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    F9 coagulation factor IX [ Rattus norvegicus (Norway rat) ]

    Gene ID: 24946, updated on 10-Oct-2019

    Summary

    Official Symbol
    F9provided by RGD
    Official Full Name
    coagulation factor IXprovided by RGD
    Primary source
    RGD:2589
    See related
    Ensembl:ENSRNOG00000003430
    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
    may act as a blood coagulation protease [RGD, Feb 2006]
    Expression
    Restricted expression toward (RPKM 2185.3) See more
    Orthologs

    Genomic context

    Location:
    Xq36
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    106 current Rnor_6.0 (GCF_000001895.5) X NC_005120.4 (143097507..143141791)
    104 previous assembly Rnor_5.0 (GCF_000001895.4) X NC_005120.3 (143127239..143171465)

    Chromosome X - NC_005120.4Genomic Context describing neighboring genes Neighboring gene fibroblast growth factor 13 Neighboring gene microfibrillar-associated protein 1 pseudogene Neighboring gene synaptophysin-like 1-like Neighboring gene MCF.2 cell line derived transforming sequence Neighboring gene ATPase phospholipid transporting 11C Neighboring gene microRNA 3589 Neighboring gene microRNA 505

    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 BioSystems

    General gene information

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    calcium ion binding ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    calcium ion binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    endopeptidase activity ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    endopeptidase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    molecular_function ND
    No biological Data available
    more info
     
    peptidase activity ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    serine-type endopeptidase activity IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    blood coagulation IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    blood coagulation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    blood coagulation ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    proteolysis ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    proteolysis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    zymogen activation IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    zymogen activation ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    zymogen activation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Component Evidence Code Pubs
    cellular_component ND
    No biological Data available
    more info
     
    extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    extracellular space ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    extracellular space ISS
    Inferred from Sequence or Structural Similarity
    more info
     

    General protein information

    Preferred Names
    coagulation factor IX
    Names
    Coagulation factor IX (plasma thromboplastic component, Christmas disease, hemophilia B)
    christmas factor
    coagulation factor 9
    NP_113728.1
    XP_017457404.1

    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_031540.1NP_113728.1  coagulation factor IX precursor

      See identical proteins and their annotated locations for NP_113728.1

      Status: VALIDATED

      Source sequence(s)
      AABR07041911, AABR07041914, FM036569, M26247
      UniProtKB/Swiss-Prot
      P16296
      Related
      ENSRNOP00000004559.6, ENSRNOT00000004559.7
      Conserved Domains (5) summary
      smart00020
      Location:227455
      Tryp_SPc; Trypsin-like serine protease
      smart00069
      Location:2185
      GLA; Domain containing Gla (gamma-carboxyglutamate) residues
      cd00054
      Location:86122
      EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
      cd00190
      Location:228458
      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 ...
      pfam14670
      Location:127163
      FXa_inhibition; Coagulation Factor Xa inhibitory site

    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_005120.4 Reference Rnor_6.0 Primary Assembly

      Range
      143097507..143141791
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017601915.1XP_017457404.1  coagulation factor IX isoform X1

    Alternate Rn_Celera

    Genomic

    1. AC_000089.1 Alternate Rn_Celera

      Range
      134429774..134473582
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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