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    Chrna9 cholinergic receptor, nicotinic, alpha polypeptide 9 [ Mus musculus (house mouse) ]

    Gene ID: 231252, updated on 9-Dec-2024

    Summary

    Official Symbol
    Chrna9provided by MGI
    Official Full Name
    cholinergic receptor, nicotinic, alpha polypeptide 9provided by MGI
    Primary source
    MGI:MGI:1202403
    See related
    Ensembl:ENSMUSG00000029205 AllianceGenome:MGI:1202403
    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
    Acra9; Gm8311; EG666827; 2410015I05Rik
    Summary
    Enables acetylcholine-gated monoatomic cation-selective channel activity. Acts upstream of or within detection of mechanical stimulus involved in sensory perception of sound; inner ear morphogenesis; and monoatomic cation transport. Predicted to be part of acetylcholine-gated channel complex. Predicted to be active in cholinergic synapse; neuron projection; and postsynaptic specialization membrane. Is expressed in brain. Human ortholog(s) of this gene implicated in lung small cell carcinoma. Orthologous to human CHRNA9 (cholinergic receptor nicotinic alpha 9 subunit). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Restricted expression toward thymus adult (RPKM 11.4) See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See Chrna9 in Genome Data Viewer
    Location:
    5 C3.1; 5 33.84 cM
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (66092317..66134823)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (65934854..65977486)

    Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 32474 Neighboring gene CapStarr-seq enhancer MGSCv37_chr5:66301684-66301897 Neighboring gene STARR-seq mESC enhancer starr_13274 Neighboring gene predicted gene, 32556 Neighboring gene CapStarr-seq enhancer MGSCv37_chr5:66320476-66320836 Neighboring gene STARR-positive B cell enhancer ABC_E1301 Neighboring gene STARR-positive B cell enhancer ABC_E9642 Neighboring gene CapStarr-seq enhancer MGSCv37_chr5:66347227-66347446 Neighboring gene STARR-positive B cell enhancer ABC_E6335 Neighboring gene STARR-seq mESC enhancer starr_13277 Neighboring gene RIKEN cDNA 9130230L23 gene Neighboring gene STARR-seq mESC enhancer starr_13278 Neighboring gene predicted gene, 40310

    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)

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Component Evidence Code Pubs
    part_of acetylcholine-gated channel complex ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in cholinergic synapse ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in neuron projection IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    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
     
    is_active_in postsynaptic specialization membrane 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
    neuronal acetylcholine receptor subunit alpha-9

    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_001081104.2NP_001074573.1  neuronal acetylcholine receptor subunit alpha-9 isoform a

      See identical proteins and their annotated locations for NP_001074573.1

      Status: VALIDATED

      Source sequence(s)
      AC115293
      Consensus CDS
      CCDS39101.1
      UniProtKB/TrEMBL
      G3X8Z7
      Related
      ENSMUSP00000031108.7, ENSMUST00000031108.9
      Conserved Domains (3) summary
      TIGR00860
      Location:10474
      LIC; Cation transporter family protein
      pfam02931
      Location:31236
      Neur_chan_LBD; Neurotransmitter-gated ion-channel ligand binding domain
      pfam02932
      Location:244474
      Neur_chan_memb; Neurotransmitter-gated ion-channel transmembrane region
    2. NM_001403681.1NP_001390610.1  neuronal acetylcholine receptor subunit alpha-9 isoform b

      Status: VALIDATED

      Source sequence(s)
      AC115293
    3. NM_001403682.1NP_001390611.1  neuronal acetylcholine receptor subunit alpha-9 isoform c

      Status: VALIDATED

      Source sequence(s)
      AC115293
    4. NM_001403683.1NP_001390612.1  neuronal acetylcholine receptor subunit alpha-9 isoform d

      Status: VALIDATED

      Source sequence(s)
      AC115293
    5. NM_001403684.1NP_001390613.1  neuronal acetylcholine receptor subunit alpha-9 isoform d

      Status: VALIDATED

      Source sequence(s)
      AC115293

    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_000071.7 Reference GRCm39 C57BL/6J

      Range
      66092317..66134823
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030254389.1XP_030110249.1  neuronal acetylcholine receptor subunit alpha-9 isoform X3

      Conserved Domains (3) summary
      TIGR00860
      Location:2405
      LIC; Cation transporter family protein
      cd03558
      Location:86100
      LGIC_ECD; Cys-loop [structural motif]
      cl28912
      Location:1168
      LGIC_ECD; extracellular domain (ECD) of Cys-loop neurotransmitter-gated ion channels (also known as ligand-gated ion channel (LGIC))