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    Cxcl6 C-X-C motif chemokine ligand 6 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 60665, updated on 2-Oct-2018

    Summary

    Official Symbol
    Cxcl6provided by RGD
    Official Full Name
    C-X-C motif chemokine ligand 6provided by RGD
    Primary source
    RGD:708540
    See related
    Ensembl:ENSRNOG00000002843
    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
    Cxcl5
    Summary
    mouse homolog is a member of the CXC chemokine family, is a neutrophil chemoattractant and is rapidly induced in response to muscle injury [RGD, Feb 2006]
    Expression
    Biased expression in Spleen (RPKM 12.5), Uterus (RPKM 6.9) and 3 other tissues See more

    Genomic context

    See Cxcl6 in Genome Data Viewer
    Location:
    14p22
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    106 current Rnor_6.0 (GCF_000001895.5) 14 NC_005113.4 (18860201..18920839, complement)
    104 previous assembly Rnor_5.0 (GCF_000001895.4) 14 NC_005113.3 (18770999..18771910, complement)

    Chromosome 14 - NC_005113.4Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC108352723 Neighboring gene uncharacterized LOC103692658 Neighboring gene pro-platelet basic protein Neighboring gene Ras association domain family member 6 Neighboring gene similar to alpha-fetoprotein

    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

    General gene information

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    chemokine activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    chemokine activity IEA
    Inferred from Electronic Annotation
    more info
     
    chemokine activity IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    chemokine activity ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    animal organ regeneration IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    antimicrobial humoral immune response mediated by antimicrobial peptide IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    antimicrobial humoral immune response mediated by antimicrobial peptide IEA
    Inferred from Electronic Annotation
    more info
     
    antimicrobial humoral immune response mediated by antimicrobial peptide ISO
    Inferred from Sequence Orthology
    more info
     
    cellular response to lipopolysaccharide IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    cellular response to lipopolysaccharide IEA
    Inferred from Electronic Annotation
    more info
     
    cellular response to lipopolysaccharide IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    cellular response to lipopolysaccharide ISO
    Inferred from Sequence Orthology
    more info
     
    chemokine-mediated signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    cytokine production IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    defense response IEA
    Inferred from Electronic Annotation
    more info
     
    immune response IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    inflammatory response IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    inflammatory response IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    leukocyte chemotaxis IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    leukocyte homeostasis ISO
    Inferred from Sequence Orthology
    more info
     
    midbrain development IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    neutrophil activation IEA
    Inferred from Electronic Annotation
    more info
     
    neutrophil activation ISO
    Inferred from Sequence Orthology
    more info
     
    neutrophil chemotaxis IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    neutrophil chemotaxis IEA
    Inferred from Electronic Annotation
    more info
     
    neutrophil chemotaxis ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of JAK-STAT cascade IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of neuron projection development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    regulation of chemokine production ISO
    Inferred from Sequence Orthology
    more info
     
    regulation of neutrophil mediated killing of gram-negative bacterium ISO
    Inferred from Sequence Orthology
    more info
     
    regulation of signaling receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    response to gamma radiation IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    response to lipopolysaccharide ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    extracellular space IDA
    Inferred from Direct Assay
    more info
    PubMed 
    extracellular space IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    C-X-C motif chemokine 5
    Names
    CXC chemokine LIX
    chemokine (C-X-C motif) ligand 5
    chemokine (C-X-C motif) ligand 6 (granulocyte chemotactic protein 2)
    cytokine LIX
    small-inducible cytokine B5

    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_022214.1NP_071550.1  C-X-C motif chemokine 5 precursor

      See identical proteins and their annotated locations for NP_071550.1

      Status: PROVISIONAL

      Source sequence(s)
      U90448
      UniProtKB/Swiss-Prot
      P97885
      Related
      ENSRNOP00000003823.1, ENSRNOT00000003823.3
      Conserved Domains (1) summary
      cd00273
      Location:47109
      Chemokine_CXC; Chemokine_CXC: 1 of 4 subgroup designations based on the arrangement of the two N-terminal cysteine residues; includes a number of secreted growth factors and interferons involved in mitogenic, chemotactic, and inflammatory activity; many members ...

    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_005113.4 Reference Rnor_6.0 Primary Assembly

      Range
      18860201..18920839 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017599368.1XP_017454857.1  C-X-C motif chemokine 5 isoform X2

      UniProtKB/TrEMBL
      G3V6C8
      Conserved Domains (1) summary
      cd00273
      Location:47109
      Chemokine_CXC; Chemokine_CXC: 1 of 4 subgroup designations based on the arrangement of the two N-terminal cysteine residues; includes a number of secreted growth factors and interferons involved in mitogenic, chemotactic, and inflammatory activity; many members ...
    2. XM_017599366.1XP_017454855.1  C-X-C motif chemokine 5 isoform X1

      Conserved Domains (1) summary
      cd00273
      Location:47109
      Chemokine_CXC; Chemokine_CXC: 1 of 4 subgroup designations based on the arrangement of the two N-terminal cysteine residues; includes a number of secreted growth factors and interferons involved in mitogenic, chemotactic, and inflammatory activity; many members ...
    3. XM_017599367.1XP_017454856.1  C-X-C motif chemokine 5 isoform X1

      Conserved Domains (1) summary
      cd00273
      Location:47109
      Chemokine_CXC; Chemokine_CXC: 1 of 4 subgroup designations based on the arrangement of the two N-terminal cysteine residues; includes a number of secreted growth factors and interferons involved in mitogenic, chemotactic, and inflammatory activity; many members ...
    4. XM_008770054.1XP_008768276.1  C-X-C motif chemokine 5 isoform X1

      See identical proteins and their annotated locations for XP_008768276.1

      Conserved Domains (1) summary
      cd00273
      Location:47109
      Chemokine_CXC; Chemokine_CXC: 1 of 4 subgroup designations based on the arrangement of the two N-terminal cysteine residues; includes a number of secreted growth factors and interferons involved in mitogenic, chemotactic, and inflammatory activity; many members ...

    Alternate Rn_Celera

    Genomic

    1. AC_000082.1 Alternate Rn_Celera

      Range
      16687262..16688187 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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