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    Shisa9 shisa family member 9 [ Mus musculus (house mouse) ]

    Gene ID: 72555, updated on 9-Dec-2024

    Summary

    Official Symbol
    Shisa9provided by MGI
    Official Full Name
    shisa family member 9provided by MGI
    Primary source
    MGI:MGI:1919805
    See related
    Ensembl:ENSMUSG00000022494 AllianceGenome:MGI:1919805
    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
    Ckamp44; 2700045P11Rik
    Summary
    Enables PDZ domain binding activity. Involved in regulation of postsynaptic neurotransmitter receptor activity and regulation of short-term neuronal synaptic plasticity. Acts upstream of or within regulation of AMPA receptor activity. Located in dendritic spine membrane. Part of AMPA glutamate receptor complex. Is active in glutamatergic synapse and postsynaptic density membrane. Is expressed in brain. Orthologous to human SHISA9 (shisa family member 9). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in frontal lobe adult (RPKM 7.4), CNS E18 (RPKM 4.4) and 6 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See Shisa9 in Genome Data Viewer
    Location:
    16 A1; 16 6.89 cM
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 16 NC_000082.7 (11801457..12088768)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 16 NC_000082.6 (11983593..12270904)

    Chromosome 16 - NC_000082.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 4833415N18 gene Neighboring gene calcineurin-like phosphoesterase domain containing 1 Neighboring gene STARR-seq mESC enhancer starr_40112 Neighboring gene predicted gene 9961 Neighboring gene predicted gene, 32278 Neighboring gene STARR-seq mESC enhancer starr_40114 Neighboring gene predicted gene, 19571 Neighboring gene developmental pluripotency associated 2 pseudogene

    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 (1) 
    • Targeted (1)  1 citation

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables PDZ domain binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Component Evidence Code Pubs
    part_of AMPA glutamate receptor complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of AMPA glutamate receptor complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in dendritic spine membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in dendritic spine membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in glutamatergic synapse IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in glutamatergic synapse IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    is_active_in glutamatergic synapse IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    part_of ionotropic glutamate receptor complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in postsynaptic density IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    is_active_in postsynaptic density membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in postsynaptic density membrane IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    is_active_in postsynaptic density membrane IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    is_active_in postsynaptic membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in synapse IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    protein shisa-9
    Names
    cystine-knot AMPAR modulating protein of 44 kDa
    shisa homolog 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_001174086.1NP_001167557.1  protein shisa-9 isoform 2 precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2, also known as CKAMP44b) lacks an alternate in-frame exon in the 3' coding region, compared to variant 1, resulting in an isoform (2) that is shorter than isoform 1. Isoform 2 contains an in-frame start site 41 codons upstream from the currently annotated site, but signal sequence considerations and orthology data support use of the downstream AUG.
      Source sequence(s)
      AC129020, AC154289, BC030884
      Consensus CDS
      CCDS49767.1
      UniProtKB/TrEMBL
      E9QN38
      Related
      ENSMUSP00000023138.7, ENSMUST00000023138.8
      Conserved Domains (1) summary
      pfam13908
      Location:72255
      Shisa; Wnt and FGF inhibitory regulator
    2. NM_028277.2NP_082553.2  protein shisa-9 isoform 1 precursor

      See identical proteins and their annotated locations for NP_082553.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1, also known as CKAMP44a) represents the longer transcript and encodes the longer isoform (1). Isoform 1 contains an in-frame start site 41 codons upstream from the currently annotated site, but signal sequence considerations and orthology data support use of the downstream AUG.
      Source sequence(s)
      AC129020, AC154289, AK049860
      Consensus CDS
      CCDS49766.1
      UniProtKB/Swiss-Prot
      D4NZG2, D4NZG3, Q9CZN4
      Related
      ENSMUSP00000132646.2, ENSMUST00000170672.9
      Conserved Domains (1) summary
      pfam13908
      Location:72255
      Shisa; Wnt and FGF inhibitory regulator

    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_000082.7 Reference GRCm39 C57BL/6J

      Range
      11801457..12088768
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030249286.1XP_030105146.1  protein shisa-9 isoform X2

      Conserved Domains (1) summary
      pfam13908
      Location:113222
      Shisa; Wnt and FGF inhibitory regulator
    2. XM_017317137.2XP_017172626.1  protein shisa-9 isoform X2

      Conserved Domains (1) summary
      pfam13908
      Location:113222
      Shisa; Wnt and FGF inhibitory regulator
    3. XM_036160140.1XP_036016033.1  protein shisa-9 isoform X1

      Conserved Domains (1) summary
      pfam13908
      Location:113296
      Shisa; Wnt and FGF inhibitory regulator
    4. XM_017317138.2XP_017172627.1  protein shisa-9 isoform X3

      Conserved Domains (1) summary
      pfam13908
      Location:113222
      Shisa; Wnt and FGF inhibitory regulator

    RNA

    1. XR_004939231.1 RNA Sequence

    2. XR_004939230.1 RNA Sequence

    3. XR_004939232.1 RNA Sequence