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    Cxcl16 chemokine (C-X-C motif) ligand 16 [ Mus musculus (house mouse) ]

    Gene ID: 66102, updated on 31-Jan-2019

    Summary

    Official Symbol
    Cxcl16provided by MGI
    Official Full Name
    chemokine (C-X-C motif) ligand 16provided by MGI
    Primary source
    MGI:MGI:1932682
    See related
    Ensembl:ENSMUSG00000018920
    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
    SR-PSOX; Zmynd15; AV290116; BB024863; CXCL16v1; CXCL16v2; b2b498Clo; 0910001K24Rik
    Expression
    Broad expression in kidney adult (RPKM 38.8), lung adult (RPKM 36.7) and 18 other tissues See more
    Orthologs

    Genomic context

    See Cxcl16 in Genome Data Viewer
    Location:
    11; 11 B3
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) 11 NC_000077.6 (70454232..70459984, complement)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 11 NC_000077.5 (70267736..70273486, complement)

    Chromosome 11 - NC_000077.6Genomic Context describing neighboring genes Neighboring gene arrestin, beta 2 Neighboring gene microRNA 7115 Neighboring gene mediator complex subunit 11 Neighboring gene zinc finger, MYND-type containing 15 Neighboring gene transmembrane 4 superfamily member 5 Neighboring gene vitelline membrane outer layer 1 homolog (chicken)

    Genomic regions, transcripts, and products

    Expression

    • 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

    Bibliography

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Variation

    Alleles

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

    Pathways from BioSystems

    General gene information

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    chemokine activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    chemokine activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    chemokine activity ISO
    Inferred from Sequence Orthology
    more info
     
    chemokine receptor binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    cytokine activity IEA
    Inferred from Electronic Annotation
    more info
     
    low-density lipoprotein particle receptor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    low-density lipoprotein particle receptor activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    scavenger receptor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    scavenger receptor activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Process Evidence Code Pubs
    T cell chemotaxis IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    T cell chemotaxis IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cellular response to lipopolysaccharide IDA
    Inferred from Direct Assay
    more info
    PubMed 
    chemotaxis IEA
    Inferred from Electronic Annotation
    more info
     
    lymphocyte chemotaxis IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of cell growth ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of cell migration IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    positive regulation of cell migration ISO
    Inferred from Sequence Orthology
    more info
     
    receptor-mediated endocytosis IEA
    Inferred from Electronic Annotation
    more info
     
    response to cytokine ISO
    Inferred from Sequence Orthology
    more info
     
    response to interferon-gamma ISO
    Inferred from Sequence Orthology
    more info
     
    response to tumor necrosis factor ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    extracellular space HDA PubMed 
    extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    extracellular space IDA
    Inferred from Direct Assay
    more info
    PubMed 
    extracellular space ISO
    Inferred from Sequence Orthology
    more info
     
    integral component of membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    membrane IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    C-X-C motif chemokine 16
    Names
    Cxc chemokine ligand 16
    SR-PSOX/CXCL16
    scavenger receptor for phosphatidylserine and oxidized low density lipoprotein
    small-inducible cytokine B16
    transmembrane chemokine CXCL16
    zinc finger, MYND-type containing 15

    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_023158.7NP_075647.3  C-X-C motif chemokine 16 precursor

      See identical proteins and their annotated locations for NP_075647.3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the protein-coding transcript.
      Source sequence(s)
      AK028875, BE956848
      Consensus CDS
      CCDS24948.1
      UniProtKB/Swiss-Prot
      Q8BSU2
      UniProtKB/TrEMBL
      A2CFE9
      Related
      ENSMUSP00000019064.2, ENSMUST00000019064.8
      Conserved Domains (1) summary
      COG1429
      Location:114211
      CobN; Cobalamin biosynthesis protein CobN, Mg-chelatase [Coenzyme transport and metabolism]

    RNA

    1. NR_151496.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) includes two alternate internal exons, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AK028875, AK151330, BE956848, GQ380017
    2. NR_151497.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) contains an alternate 3' terminal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AK028875, AK030515
    3. NR_151499.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) includes an alternate internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AK028875, AK151330, BE956848, GQ380016

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

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

    Reference GRCm38.p4 C57BL/6J

    Genomic

    1. NC_000077.6 Reference GRCm38.p4 C57BL/6J

      Range
      70454232..70459984 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006533920.1XP_006533983.1  C-X-C motif chemokine 16 isoform X1

      UniProtKB/TrEMBL
      D9YM45

    RNA

    1. XR_001780038.1 RNA Sequence

    Reference GRCm38.p4 NOD/MrkTac

    Genomic

    1. NT_187026.1 Reference GRCm38.p4 NOD/MrkTac

      Range
      558669..564419 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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