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

Gene ID: 66102, updated on 27-Feb-2024

Summary

Official Symbol
Cxcl16provided by MGI
Official Full Name
C-X-C motif chemokine ligand 16provided by MGI
Primary source
MGI:MGI:1932682
See related
Ensembl:ENSMUSG00000018920 AllianceGenome:MGI:1932682
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; CXCL16v1; CXCL16v2; b2b498Clo; 0910001K24Rik
Summary
Enables chemokine activity; low-density lipoprotein particle receptor activity; and scavenger receptor activity. Involved in T cell chemotaxis and cellular response to lipopolysaccharide. Located in extracellular space. Is integral component of membrane. Is expressed in bladder; female associated reproductive structure; hindbrain meninges; male associated reproductive structure; and spinal cord meninges. Orthologous to human CXCL16 (C-X-C motif chemokine ligand 16). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in kidney adult (RPKM 38.8), lung adult (RPKM 36.7) and 18 other tissues See more
Orthologs
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Genomic context

See Cxcl16 in Genome Data Viewer
Location:
11 B3; 11 42.99 cM
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (70345215..70350810, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (70454389..70459984, complement)

Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene arrestin, beta 2 Neighboring gene microRNA 7115 Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:70265674-70265783 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 Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (2)  1 citation
  • Endonuclease-mediated (6) 

Pathways from PubChem

General gene information

Gene Ontology Provided by MGI

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

General protein information

Preferred Names
C-X-C motif chemokine 16
Names
Cxc chemokine ligand 16
SR-PSOX/CXCL16
chemokine (C-X-C motif) ligand 16
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)

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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
    Q3UD70, Q5F2D5, Q8BSU2, Q8VE25, Q9EPB3
    UniProtKB/TrEMBL
    A2CFE9, I7HIQ2
    Related
    ENSMUSP00000019064.3, ENSMUST00000019064.9
    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
    Related
    ENSMUST00000154475.2
  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: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000077.7 Reference GRCm39 C57BL/6J

    Range
    70345215..70350810 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)