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Thbs2 thrombospondin 2 [ Rattus norvegicus (Norway rat) ]

Gene ID: 292406, updated on 2-Oct-2018

Summary

Official Symbol
Thbs2provided by RGD
Official Full Name
thrombospondin 2provided by RGD
Primary source
RGD:1310979
See related
Ensembl:ENSRNOG00000010529
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
Also known as
TSP-2
Expression
Biased expression in Heart (RPKM 228.2), Muscle (RPKM 141.8) and 9 other tissues See more
Orthologs

Genomic context

See Thbs2 in Genome Data Viewer
Location:
1q12
Exon count:
22
Annotation release Status Assembly Chr Location
106 current Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (56653929..56683571, complement)
104 previous assembly Rnor_5.0 (GCF_000001895.4) 1 NC_005100.3 (57842346..57871988, complement)

Chromosome 1 - NC_005100.4Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC108349078 Neighboring gene SPARC related modular calcium binding 2 Neighboring gene uncharacterized LOC103690994 Neighboring gene uncharacterized LOC108348724

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

  • Cardiovascular Signaling, organism-specific biosystem (from WikiPathways)
    Cardiovascular Signaling, organism-specific biosystem
    Cardiovascular Signaling
  • 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 ...
  • 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...
  • 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...
  • 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...
  • 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)

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
calcium ion binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
cell adhesion IEA
Inferred from Electronic Annotation
more info
 
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 IEP
Inferred from Expression Pattern
more info
PubMed 
negative regulation of angiogenesis ISO
Inferred from Sequence Orthology
more info
 
positive regulation of synapse assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
basement membrane ISO
Inferred from Sequence Orthology
more info
 
extracellular matrix ISO
Inferred from Sequence Orthology
more info
 
extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
platelet alpha granule IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
platelet alpha granule ISO
Inferred from Sequence Orthology
more info
 

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_001169138.1NP_001162609.1  thrombospondin-2 precursor

    Status: VALIDATED

    Source sequence(s)
    AABR07001762
    UniProtKB/TrEMBL
    D4A2G6
    Related
    ENSRNOP00000014552.6, ENSRNOT00000014552.7
    Conserved Domains (10) summary
    smart00209
    Location:497549
    TSP1; Thrombospondin type 1 repeats
    smart00210
    Location:22213
    TSPN; Thrombospondin N-terminal -like domains
    sd00001
    Location:847884
    TSP3; TSP3 repeat_long [structural motif]
    sd00002
    Location:789823
    TSP3; TSP3 repeat_long [structural motif]
    sd00003
    Location:693728
    TSP3_1C; TSP3 repeat_1C [structural motif]
    pfam00090
    Location:385430
    TSP_1; Thrombospondin type 1 domain
    pfam00093
    Location:320374
    VWC; von Willebrand factor type C domain
    pfam02412
    Location:848884
    TSP_3; Thrombospondin type 3 repeat
    pfam05735
    Location:9741171
    TSP_C; Thrombospondin C-terminal region
    pfam12947
    Location:652691
    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_005100.4 Reference Rnor_6.0 Primary Assembly

    Range
    56653929..56683571 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate Rn_Celera

Genomic

  1. AC_000069.1 Alternate Rn_Celera

    Range
    51888359..51917750 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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