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

    Gene ID: 15561, updated on 9-Apr-2019

    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
    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
    Expression
    Biased expression in colon adult (RPKM 3.9), adrenal adult (RPKM 3.2) and 14 other tissues See more
    Orthologs

    Genomic context

    See Htr3a in Genome Data Viewer
    Location:
    9; 9 A5.3
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) 9 NC_000075.6 (48899213..48911149, complement)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 9 NC_000075.5 (48707318..48719204, complement)

    Chromosome 9 - NC_000075.6Genomic Context describing neighboring genes Neighboring gene nicotinamide N-methyltransferase Neighboring gene zinc finger and BTB domain containing 16 Neighboring gene predicted gene, 32280 Neighboring gene predicted gene, 32335 Neighboring gene 5-hydroxytryptamine (serotonin) receptor 3B Neighboring gene ubiquitin specific peptidase 28

    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 FunctionsWhat's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (5)  1 citation
    • Endonuclease-mediated (2) 

    Pathways from BioSystems

    General gene information

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    contributes_to extracellular ligand-gated ion channel activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    identical protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    ion channel activity IEA
    Inferred from Electronic Annotation
    more info
     
    ligand-gated ion channel activity IEA
    Inferred from Electronic Annotation
    more info
     
    serotonin binding ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    serotonin-gated cation-selective channel activity ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    transmembrane signaling receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    chemical synaptic transmission IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    ion transmembrane transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    ion transport IEA
    Inferred from Electronic Annotation
    more info
     
    nervous system process IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    positive regulation of ion transmembrane transporter activity ISO
    Inferred from Sequence Orthology
    more info
     
    regulation of membrane potential IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    signal transduction IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    Component Evidence Code Pubs
    axon ISO
    Inferred from Sequence Orthology
    more info
     
    cell junction IEA
    Inferred from Electronic Annotation
    more info
     
    cleavage furrow ISO
    Inferred from Sequence Orthology
    more info
     
    cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    glutamatergic synapse ISO
    Inferred from Sequence Orthology
    more info
     
    integral component of membrane IEA
    Inferred from Electronic Annotation
    more info
     
    integral component of plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    integral component of postsynaptic membrane ISO
    Inferred from Sequence Orthology
    more info
     
    integral component of presynaptic membrane ISO
    Inferred from Sequence Orthology
    more info
     
    membrane IEA
    Inferred from Electronic Annotation
    more info
     
    neuron projection IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    neuronal cell body ISO
    Inferred from Sequence Orthology
    more info
     
    plasma membrane ISO
    Inferred from Sequence Orthology
    more info
     
    postsynaptic membrane IEA
    Inferred from Electronic Annotation
    more info
     
    serotonin-activated cation-selective channel complex ISO
    Inferred from Sequence Orthology
    more info
     
    synapse IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 

    General protein information

    Preferred Names
    5-hydroxytryptamine receptor 3A
    Names
    5-HT-3
    5-HT3-A
    5-HT3A
    5-HT3R
    5-hydroxytryptamine receptor 3
    5HT3 serotonin receptor
    serotonin receptor 3A
    serotonin-gated ion channel receptor

    NCBI Reference Sequences (RefSeq)

    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
      UniProtKB/TrEMBL
      Q8K1F4
      Related
      ENSMUSP00000150647.1, ENSMUST00000217289.1
      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
      P23979
      UniProtKB/TrEMBL
      E9QLC0, Q8K1F4
      Related
      ENSMUSP00000003826.7, ENSMUST00000003826.7
      Conserved Domains (3) summary
      TIGR00860
      Location:5483
      LIC; Cation transporter family protein
      pfam02931
      Location:41247
      Neur_chan_LBD; Neurotransmitter-gated ion-channel ligand binding domain
      pfam02932
      Location:254479
      Neur_chan_memb; Neurotransmitter-gated ion-channel transmembrane region

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

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

    Reference GRCm38.p4 C57BL/6J

    Genomic

    1. NC_000075.6 Reference GRCm38.p4 C57BL/6J

      Range
      48899213..48911149 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011242398.2XP_011240700.1  5-hydroxytryptamine receptor 3A isoform X1

      Conserved Domains (3) summary
      TIGR00860
      Location:5468
      LIC; Cation transporter family protein
      pfam02931
      Location:41232
      Neur_chan_LBD; Neurotransmitter-gated ion-channel ligand binding domain
      pfam02932
      Location:239464
      Neur_chan_memb; Neurotransmitter-gated ion-channel transmembrane region
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