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    F2 coagulation factor II, thrombin [ Rattus norvegicus (Norway rat) ]

    Gene ID: 29251, updated on 27-Nov-2024

    Summary

    Official Symbol
    F2provided by RGD
    Official Full Name
    coagulation factor II, thrombinprovided by RGD
    Primary source
    RGD:61996
    See related
    EnsemblRapid:ENSRNOG00000016325 AllianceGenome:RGD:61996
    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 several functions, including heparin binding activity; lipopolysaccharide binding activity; and serine-type endopeptidase activity. Involved in several processes, including cellular response to mechanical stimulus; response to thyrotropin-releasing hormone; and response to thyroxine. Located in collagen-containing extracellular matrix and extracellular space. Used to study several diseases, including atherosclerosis; end stage renal disease; hyperhomocysteinemia; obesity; and thrombophilia (multiple). Biomarker of bacterial pneumonia; brain edema; calcium oxalate nephrolithiasis; and thrombosis. Human ortholog(s) of this gene implicated in several diseases, including X-linked recessive disease (multiple); appendicitis; artery disease (multiple); autoimmune disease (multiple); and thrombophilia (multiple). Orthologous to human F2 (coagulation factor II, thrombin). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Restricted expression toward (RPKM 9803.3) See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Location:
    3q24
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (98051958..98065246, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (77596196..77609486, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (80529468..80542993, complement)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene cytoskeleton associated protein 5 Neighboring gene small nucleolar RNA, C/D box 67 Neighboring gene transfer RNA alanine (anticodon AGC) 76 Neighboring gene zinc finger protein 408 Neighboring gene Rho GTPase activating protein 1 Neighboring gene autophagy related 13

    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 Functions

    What's a GeneRIF?

    Pathways from PubChem

    General gene information

    Markers

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables calcium ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables endopeptidase activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables heparin binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables heparin binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables lipopolysaccharide binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables lipopolysaccharide binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables peptidase activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables receptor ligand activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables receptor ligand activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables serine-type endopeptidase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables serine-type endopeptidase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables serine-type endopeptidase activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables signaling receptor binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables thrombospondin receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables thrombospondin receptor activity ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    involved_in G protein-coupled receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in acute-phase response IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in antimicrobial humoral immune response mediated by antimicrobial peptide IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in antimicrobial humoral immune response mediated by antimicrobial peptide ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in blood coagulation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cell surface receptor signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cell surface receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cellular response to mechanical stimulus IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in cytolysis by host of symbiont cells IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in fibrinolysis IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in fibrinolysis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in ligand-gated ion channel signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in ligand-gated ion channel signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of astrocyte differentiation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of astrocyte differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of blood coagulation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of cytokine production involved in inflammatory response IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of cytokine production involved in inflammatory response ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of proteolysis IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of proteolysis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in neutrophil-mediated killing of gram-negative bacterium IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in platelet activation IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in platelet activation IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within platelet activation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in platelet activation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of blood coagulation IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in positive regulation of blood coagulation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of blood coagulation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of blood coagulation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of cell growth IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within positive regulation of cell growth ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of cell population proliferation IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within positive regulation of cell population proliferation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of collagen biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of collagen biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of insulin secretion IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of insulin secretion ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of phospholipase C-activating G protein-coupled receptor signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of phospholipase C-activating G protein-coupled receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of protein localization to nucleus IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of protein localization to nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of protein phosphorylation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of reactive oxygen species metabolic process IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of reactive oxygen species metabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of release of sequestered calcium ion into cytosol IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of release of sequestered calcium ion into cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in proteolysis IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in regulation of cell shape IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within regulation of cell shape ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of cytosolic calcium ion concentration IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in regulation of cytosolic calcium ion concentration ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within regulation of gene expression ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in response to Thyroglobulin triiodothyronine IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in response to inactivity IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in response to thyrotropin-releasing hormone IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in response to thyroxine IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in response to wounding ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in thrombin-activated receptor signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in thrombin-activated receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    is_active_in collagen-containing extracellular matrix IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in collagen-containing extracellular matrix IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in external side of plasma membrane IEA
    Inferred from Electronic Annotation
    more info
     
    located_in external side of plasma membrane ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in extracellular space IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in extracellular space IEA
    Inferred from Electronic Annotation
    more info
     
    located_in extracellular space ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    prothrombin
    Names
    coagulation factor 2
    thrombin
    NP_075213.2

    NCBI Reference Sequences (RefSeq)

    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_022924.2NP_075213.2  prothrombin precursor

      See identical proteins and their annotated locations for NP_075213.2

      Status: VALIDATED

      Source sequence(s)
      CO575133, DW391550, DW392486, DY318887, EX492416
      UniProtKB/Swiss-Prot
      P18292
      UniProtKB/TrEMBL
      A6HND0, G3V843
      Related
      ENSRNOP00000022233.3, ENSRNOT00000022233.7
      Conserved Domains (5) summary
      smart00069
      Location:2589
      GLA; Domain containing Gla (gamma-carboxyglutamate) residues
      smart00130
      Location:107189
      KR; Kringle domain
      cd00190
      Location:360612
      Tryp_SPc; Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad ...
      pfam00051
      Location:215292
      Kringle; Kringle domain
      pfam09396
      Location:313359
      Thrombin_light; Thrombin light chain

    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_086021.1 Reference GRCr8

      Range
      98051958..98065246 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)