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Tspan9 tetraspanin 9 [ Rattus norvegicus (Norway rat) ]

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

Summary

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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
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Genomic context

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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

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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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

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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

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Preferred Names
tetraspanin-9

NCBI Reference Sequences (RefSeq)

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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

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