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    Ccl20 chemokine (C-C motif) ligand 20 [ Mus musculus (house mouse) ]

    Gene ID: 20297, updated on 25-May-2017
    Official Symbol
    Ccl20provided by MGI
    Official Full Name
    chemokine (C-C motif) ligand 20provided by MGI
    Primary source
    MGI:MGI:1329031
    See related
    Ensembl:ENSMUSG00000026166 Vega:OTTMUSG00000016631
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    CKb4; LARC; ST38; MIP3A; MIP-3A; Scya20; MIP-3[a]; exodus-1
    Orthologs
    Location:
    1 C5; 1 42.69 cM
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) 1 NC_000067.6 (83116766..83119167)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 1 NC_000067.5 (83113341..83115742)

    Chromosome 1 - NC_000067.6Genomic Context describing neighboring genes Neighboring gene solute carrier family 19, member 3 Neighboring gene nascent polypeptide-associated complex alpha polypeptide pseudogene Neighboring gene keratin associated protein 28-13 Neighboring gene dynein assembly factor with WDR repeat domains 1 Neighboring gene heterogeneous nuclear ribonucleoprotein A1 pseudogene

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (2) 

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    CCR6 chemokine receptor binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    CCR6 chemokine receptor binding ISO
    Inferred from Sequence Orthology
    more info
     
    chemokine activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    chemokine activity ISO
    Inferred from Sequence Orthology
    more info
     
    cytokine activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    G-protein coupled receptor signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    T cell migration IDA
    Inferred from Direct Assay
    more info
    PubMed 
    calcium-mediated signaling using intracellular calcium source ISO
    Inferred from Sequence Orthology
    more info
     
    cell chemotaxis ISO
    Inferred from Sequence Orthology
    more info
     
    cellular response to interferon-gamma IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    cellular response to interleukin-1 IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    cellular response to tumor necrosis factor IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    chemokine-mediated signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    chemotaxis IDA
    Inferred from Direct Assay
    more info
    PubMed 
    chemotaxis ISO
    Inferred from Sequence Orthology
    more info
     
    immune response IEA
    Inferred from Electronic Annotation
    more info
     
    inflammatory response IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    lymphocyte chemotaxis IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    monocyte chemotaxis IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    neutrophil chemotaxis IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    positive regulation of ERK1 and ERK2 cascade IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    positive regulation of GTPase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    positive regulation of T cell migration ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    positive regulation of interleukin-1 alpha biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of nitric-oxide synthase biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
     
    NOT regulation of T cell cytokine production IDA
    Inferred from Direct Assay
    more info
    PubMed 
    NOT regulation of T-helper 17 cell differentiation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    thymocyte migration IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Component Evidence Code Pubs
    extracellular region IEA
    Inferred from Electronic Annotation
    more info
     
    extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    extracellular space ISO
    Inferred from Sequence Orthology
    more info
     
    Preferred Names
    C-C motif chemokine 20
    Names
    CC chemokine LARC
    CC chemokine ST38
    MIP-3-alpha
    beta-chemokine exodus-1
    liver and activation-regulated chemokine
    macrophage inflammatory protein 3 alpha
    small inducible cytokine subfamily A20
    small-inducible cytokine A20

    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_001159738.1NP_001153210.1  C-C motif chemokine 20 isoform 2 precursor

      See identical proteins and their annotated locations for NP_001153210.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice junction at the 5' end of an exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is 1 aa shorter compared to isoform 1.
      Source sequence(s)
      BC028504, BY026108
      Consensus CDS
      CCDS78638.1
      UniProtKB/Swiss-Prot
      O89093
      UniProtKB/TrEMBL
      Q642U4
      Related
      ENSMUSP00000139923.1, OTTMUSP00000067381, ENSMUST00000186832.1, OTTMUST00000123323
      Conserved Domains (1) summary
      cd01119
      Location:3090
      Chemokine_CC_DCCL; Chemokine_CC_DCCL: subgroup of the Chemokine_CC subgroup based on the presence of a DCCL motif involving the two N-terminal cysteine residues; includes a number of small inducible cytokines capable of reversibly inhibiting normal hematopoietic ...
    2. NM_016960.2NP_058656.1  C-C motif chemokine 20 isoform 1 precursor

      See identical proteins and their annotated locations for NP_058656.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      BC028504, BX525886, BY026108
      Consensus CDS
      CCDS35632.1
      UniProtKB/Swiss-Prot
      O89093
      UniProtKB/TrEMBL
      Q54AI7, Q642U4
      Related
      ENSMUSP00000109064.2, OTTMUSP00000017965, ENSMUST00000113437.8, OTTMUST00000040227
      Conserved Domains (1) summary
      cd01119
      Location:3191
      Chemokine_CC_DCCL; Chemokine_CC_DCCL: subgroup of the Chemokine_CC subgroup based on the presence of a DCCL motif involving the two N-terminal cysteine residues; includes a number of small inducible cytokines capable of reversibly inhibiting normal hematopoietic ...

    RefSeqs of Annotated Genomes: Mus musculus 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 GRCm38.p4 C57BL/6J

    Genomic

    1. NC_000067.6 Reference GRCm38.p4 C57BL/6J

      Range
      83116766..83119167
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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