Format

Send to:

Choose Destination

Links from Nucleotide

    • Showing Current items.

    Ccl4 C-C motif chemokine ligand 4 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 116637, updated on 30-Sep-2021

    Summary

    Official Symbol
    Ccl4provided by RGD
    Official Full Name
    C-C motif chemokine ligand 4provided by RGD
    Primary source
    RGD:620441
    See related
    EnsemblRapid:ENSRNOG00000011406
    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
    Scya4; Mip1-b
    Summary
    a cytokine that is up-regulated during the inflammatory response; may be involved in intrapulmonary recruitment of neutrophils [RGD, Feb 2006]
    Expression
    Biased expression in Thymus (RPKM 82.8), Spleen (RPKM 39.0) and 6 other tissues See more
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Ccl4 in Genome Data Viewer
    Location:
    10q26
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    108 current mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (68466469..68467941)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (70870926..70886357)

    Chromosome 10 - NC_051345.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120095160 Neighboring gene C-C motif chemokine ligand 3 Neighboring gene uncharacterized LOC120095331 Neighboring gene extracellular peptidase inhibitor-like

    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

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables CCR chemokine receptor binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables CCR1 chemokine receptor binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables CCR5 chemokine receptor binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables chemokine activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables chemokine activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables chemokine activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    involved_in G protein-coupled receptor signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in cell chemotaxis IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cellular response to interferon-gamma IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in cellular response to interleukin-1 IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in cellular response to tumor necrosis factor IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in cellular response to xenobiotic stimulus IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within cellular response to xenobiotic stimulus ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in chemokine-mediated signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in eosinophil chemotaxis IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in immune response IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in inflammatory response IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in inflammatory response IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in inflammatory response IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in leukocyte chemotaxis IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in lymphocyte chemotaxis IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in monocyte chemotaxis IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in negative regulation by host of viral transcription ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in neutrophil chemotaxis IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in positive regulation of ERK1 and ERK2 cascade IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in positive regulation of GTPase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in positive regulation of calcium ion transport ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of calcium-mediated signaling ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of natural killer cell chemotaxis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of tumor necrosis factor production IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of vascular permeability IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in response to toxic substance ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in signal transduction IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    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
    C-C motif chemokine 4
    Names
    MIP-1-beta
    chemokine (C-C motif) ligand 4
    macrophage inflammatory protein 1-beta
    small-inducible cytokine A4

    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_053858.1NP_446310.1  C-C motif chemokine 4 precursor

      See identical proteins and their annotated locations for NP_446310.1

      Status: PROVISIONAL

      Source sequence(s)
      U06434
      UniProtKB/Swiss-Prot
      P50230
      Related
      ENSRNOP00000015199.1, ENSRNOT00000015199.4
      Conserved Domains (1) summary
      smart00199
      Location:3189
      SCY; Intercrine alpha family (small cytokine C-X-C) (chemokine CXC)

    RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 108 details...Open this link in a new tab

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference mRatBN7.2 Primary Assembly

    Genomic

    1. NC_051345.1 Reference mRatBN7.2 Primary Assembly

      Range
      68466469..68467941
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Support Center