U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Tspan9 tetraspanin 9 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 312728, updated on 27-Nov-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Tspan9provided by RGD
    Official Full Name
    tetraspanin 9provided by RGD
    Primary source
    RGD:1304740
    See related
    EnsemblRapid:ENSRNOG00000051620 AllianceGenome:RGD:1304740
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1304740
    Summary
    Predicted to act upstream of or within several processes, including collagen-activated tyrosine kinase receptor signaling pathway; mitocytosis; and platelet aggregation. Predicted to be located in migrasome and tetraspanin-enriched microdomain. Predicted to be active in plasma membrane. Orthologous to human TSPAN9 (tetraspanin 9). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Lung (RPKM 216.1), Heart (RPKM 184.2) and 9 other tissues 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 Tspan9 in Genome Data Viewer
    Location:
    4q42
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (162500029..162681699, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (160813879..160995574, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (160530726..160725056, complement)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134486641 Neighboring gene uncharacterized LOC134486845 Neighboring gene tetraspanin 11 Neighboring gene RIKEN cDNA 4930433N12 gene like Neighboring gene Sumo1/sentrin/SMT3 specific peptidase 18 Neighboring gene SUMO specific peptidase 2, pseudogene 3

    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. Functional relevance of tetraspanin CD9 in vascular smooth muscle cell injury phenotypes: a novel target for the prevention of neointimal hyperplasia. Kotha J, et al. Atherosclerosis, 2009 Apr. PMID 18799160
    2. Identification of Tspan9 as a novel platelet tetraspanin and the collagen receptor GPVI as a component of tetraspanin microdomains. Protty MB, et al. Biochem J, 2009 Jan 1. PMID 18795891, Free PMC Article
    3. Analysis of the myosin-II-responsive focal adhesion proteome reveals a role for β-Pix in negative regulation of focal adhesion maturation. Kuo JC, et al. Nat Cell Biol, 2011 Apr. PMID 21423176, Free PMC Article
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. tetraspanin CD9 has a role in determining vascular smooth muscle cell injury phenotypes
      Title: Functional relevance of tetraspanin CD9 in vascular smooth muscle cell injury phenotypes: a novel target for the prevention of neointimal hyperplasia.
    Submit: New GeneRIF Correction

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    acts_upstream_of_or_within collagen-activated tyrosine kinase receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within mitocytosis ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within neutrophil homeostasis ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within platelet aggregation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within positive regulation of peptidyl-tyrosine phosphorylation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within receptor diffusion trapping ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within regulation of mitochondrial membrane potential ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in migrasome ISO
    Inferred from Sequence Orthology
    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
    		  
    located_in tetraspanin-enriched microdomain ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    tetraspanin-9

    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_001107890.1 → NP_001101360.1  tetraspanin-9

      See identical proteins and their annotated locations for NP_001101360.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473964
      UniProtKB/TrEMBL
      A6ILZ1, D4AAV9
      Related
      ENSRNOP00000075377.1, ENSRNOT00000090725.3
      Conserved Domains (2) summary
      cd03165
      Location:196 → 293
      NET-5_like_LEL; Tetraspanin, extracellular domain or large extracellular loop (LEL), NET-5_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model ...
      pfam00335
      Location:100 → 317
      Tetraspannin; Tetraspanin family

    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_086022.1 Reference GRCr8

      Range
      162500029..162681699 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006237498.5 → XP_006237560.1  tetraspanin-9 isoform X1

      See identical proteins and their annotated locations for XP_006237560.1

      UniProtKB/TrEMBL
      A0A0G2JY11
      Conserved Domains (2) summary
      cd03165
      Location:105 → 202
      NET-5_like_LEL; Tetraspanin, extracellular domain or large extracellular loop (LEL), NET-5_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model ...
      pfam00335
      Location:9 → 226
      Tetraspannin; Tetraspanin family

    2. XM_063286149.1 → XP_063142219.1  tetraspanin-9 isoform X2

    3. XM_006237495.5 → XP_006237557.1  tetraspanin-9 isoform X1

      See identical proteins and their annotated locations for XP_006237557.1

      UniProtKB/TrEMBL
      A0A0G2JY11
      Conserved Domains (2) summary
      cd03165
      Location:105 → 202
      NET-5_like_LEL; Tetraspanin, extracellular domain or large extracellular loop (LEL), NET-5_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model ...
      pfam00335
      Location:9 → 226
      Tetraspannin; Tetraspanin family

    4. XM_039107691.2 → XP_038963619.1  tetraspanin-9 isoform X2

      Conserved Domains (1) summary
      cd03165
      Location:41 → 138
      NET-5_like_LEL; Tetraspanin, extracellular domain or large extracellular loop (LEL), NET-5_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model ...

    5. XM_006237494.5 → XP_006237556.1  tetraspanin-9 isoform X1

      See identical proteins and their annotated locations for XP_006237556.1

      UniProtKB/TrEMBL
      A0A0G2JY11
      Conserved Domains (2) summary
      cd03165
      Location:105 → 202
      NET-5_like_LEL; Tetraspanin, extracellular domain or large extracellular loop (LEL), NET-5_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model ...
      pfam00335
      Location:9 → 226
      Tetraspannin; Tetraspanin family

    6. XM_063286150.1 → XP_063142220.1  tetraspanin-9 isoform X2

    7. XM_006237496.5 → XP_006237558.1  tetraspanin-9 isoform X1

      See identical proteins and their annotated locations for XP_006237558.1

      UniProtKB/TrEMBL
      A0A0G2JY11
      Conserved Domains (2) summary
      cd03165
      Location:105 → 202
      NET-5_like_LEL; Tetraspanin, extracellular domain or large extracellular loop (LEL), NET-5_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model ...
      pfam00335
      Location:9 → 226
      Tetraspannin; Tetraspanin family

    8. XM_017592656.3 → XP_017448145.1  tetraspanin-9 isoform X1

      UniProtKB/TrEMBL
      A0A0G2JY11
      Conserved Domains (2) summary
      cd03165
      Location:105 → 202
      NET-5_like_LEL; Tetraspanin, extracellular domain or large extracellular loop (LEL), NET-5_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model ...
      pfam00335
      Location:9 → 226
      Tetraspannin; Tetraspanin family

    9. XM_017592655.3 → XP_017448144.1  tetraspanin-9 isoform X1

      UniProtKB/TrEMBL
      A0A0G2JY11
      Conserved Domains (2) summary
      cd03165
      Location:105 → 202
      NET-5_like_LEL; Tetraspanin, extracellular domain or large extracellular loop (LEL), NET-5_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model ...
      pfam00335
      Location:9 → 226
      Tetraspannin; Tetraspanin family

    10. XM_063286148.1 → XP_063142218.1  tetraspanin-9 isoform X1

      UniProtKB/TrEMBL
      A0A0G2JY11
    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.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools