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    Thbs1 thrombospondin 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 445442, updated on 19-Apr-2019

    Summary

    Symbol
    Thbs1provided by RGD
    Full Name
    thrombospondin 1provided by RGD
    Primary source
    RGD:1588455
    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
    Tsp1; TSP-1
    Annotation information
    Annotation category: partial on reference assembly
    Expression
    Biased expression in Uterus (RPKM 700.5), Kidney (RPKM 591.6) and 5 other tissues See more
    Orthologs

    Genomic context

    See Thbs1 in Genome Data Viewer
    Location:
    3q35
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    106 current Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (109862120..109873466)
    104 previous assembly Rnor_5.0 (GCF_000001895.4) 3 NC_005102.3 (116411045..116422101)

    Chromosome 3 - NC_005102.4Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC103691867 Neighboring gene uncharacterized LOC102547459 Neighboring gene cyclin-dependent kinases regulatory subunit 2 pseudogene Neighboring gene fibrous sheath interacting protein 1 Neighboring gene G protein-coupled receptor 176

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Pathways from BioSystems

    • Bladder cancer, organism-specific biosystem (from KEGG)
      Bladder cancer, organism-specific biosystemThe urothelium covers the luminal surface of almost the entire urinary tract, extending from the renal pelvis, through the ureter and bladder, to the proximal urethra. The majority of urothelial carc...
    • Bladder cancer, conserved biosystem (from KEGG)
      Bladder cancer, conserved biosystemThe urothelium covers the luminal surface of almost the entire urinary tract, extending from the renal pelvis, through the ureter and bladder, to the proximal urethra. The majority of urothelial carc...
    • ECM-receptor interaction, organism-specific biosystem (from KEGG)
      ECM-receptor interaction, organism-specific biosystemThe extracellular matrix (ECM) consists of a complex mixture of structural and functional macromolecules and serves an important role in tissue and organ morphogenesis and in the maintenance of cell ...
    • ECM-receptor interaction, conserved biosystem (from KEGG)
      ECM-receptor interaction, conserved biosystemThe extracellular matrix (ECM) consists of a complex mixture of structural and functional macromolecules and serves an important role in tissue and organ morphogenesis and in the maintenance of cell ...
    • Extracellular matrix organization, organism-specific biosystem (from REACTOME)
      Extracellular matrix organization, organism-specific biosystemcomputationally inferred pathway (not manually curated)
    • Focal Adhesion, organism-specific biosystem (from WikiPathways)
      Focal Adhesion, organism-specific biosystemCell-matrix adhesions play essential roles in important biological processes including cell motility, cell proliferation, cell differentiation, regulation of gene expression and cell survival. At the...
    • Focal adhesion, organism-specific biosystem (from KEGG)
      Focal adhesion, organism-specific biosystemCell-matrix adhesions play essential roles in important biological processes including cell motility, cell proliferation, cell differentiation, regulation of gene expression and cell survival. At the...
    • Focal adhesion, conserved biosystem (from KEGG)
      Focal adhesion, conserved biosystemCell-matrix adhesions play essential roles in important biological processes including cell motility, cell proliferation, cell differentiation, regulation of gene expression and cell survival. At the...
    • Hemostasis, organism-specific biosystem (from REACTOME)
      Hemostasis, organism-specific biosystemcomputationally inferred pathway (not manually curated)
    • Inflammatory Response Pathway, organism-specific biosystem (from WikiPathways)
      Inflammatory Response Pathway, organism-specific biosystem
      Inflammatory Response Pathway
    • Integrin cell surface interactions, organism-specific biosystem (from REACTOME)
      Integrin cell surface interactions, organism-specific biosystemcomputationally inferred pathway (not manually curated)
    • Malaria, organism-specific biosystem (from KEGG)
      Malaria, organism-specific biosystemPlasmodium protozoa are parasites that account for malaria infection. Sporozoite forms of the parasite are injected by mosquito bites under the skin and are carried to the liver where they develop in...
    • Malaria, conserved biosystem (from KEGG)
      Malaria, conserved biosystemPlasmodium protozoa are parasites that account for malaria infection. Sporozoite forms of the parasite are injected by mosquito bites under the skin and are carried to the liver where they develop in...
    • Metabolism of proteins, organism-specific biosystem (from REACTOME)
      Metabolism of proteins, organism-specific biosystemcomputationally inferred pathway (not manually curated)
    • MicroRNAs in cancer, organism-specific biosystem (from KEGG)
      MicroRNAs in cancer, organism-specific biosystemMicroRNA (miRNA) is a cluster of small non-encoding RNA molecules of 21 - 23 nucleotides in length, which controls gene expression post-transcriptionally either via the degradation of target mRNAs or...
    • MicroRNAs in cancer, conserved biosystem (from KEGG)
      MicroRNAs in cancer, conserved biosystemMicroRNA (miRNA) is a cluster of small non-encoding RNA molecules of 21 - 23 nucleotides in length, which controls gene expression post-transcriptionally either via the degradation of target mRNAs or...
    • O-glycosylation of TSR domain-containing proteins, organism-specific biosystem (from REACTOME)
      O-glycosylation of TSR domain-containing proteins, organism-specific biosystemcomputationally inferred pathway (not manually curated)
    • O-linked glycosylation, organism-specific biosystem (from REACTOME)
      O-linked glycosylation, organism-specific biosystemcomputationally inferred pathway (not manually curated)
    • PI3K-Akt signaling pathway, organism-specific biosystem (from KEGG)
      PI3K-Akt signaling pathway, organism-specific biosystemThe phosphatidylinositol 3' -kinase(PI3K)-Akt signaling pathway is activated by many types of cellular stimuli or toxic insults and regulates fundamental cellular functions such as transcription, tra...
    • PI3K-Akt signaling pathway, conserved biosystem (from KEGG)
      PI3K-Akt signaling pathway, conserved biosystemThe phosphatidylinositol 3' -kinase(PI3K)-Akt signaling pathway is activated by many types of cellular stimuli or toxic insults and regulates fundamental cellular functions such as transcription, tra...
    • Phagosome, organism-specific biosystem (from KEGG)
      Phagosome, organism-specific biosystemPhagocytosis is the process of taking in relatively large particles by a cell, and is a central mechanism in the tissue remodeling, inflammation, and defense against infectious agents. A phagosome is...
    • Phagosome, conserved biosystem (from KEGG)
      Phagosome, conserved biosystemPhagocytosis is the process of taking in relatively large particles by a cell, and is a central mechanism in the tissue remodeling, inflammation, and defense against infectious agents. A phagosome is...
    • Platelet activation, signaling and aggregation, organism-specific biosystem (from REACTOME)
      Platelet activation, signaling and aggregation, organism-specific biosystemcomputationally inferred pathway (not manually curated)
    • Platelet degranulation, organism-specific biosystem (from REACTOME)
      Platelet degranulation, organism-specific biosystemcomputationally inferred pathway (not manually curated)
    • Post-translational protein modification, organism-specific biosystem (from REACTOME)
      Post-translational protein modification, organism-specific biosystemcomputationally inferred pathway (not manually curated)
    • Proteoglycans in cancer, organism-specific biosystem (from KEGG)
      Proteoglycans in cancer, organism-specific biosystemMany proteoglycans (PGs) in the tumor microenvironment have been shown to be key macromolecules that contribute to biology of various types of cancer including proliferation, adhesion, angiogenesis a...
    • Proteoglycans in cancer, conserved biosystem (from KEGG)
      Proteoglycans in cancer, conserved biosystemMany proteoglycans (PGs) in the tumor microenvironment have been shown to be key macromolecules that contribute to biology of various types of cancer including proliferation, adhesion, angiogenesis a...
    • Rap1 signaling pathway, organism-specific biosystem (from KEGG)
      Rap1 signaling pathway, organism-specific biosystemRap1 is a small GTPase that controls diverse processes, such as cell adhesion, cell-cell junction formation and cell polarity. Like all G proteins, Rap1 cycles between an inactive GDP-bound and an ac...
    • Rap1 signaling pathway, conserved biosystem (from KEGG)
      Rap1 signaling pathway, conserved biosystemRap1 is a small GTPase that controls diverse processes, such as cell adhesion, cell-cell junction formation and cell polarity. Like all G proteins, Rap1 cycles between an inactive GDP-bound and an ac...
    • Response to elevated platelet cytosolic Ca2+, organism-specific biosystem (from REACTOME)
      Response to elevated platelet cytosolic Ca2+, organism-specific biosystemcomputationally inferred pathway (not manually curated)
    • Signal Transduction, organism-specific biosystem (from REACTOME)
      Signal Transduction, organism-specific biosystemcomputationally inferred pathway (not manually curated)
    • Signaling by PDGF, organism-specific biosystem (from REACTOME)
      Signaling by PDGF, organism-specific biosystemcomputationally inferred pathway (not manually curated)
    • TGF Beta Signaling Pathway, organism-specific biosystem (from WikiPathways)
      TGF Beta Signaling Pathway, organism-specific biosystemThe Transforming growth factor beta (TGFβ) signaling pathway is involved in many cellular processes in both the adult organism and the developing embryo including cell growth, cell differentiat...
    • TGF-beta signaling pathway, organism-specific biosystem (from KEGG)
      TGF-beta signaling pathway, organism-specific biosystemThe transforming growth factor-beta (TGF-beta) family members, which include TGF-betas, activins and bone morphogenetic proteins (BMPs), are structurally related secreted cytokines found in species r...
    • TGF-beta signaling pathway, conserved biosystem (from KEGG)
      TGF-beta signaling pathway, conserved biosystemThe transforming growth factor-beta (TGF-beta) family members, which include TGF-betas, activins and bone morphogenetic proteins (BMPs), are structurally related secreted cytokines found in species r...
    • p53 signaling pathway, organism-specific biosystem (from KEGG)
      p53 signaling pathway, organism-specific biosystemp53 activation is induced by a number of stress signals, including DNA damage, oxidative stress and activated oncogenes. The p53 protein is employed as a transcriptional activator of p53-regulated ge...
    • p53 signaling pathway, conserved biosystem (from KEGG)
      p53 signaling pathway, conserved biosystemp53 activation is induced by a number of stress signals, including DNA damage, oxidative stress and activated oncogenes. The p53 protein is employed as a transcriptional activator of p53-regulated ge...

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    collagen V binding ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    extracellular matrix binding ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    fibrinogen binding ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    fibroblast growth factor binding ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    fibronectin binding ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    heparin binding ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    integrin binding ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    laminin binding ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    low-density lipoprotein particle binding ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    phosphatidylserine binding ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    transforming growth factor beta binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Process Evidence Code Pubs
    activation of MAPK activity ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    behavioral response to pain ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    blood vessel morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    cell cycle arrest ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    cell migration ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    cellular response to growth factor stimulus IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    cellular response to nitric oxide ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    cellular response to tumor necrosis factor IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    chronic inflammatory response ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    endocardial cushion development ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    engulfment of apoptotic cell ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    growth plate cartilage development ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    immune response ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    inflammatory response ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    negative regulation of angiogenesis IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    negative regulation of angiogenesis IDA
    Inferred from Direct Assay
    more info
    PubMed 
    negative regulation of angiogenesis ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    negative regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    negative regulation of apoptotic process ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    negative regulation of blood vessel endothelial cell migration ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    negative regulation of blood vessel endothelial cell proliferation involved in sprouting angiogenesis ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    negative regulation of cGMP-mediated signaling ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    negative regulation of cell migration involved in sprouting angiogenesis ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    negative regulation of cell-matrix adhesion ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    negative regulation of cysteine-type endopeptidase activity involved in apoptotic process ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    negative regulation of dendritic cell antigen processing and presentation ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    negative regulation of endothelial cell chemotaxis ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    negative regulation of endothelial cell migration ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    negative regulation of endothelial cell proliferation ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    negative regulation of fibrinolysis ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    negative regulation of fibroblast growth factor receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    negative regulation of interleukin-12 production ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    negative regulation of nitric oxide mediated signal transduction ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    negative regulation of plasma membrane long-chain fatty acid transport ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    negative regulation of plasminogen activation ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    negative regulation of sprouting angiogenesis ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    outflow tract morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    peptide cross-linking ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    positive regulation of angiogenesis ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    positive regulation of blood coagulation ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    positive regulation of blood vessel endothelial cell migration ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    positive regulation of cell migration ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    positive regulation of cell proliferation ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    positive regulation of cell-substrate adhesion ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    positive regulation of chemotaxis ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    positive regulation of endothelial cell apoptotic process ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    positive regulation of endothelial cell migration ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    positive regulation of extrinsic apoptotic signaling pathway via death domain receptors ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    positive regulation of fibroblast migration ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    positive regulation of macrophage activation ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    positive regulation of macrophage chemotaxis ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    positive regulation of phosphorylation ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    positive regulation of protein kinase B signaling ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    positive regulation of reactive oxygen species metabolic process ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    positive regulation of smooth muscle cell proliferation ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    positive regulation of transforming growth factor beta production IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of transforming growth factor beta receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    positive regulation of translation ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    positive regulation of tumor necrosis factor biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    response to calcium ion ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    response to drug ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    response to endoplasmic reticulum stress ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    response to glucose ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    response to magnesium ion ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    response to mechanical stimulus IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    response to testosterone IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    sprouting angiogenesis ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    Component Evidence Code Pubs
    cell surface ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    collagen-containing extracellular matrix IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    external side of plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    extracellular matrix ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    extracellular space IDA
    Inferred from Direct Assay
    more info
    PubMed 
    extracellular space ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    fibrinogen complex ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    platelet alpha granule ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    sarcoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    secretory granule ISO
    Inferred from Sequence Orthology
    more info
    PubMed 

    NCBI Reference Sequences (RefSeq)

    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_001013062.1NP_001013080.1  thrombospondin-1 precursor

      See identical proteins and their annotated locations for NP_001013080.1

      Status: PROVISIONAL

      Source sequence(s)
      AF309630
      UniProtKB/TrEMBL
      Q71SA3
      Conserved Domains (10) summary
      smart00209
      Location:438490
      TSP1; Thrombospondin type 1 repeats
      smart00210
      Location:26221
      TSPN; Thrombospondin N-terminal -like domains
      sd00001
      Location:763785
      TSP3; TSP3 repeat_short [structural motif]
      sd00002
      Location:787821
      TSP3; TSP3 repeat_long [structural motif]
      sd00003
      Location:691726
      TSP3_1C; TSP3 repeat_1C [structural motif]
      pfam00090
      Location:383428
      TSP_1; Thrombospondin type 1 domain
      pfam00093
      Location:318372
      VWC; von Willebrand factor type C domain
      pfam02412
      Location:846882
      TSP_3; Thrombospondin type 3 repeat
      pfam05735
      Location:9721169
      TSP_C; Thrombospondin C-terminal region
      pfam12947
      Location:650689
      EGF_3; EGF domain

    RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

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

    Reference Rnor_6.0 Primary Assembly

    Genomic

    1. NC_005102.4 Reference Rnor_6.0 Primary Assembly

      Range
      109862120..109873466
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate Rn_Celera

    Genomic

    1. AC_000071.1 Alternate Rn_Celera

      Range
      103978436..103990486
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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