotonin) receptor 3Aprovided by MGI
    Primary source
    MGI:MGI:96282
    See related
    Ensembl:ENSMUSG00000032269 AllianceGenome:MGI:96282
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    5-HT3; 5-HT3A; 5-HT3R
    Summary
    Enables identical protein binding activity and ligand-gated monoatomic ion channel activity involved in regulation of presynaptic membrane potential. Predicted to be involved in several processes, including chemical synaptic transmission; inorganic cation transmembrane transport; and serotonin receptor signaling pathway. Part of serotonin-activated cation-selective channel complex. Is expressed in several structures, including central nervous system; eye; gallbladder; genitourinary system; and gut. Human ortholog(s) of this gene implicated in alcohol dependence; cocaine dependence; heroin dependence; irritable bowel syndrome; and nicotine dependence. Orthologous to human HTR3A (5-hydroxytryptamine receptor 3A). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in colon adult (RPKM 3.9), adrenal adult (RPKM 3.2) and 14 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See Htr3a in Genome Data Viewer
    Location:
    9 A5.3; 9 26.53 cM
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (48810513..48822451, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (48899213..48911152, complement)

    Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene CapStarr-seq enhancer MGSCv37_chr9:48458381-48458564 Neighboring gene predicted gene, 53521 Neighboring gene zinc finger and BTB domain containing 16 Neighboring gene predicted gene, 32280 Neighboring gene STARR-seq mESC enhancer starr_24076 Neighboring gene STARR-seq mESC enhancer starr_24078 Neighboring gene STARR-seq mESC enhancer starr_24080 Neighboring gene predicted gene, 32335 Neighboring gene STARR-seq mESC enhancer starr_24081 Neighboring gene 5-hydroxytryptamine (serotonin) receptor 3B Neighboring gene STARR-positive B cell enhancer ABC_E6730 Neighboring gene predicted gene, 51673

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (8) 
    • Targeted (6)  1 citation

    Pathways from PubChem

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Process Evidence Code Pubs
    involved_in chemical synaptic transmission IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in inorganic cation transmembrane transport 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
     
    involved_in regulation of membrane potential IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in regulation of presynaptic membrane potential IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in serotonin receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in serotonin-gated cation-selective signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    located_in axon ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cleavage furrow IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cleavage furrow ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in glutamatergic synapse 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 ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in postsynaptic membrane IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in postsynaptic membrane ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in presynaptic membrane ISO
    Inferred from Sequence Orthology
    more info
     
    part_of serotonin-activated cation-selective channel complex IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    part_of serotonin-activated cation-selective channel complex ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in synapse IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of transmembrane transporter complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     

    General protein information

    Preferred Names
    5-hydroxytryptamine receptor 3A
    Names
    5-hydroxytryptamine receptor 3
    5HT3 serotonin receptor
    serotonin receptor 3A
    serotonin-gated ion channel receptor

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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)

    1. NM_001099644.1NP_001093114.1  5-hydroxytryptamine receptor 3A isoform 2 precursor

      See identical proteins and their annotated locations for NP_001093114.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate splice site in the 3' coding region compared to variant 1. The resulting protein (isoform 2) is shorter but has the same N- and C-termini compared to isoform 1.
      Source sequence(s)
      AF513221, BY275174, CJ237116
      Consensus CDS
      CCDS90559.1
      UniProtKB/TrEMBL
      B7ZMU3, Q8K1F4
      Related
      ENSMUSP00000150647.2, ENSMUST00000217289.2
      Conserved Domains (3) summary
      TIGR00860
      Location:5477
      LIC; Cation transporter family protein
      pfam02931
      Location:41247
      Neur_chan_LBD; Neurotransmitter-gated ion-channel ligand binding domain
      pfam02932
      Location:254473
      Neur_chan_memb; Neurotransmitter-gated ion-channel transmembrane region
    2. NM_013561.2NP_038589.2  5-hydroxytryptamine receptor 3A isoform 1 precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer protein (isoform 1).
      Source sequence(s)
      AF513221, BY274793, CJ237116, M74425
      Consensus CDS
      CCDS52788.1
      UniProtKB/Swiss-Prot
      E9QLC0, P23979, Q61225, Q61226
      UniProtKB/TrEMBL
      B7ZMU3
      Related
      ENSMUSP00000003826.8, ENSMUST00000003826.8
      Conserved Domains (1) summary
      TIGR00860
      Location:5483
      LIC; Cation transporter family protein

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000075.7 Reference GRCm39 C57BL/6J

      Range
      48810513..48822451 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011242398.4XP_011240700.1  5-hydroxytryptamine receptor 3A isoform X1

      UniProtKB/TrEMBL
      B7ZMU3
      Conserved Domains (1) summary
      TIGR00860
      Location:5468
      LIC; Cation transporter family protein