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CCL16 C-C motif chemokine ligand 16 [ Homo sapiens (human) ]

Gene ID: 6360, updated on 2-Nov-2024

Summary

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Official Symbol
CCL16provided by HGNC
Official Full Name
C-C motif chemokine ligand 16provided by HGNC
Primary source
HGNC:HGNC:10614
See related
Ensembl:ENSG00000275152 MIM:601394; AllianceGenome:HGNC:10614
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
LEC; LMC; NCC4; CKb12; HCC-4; LCC-1; Mtn-1; NCC-4; SCYL4; ILINCK; SCYA16
Summary
This gene is one of several cytokine genes clustered on the q-arm of chromosome 17. Cytokines are a family of secreted proteins involved in immunoregulatory and inflammatory processes. The CC cytokines are proteins characterized by two adjacent cysteines. The cytokine encoded by this gene displays chemotactic activity for lymphocytes and monocytes but not for neutrophils. This cytokine also shows a potent myelosuppressive activity and suppresses proliferation of myeloid progenitor cells. The expression of this gene is upregulated by IL-10. [provided by RefSeq, Jul 2008]
Expression
Biased expression in liver (RPKM 21.1) and spleen (RPKM 0.6) See more
Orthologs
all
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Genomic context

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See CCL16 in Genome Data Viewer
Location:
17q12
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (35976499..35981497, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (36924403..36931524, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (34303535..34308533, complement)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene RAD52 motif containing 1 Neighboring gene lysozyme like 6 Neighboring gene ReSE screen-validated silencer GRCh37_chr17:34288003-34288221 Neighboring gene Sharpr-MPRA regulatory region 10414 Neighboring gene CCL15-CCL14 readthrough (NMD candidate) Neighboring gene C-C motif chemokine ligand 14 Neighboring gene uncharacterized LOC107985068 Neighboring gene C-C motif chemokine ligand 15

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Isolation of cDNA encoding a novel human CC chemokine NCC-4/LEC. Shoudai K, et al. Biochim Biophys Acta, 1998 Mar 13. PMID 9545580
  2. CCL16/LEC powerfully triggers effector and antigen-presenting functions of macrophages and enhances T cell cytotoxicity. Cappello P, et al. J Leukoc Biol, 2004 Jan. PMID 14525962
  3. Intralesional injection of adenovirus encoding CC chemokine ligand 16 inhibits mammary tumor growth and prevents metastatic-induced death after surgical removal of the treated primary tumor. Guiducci C, et al. J Immunol, 2004 Apr 1. PMID 15034014
  4. Cloning, characterization and genomic organization of LCC-1 (scya16), a novel human CC chemokine expressed in liver. Yang JY, et al. Cytokine, 2000 Feb. PMID 10671294
  5. Elevated concentrations of liver-expressed chemokine/CC chemokine ligand 16 in bronchoalveolar lavage fluid from patients with eosinophilic pneumonia. Nureki S, et al. Int Arch Allergy Immunol, 2009. PMID 19494526

See all (42) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Characterizing ligand-receptor interactions and unveiling the pro-tumorigenic role of CCL16-CCR1 axis in the microenvironment of hepatocellular carcinoma.
    Title: Characterizing ligand-receptor interactions and unveiling the pro-tumorigenic role of CCL16-CCR1 axis in the microenvironment of hepatocellular carcinoma.
  2. Structure and Dynamics of Human Chemokine CCL16-Implications for Biological Activity.
    Title: Structure and Dynamics of Human Chemokine CCL16-Implications for Biological Activity.
  3. CC motif chemokine ligand 16 inhibits the progression of liver cirrhosis via inactivating hepatic stellate cells.
    Title: CC motif chemokine ligand 16 inhibits the progression of liver cirrhosis via inactivating hepatic stellate cells.
  4. CCL16 maintains stem cell-like properties in breast cancer by activating CCR2/GSK3beta/beta-catenin/OCT4 axis.
    Title: CCL16 maintains stem cell-like properties in breast cancer by activating CCR2/GSK3β/β-catenin/OCT4 axis.
  5. Single nucleotide polymorphism (SNPs) located in and around the C-C motif chemokine ligand 16 (CCL16) gene are associated with CCL16 protein levels in blood plasma, and rs80329614 is the SNP most strongly associated with CCL16 protein levels in plasma.
    Title: Variants in CCL16 are associated with blood plasma and cerebrospinal fluid CCL16 protein levels.
  6. High umbilical artery CCL16 is prominently detected in preterm preeclamptic pregnancies with severe growth restriction.
    Title: Umbilical artery chemokine CCL16 is associated with preterm preeclampsia and fetal growth restriction.
  7. Data show that CCL-16 gene expression was upregulated by 7.46-fold in IBS patients when compared with controls and suggest a subclinical inflammatory component underlying IBS.
    Title: Pro-inflammatory chemokine C-C motif ligand 16 (CCL-16) dysregulation in irritable bowel syndrome (IBS): a pilot study.
  8. Low umbilical cord blood chemokine CCL16 associates with spontaneous preterm birth
    Title: Cord blood chemokines differentiate between spontaneous and elective preterm births in singleton pregnancies.
  9. Elevated concentrations in bronchoalveolar lavage fluid from patients with eosinophilic pneumonia
    Title: Elevated concentrations of liver-expressed chemokine/CC chemokine ligand 16 in bronchoalveolar lavage fluid from patients with eosinophilic pneumonia.
  10. Observational study of gene-disease association and gene-environment interaction. (HuGE Navigator)
    Title: Genetic susceptibility to respiratory syncytial virus bronchiolitis in preterm children is associated with airway remodeling genes and innate immune genes.
Submit: New GeneRIF Correction See all GeneRIFs (15)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • MGC117051

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables CCR chemokine receptor binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables chemoattractant activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables chemokine activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in antimicrobial humoral immune response mediated by antimicrobial peptide IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in cell communication TAS
Traceable Author Statement
more info
 PubMed 
involved_in cell-cell signaling TAS
Traceable Author Statement
more info
 PubMed 
involved_in chemokine-mediated signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in chemotaxis TAS
Traceable Author Statement
more info
 PubMed 
involved_in eosinophil chemotaxis IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in inflammatory response IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in positive chemotaxis IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of cell migration IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in extracellular region TAS
Traceable Author Statement
more info
  
is_active_in extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
C-C motif chemokine 16
Names
IL-10-inducible chemokine
chemokine (C-C motif) ligand 16
chemokine LEC
liver CC chemokine-1
liver-expressed chemokine
lymphocyte and monocyte chemoattractant
monotactin-1
new CC chemokine 4
small inducible cytokine subfamily A (Cys-Cys), member 16
small-inducible cytokine A16

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_004590.4 → NP_004581.1  C-C motif chemokine 16 precursor

    See identical proteins and their annotated locations for NP_004581.1

    Status: REVIEWED

    Source sequence(s)
    AB007454, AC244100, AF039955
    Consensus CDS
    CCDS11303.1
    UniProtKB/Swiss-Prot
    O15467, Q4KKU0
    Related
    ENSP00000478024.1, ENST00000611905.2
    Conserved Domains (1) summary
    cd00272
    Location:37 → 92
    Chemokine_CC; Chemokine_CC: 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; some members (e.g. ...

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000017.11 Reference GRCh38.p14 Primary Assembly

    Range
    35976499..35981497 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 ALT_REF_LOCI_1

Genomic

  1. NT_187614.1 Reference GRCh38.p14 ALT_REF_LOCI_1

    Range
    211063..217475 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054329312.1 → XP_054185287.1  C-C motif chemokine 16 isoform X1

    UniProtKB/Swiss-Prot
    O15467, Q4KKU0

  2. XM_054329311.1 → XP_054185286.1  C-C motif chemokine 16 isoform X1

    UniProtKB/Swiss-Prot
    O15467, Q4KKU0

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060941.1 Alternate T2T-CHM13v2.0

    Range
    36924403..36931524 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054316871.1 → XP_054172846.1  C-C motif chemokine 16 isoform X1

    UniProtKB/Swiss-Prot
    O15467, Q4KKU0

  2. XM_054316872.1 → XP_054172847.1  C-C motif chemokine 16 isoform X1

    UniProtKB/Swiss-Prot
    O15467, Q4KKU0
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
O15467.1 GenPept UniProtKB/Swiss-Prot:O15467

Gene LinkOut

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