U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Shisa9 shisa family member 9 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 100361134, updated on 9-Dec-2024

    Summary

    Go to the top of the page Help
    Symbol
    Shisa9provided by RGD
    Full Name
    shisa family member 9provided by RGD
    Primary source
    RGD:2320726
    See related
    EnsemblRapid:ENSRNOG00000063400 AllianceGenome:RGD:2320726
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable PDZ domain binding activity. Predicted to be involved in regulation of postsynaptic neurotransmitter receptor activity and regulation of short-term neuronal synaptic plasticity. Predicted to act upstream of or within regulation of AMPA receptor activity. Predicted to be located in dendritic spine membrane; postsynaptic density; and postsynaptic membrane. Predicted to be part of AMPA glutamate receptor complex. Predicted to be active in glutamatergic synapse and postsynaptic density membrane. Orthologous to human SHISA9 (shisa family member 9). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Brain (RPKM 59.8), Lung (RPKM 15.9) and 1 other tissue See more
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Shisa9 in Genome Data Viewer
    Location:
    10q11
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (3842625..4135618, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (3335616..3629334, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (2777675..3072842, complement)

    Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene sperm motility kinase 3A like 1 Neighboring gene sperm motility kinase 4A like Neighboring gene uncharacterized LOC108352046 Neighboring gene uncharacterized LOC134480743 Neighboring gene uncharacterized LOC120095014 Neighboring gene small nucleolar RNA SNORA48 Neighboring gene calcineurin-like phosphoesterase domain containing 1 Neighboring gene uncharacterized LOC120095243 Neighboring gene sorting nexin 29

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. C-terminal interactors of the AMPA receptor auxiliary subunit Shisa9. Karataeva AR, et al. PLoS One, 2014. PMID 24498314, Free PMC Article
    2. CKAMP44: a brain-specific protein attenuating short-term synaptic plasticity in the dentate gyrus. von Engelhardt J, et al. Science, 2010 Mar 19. PMID 20185686
    3. High-resolution proteomics unravel architecture and molecular diversity of native AMPA receptor complexes. Schwenk J, et al. Neuron, 2012 May 24. PMID 22632720

    GeneRIFs: Gene References Into Functions

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables PDZ domain binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within regulation of AMPA receptor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of postsynaptic neurotransmitter receptor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of postsynaptic neurotransmitter receptor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of short-term neuronal synaptic plasticity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of short-term neuronal synaptic plasticity ISO
    Inferred from Sequence Orthology
    more info
    		  
    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 ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in dendritic spine membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in dendritic spine membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in glutamatergic synapse ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of ionotropic glutamate receptor complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in postsynaptic density IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in postsynaptic density membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in postsynaptic membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in synapse ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    protein shisa-9; shisa family member 9
    Names
    shisa homolog 9
    shisa homolog 9-like

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    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_001430313.1 → NP_001417242.1  shisa family member 9 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000010
      UniProtKB/TrEMBL
      A0A8I6ATC9

    2. NM_001430314.1 → NP_001417243.1  shisa family member 9 isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000010

    3. NM_001430315.1 → NP_001417244.1  shisa family member 9 isoform 3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000010

    4. NM_001430316.1 → NP_001417245.1  shisa family member 9 isoform 4

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000010

    5. NM_001430317.1 → NP_001417246.1  shisa family member 9 isoform 5

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000010

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086028.1 Reference GRCr8

      Range
      3842625..4135618 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039087032.2 → XP_038942960.1  protein shisa-9 isoform X1

      UniProtKB/TrEMBL
      A0A8I6ACW8
      Related
      ENSRNOP00000089969.2, ENSRNOT00000107136.2
      Conserved Domains (1) summary
      pfam13908
      Location:113 → 296
      Shisa; Wnt and FGF inhibitory regulator

    2. XM_039087033.2 → XP_038942961.1  protein shisa-9 isoform X2

      Related
      ENSRNOP00000097822.2, ENSRNOT00000101218.2
      Conserved Domains (1) summary
      pfam13908
      Location:113 → 296
      Shisa; Wnt and FGF inhibitory regulator

    3. XM_039087034.2 → XP_038942962.1  protein shisa-9 isoform X3

      Conserved Domains (1) summary
      pfam13908
      Location:113 → 296
      Shisa; Wnt and FGF inhibitory regulator

    4. XM_039087035.2 → XP_038942963.1  protein shisa-9 isoform X4

      Conserved Domains (1) summary
      pfam13908
      Location:113 → 271
      Shisa; Wnt and FGF inhibitory regulator

    5. XM_039087036.2 → XP_038942964.1  protein shisa-9 isoform X5

      Conserved Domains (1) summary
      pfam13908
      Location:113 → 222
      Shisa; Wnt and FGF inhibitory regulator

    6. XM_063270075.1 → XP_063126145.1  protein shisa-9 isoform X6

    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.