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    Prf1 perforin 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 50669, updated on 2-Oct-2017
    Official Symbol
    Prf1provided by RGD
    Official Full Name
    perforin 1provided by RGD
    Primary source
    RGD:708463
    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
    Cyta; RATCYTA
    Summary
    cytolytic factor present in cytoplasmic granules [RGD, Feb 2006]
    Expression
    Biased expression in Spleen (RPKM 311.8), Lung (RPKM 246.6) and 5 other tissues See more
    Orthologs
    Location:
    20q11
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    106 current Rnor_6.0 (GCF_000001895.5) 20 NC_005119.4 (30915294..30920804)
    104 previous assembly Rnor_5.0 (GCF_000001895.4) 20 NC_005119.3 (32706313..32711823)

    Chromosome 20 - NC_005119.4Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC108349065 Neighboring gene thymus, brain and testes associated Neighboring gene ADAM metallopeptidase with thrombospondin type 1 motif, 14 Neighboring gene phosphatase domain containing, paladin 1 Neighboring gene nodal growth differentiation factor

    • 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

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    • Allograft rejection, organism-specific biosystem (from KEGG)
      Allograft rejection, organism-specific biosystemAllograft rejection is the consequence of the recipient's alloimmune response to nonself antigens expressed by donor tissues. After transplantation of organ allografts, there are two pathways of anti...
    • Allograft rejection, conserved biosystem (from KEGG)
      Allograft rejection, conserved biosystemAllograft rejection is the consequence of the recipient's alloimmune response to nonself antigens expressed by donor tissues. After transplantation of organ allografts, there are two pathways of anti...
    • Apoptosis, organism-specific biosystem (from KEGG)
      Apoptosis, organism-specific biosystemApoptosis is a genetically programmed process for the elimination of damaged or redundant cells by activation of caspases (aspartate-specific cysteine proteases). The onset of apoptosis is controlled...
    • Apoptosis, organism-specific biosystem (from WikiPathways)
      Apoptosis, organism-specific biosystemApoptosis is a distinct form of cell death that is functionally and morphologically different from necrosis. Nuclear chromatin condensation, cytoplasmic shrinking, dilated endoplasmic reticulum, and ...
    • Apoptosis, conserved biosystem (from KEGG)
      Apoptosis, conserved biosystemApoptosis is a genetically programmed process for the elimination of damaged or redundant cells by activation of caspases (aspartate-specific cysteine proteases). The onset of apoptosis is controlled...
    • Autoimmune thyroid disease, organism-specific biosystem (from KEGG)
      Autoimmune thyroid disease, organism-specific biosystemThe classification of autoimmune throid disease (AITD) includes Hashimoto's thyroiditis (HT) or chronic autoimmune thyroiditis and its variants, Graves' disease (GD) and autoimmune atrophic thyroidi...
    • Autoimmune thyroid disease, conserved biosystem (from KEGG)
      Autoimmune thyroid disease, conserved biosystemThe classification of autoimmune throid disease (AITD) includes Hashimoto's thyroiditis (HT) or chronic autoimmune thyroiditis and its variants, Graves' disease (GD) and autoimmune atrophic thyroidi...
    • Graft-versus-host disease, organism-specific biosystem (from KEGG)
      Graft-versus-host disease, organism-specific biosystemGraft-versus-host disease (GVHD) is a lethal complication of allogeneic hematopoietic stem cell transplantation (HSCT) where immunocompetent donor T cells attack the genetically disparate host cells....
    • Graft-versus-host disease, conserved biosystem (from KEGG)
      Graft-versus-host disease, conserved biosystemGraft-versus-host disease (GVHD) is a lethal complication of allogeneic hematopoietic stem cell transplantation (HSCT) where immunocompetent donor T cells attack the genetically disparate host cells....
    • Natural killer cell mediated cytotoxicity, organism-specific biosystem (from KEGG)
      Natural killer cell mediated cytotoxicity, organism-specific biosystemNatural killer (NK) cells are lymphocytes of the innate immune system that are involved in early defenses against both allogeneic (nonself) cells and autologous cells undergoing various forms of stre...
    • Natural killer cell mediated cytotoxicity, conserved biosystem (from KEGG)
      Natural killer cell mediated cytotoxicity, conserved biosystemNatural killer (NK) cells are lymphocytes of the innate immune system that are involved in early defenses against both allogeneic (nonself) cells and autologous cells undergoing various forms of stre...
    • Type I diabetes mellitus, organism-specific biosystem (from KEGG)
      Type I diabetes mellitus, organism-specific biosystemType I diabetes mellitus is a disease that results from autoimmune destruction of the insulin-producing beta-cells. Certain beta-cell proteins act as autoantigens after being processed by antigen-pre...
    • Type I diabetes mellitus, conserved biosystem (from KEGG)
      Type I diabetes mellitus, conserved biosystemType I diabetes mellitus is a disease that results from autoimmune destruction of the insulin-producing beta-cells. Certain beta-cell proteins act as autoantigens after being processed by antigen-pre...
    • Viral myocarditis, organism-specific biosystem (from KEGG)
      Viral myocarditis, organism-specific biosystemMyocarditis is a cardiac disease associated with inflammation and injury of the myocardium. It results from various etiologies, both noninfectious and infectious, but coxsackievirus B3 (CVB3) is stil...

    Markers

    Homology

    Clone Names

    • MGC108712

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    calcium ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    calcium ion binding ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    calcium ion binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    identical protein binding IEA
    Inferred from Electronic Annotation
    more info
     
    identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    molecular_function ND
    No biological Data available
    more info
     
    wide pore channel activity IEA
    Inferred from Electronic Annotation
    more info
     
    wide pore channel activity ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    wide pore channel activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Process Evidence Code Pubs
    apoptotic process IDA
    Inferred from Direct Assay
    more info
    PubMed 
    circadian rhythm IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    cytolysis IEA
    Inferred from Electronic Annotation
    more info
     
    cytolysis ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    cytolysis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    defense response to tumor cell IEA
    Inferred from Electronic Annotation
    more info
     
    defense response to tumor cell ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    defense response to tumor cell ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    defense response to virus IEA
    Inferred from Electronic Annotation
    more info
     
    defense response to virus ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    defense response to virus ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    immune response to tumor cell IEA
    Inferred from Electronic Annotation
    more info
     
    immune response to tumor cell ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    immune response to tumor cell ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    immunological synapse formation IEA
    Inferred from Electronic Annotation
    more info
     
    immunological synapse formation ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    positive regulation of killing of cells of other organism IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of killing of cells of other organism ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    protein homooligomerization IEA
    Inferred from Electronic Annotation
    more info
     
    protein homooligomerization ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    protein homooligomerization ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    response to ethanol IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    transmembrane transport IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    cytolytic granule IEA
    Inferred from Electronic Annotation
    more info
     
    cytolytic granule ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    cytolytic granule ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    cytoplasmic vesicle IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cytoplasmic vesicle IEA
    Inferred from Electronic Annotation
    more info
     
    cytoplasmic vesicle ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    cytosol IEA
    Inferred from Electronic Annotation
    more info
     
    cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    endosome lumen IEA
    Inferred from Electronic Annotation
    more info
     
    extracellular space IDA
    Inferred from Direct Assay
    more info
    PubMed 
    integral component of membrane IEA
    Inferred from Electronic Annotation
    more info
     
    integral component of membrane ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    integral component of membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    membrane ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    plasma membrane IEA
    Inferred from Electronic Annotation
    more info
     
    Preferred Names
    perforin-1
    Names
    P1
    cytolysin
    lymphocyte pore-forming protein
    perforin 1 (pore forming protein)

    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_017330.2NP_059026.2  perforin-1 precursor

      See identical proteins and their annotated locations for NP_059026.2

      Status: PROVISIONAL

      Source sequence(s)
      BC089808
      UniProtKB/TrEMBL
      Q5FVS5
      Conserved Domains (2) summary
      cd04032
      Location:387513
      C2_Perforin; C2 domain of Perforin
      smart00457
      Location:166368
      MACPF; membrane-attack complex / perforin

    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_005119.4 Reference Rnor_6.0 Primary Assembly

      Range
      30915294..30920804
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate Rn_Celera

    Genomic

    1. AC_000088.1 Alternate Rn_Celera

      Range
      30679378..30684888
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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