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CCL28 C-C motif chemokine ligand 28 [ Homo sapiens (human) ]

Gene ID: 56477, updated on 3-Jun-2018
Official Symbol
CCL28provided by HGNC
Official Full Name
C-C motif chemokine ligand 28provided by HGNC
Primary source
HGNC:HGNC:17700
See related
Ensembl:ENSG00000151882 MIM:605240; Vega:OTTHUMG00000094811
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
MEC; CCK1; SCYA28
Summary
This antimicrobial gene belongs to the subfamily of small cytokine CC genes. 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 resting CD4 or CD8 T cells and eosinophils. The product of this gene binds to chemokine receptors CCR3 and CCR10. This chemokine may play a role in the physiology of extracutaneous epithelial tissues, including diverse mucosal organs. Multiple transcript variants encoding two different isoforms have been found for this gene. [provided by RefSeq, Sep 2014]
Expression
Biased expression in salivary gland (RPKM 40.6), colon (RPKM 10.6) and 5 other tissues See more
Orthologs
See CCL28 in Genome Data Viewer
Location:
5p12
Exon count:
8
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 5 NC_000005.10 (43356972..43412391, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (43376747..43412488, complement)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene 3-hydroxy-3-methylglutaryl-CoA synthase 1 Neighboring gene 60S acidic ribosomal protein P1 pseudogene Neighboring gene transmembrane protein 267 Neighboring gene uncharacterized LOC105374749 Neighboring gene chromosome 5 open reading frame 34 Neighboring gene eukaryotic translation elongation factor 1 alpha 1 pseudogene 19

  • Project title: 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 Jun 15 11:32:44 2016

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

NHGRI GWAS Catalog

Description
Genome-wide association study of a heart failure related metabolomic profile among African Americans in the Atherosclerosis Risk in Communities (ARIC) study.
NHGRI GWA Catalog
  • Chemokine receptors bind chemokines, organism-specific biosystem (from REACTOME)
    Chemokine receptors bind chemokines, organism-specific biosystemChemokine receptors are cytokine receptors found on the surface of certain cells, which interact with a type of cytokine called a chemokine. Following interaction, these receptors trigger a flux of i...
  • Chemokine signaling pathway, organism-specific biosystem (from KEGG)
    Chemokine signaling pathway, organism-specific biosystemInflammatory immune response requires the recruitment of leukocytes to the site of inflammation upon foreign insult. Chemokines are small chemoattractant peptides that provide directional cues for th...
  • Chemokine signaling pathway, conserved biosystem (from KEGG)
    Chemokine signaling pathway, conserved biosystemInflammatory immune response requires the recruitment of leukocytes to the site of inflammation upon foreign insult. Chemokines are small chemoattractant peptides that provide directional cues for th...
  • Class A/1 (Rhodopsin-like receptors), organism-specific biosystem (from REACTOME)
    Class A/1 (Rhodopsin-like receptors), organism-specific biosystemRhodopsin-like receptors (class A/1) are the largest group of GPCRs and are the best studied group from a functional and structural point of view. They show great diversity at the sequence level and ...
  • Cytokine-cytokine receptor interaction, organism-specific biosystem (from KEGG)
    Cytokine-cytokine receptor interaction, organism-specific biosystemCytokines are soluble extracellular proteins or glycoproteins that are crucial intercellular regulators and mobilizers of cells engaged in innate as well as adaptive inflammatory host defenses, cell ...
  • Cytokine-cytokine receptor interaction, conserved biosystem (from KEGG)
    Cytokine-cytokine receptor interaction, conserved biosystemCytokines are soluble extracellular proteins or glycoproteins that are crucial intercellular regulators and mobilizers of cells engaged in innate as well as adaptive inflammatory host defenses, cell ...
  • G alpha (i) signalling events, organism-specific biosystem (from REACTOME)
    G alpha (i) signalling events, organism-specific biosystemThe classical signalling mechanism for G alpha (i) is inhibition of the cAMP dependent pathway through inhibition of adenylate cyclase. Decreased production of cAMP from ATP results in decreased act...
  • GPCR downstream signaling, organism-specific biosystem (from REACTOME)
    GPCR downstream signaling, organism-specific biosystemG protein-coupled receptors (GPCRs) are classically defined as the receptor, G-protein and downstream effectors, the alpha subunit of the G-protein being the primary signaling molecule. However, it h...
  • GPCR ligand binding, organism-specific biosystem (from REACTOME)
    GPCR ligand binding, organism-specific biosystemThere are more than 800 G-protein coupled receptor (GPCRs) in the human genome, making it the largest receptor superfamily. GPCRs are also the largest class of drug targets, involved in virtually all...
  • Intestinal immune network for IgA production, organism-specific biosystem (from KEGG)
    Intestinal immune network for IgA production, organism-specific biosystemThe intestine is the largest lymphoid tissue in the body. One striking feature of intestinal immunity is its ability to generate great amounts of noninflammatory immunoglobulin A (IgA) antibodies tha...
  • Intestinal immune network for IgA production, conserved biosystem (from KEGG)
    Intestinal immune network for IgA production, conserved biosystemThe intestine is the largest lymphoid tissue in the body. One striking feature of intestinal immunity is its ability to generate great amounts of noninflammatory immunoglobulin A (IgA) antibodies tha...
  • Peptide ligand-binding receptors, organism-specific biosystem (from REACTOME)
    Peptide ligand-binding receptors, organism-specific biosystemThese receptors, a subset of the Class A/1 (Rhodopsin-like) family, all bind peptide ligands which include the chemokines, opioids and somatostatins.
  • Signal Transduction, organism-specific biosystem (from REACTOME)
    Signal Transduction, organism-specific biosystemSignal transduction is a process in which extracellular signals elicit changes in cell state and activity. Transmembrane receptors sense changes in the cellular environment by binding ligands, such a...
  • Signaling by GPCR, organism-specific biosystem (from REACTOME)
    Signaling by GPCR, organism-specific biosystemG protein-coupled receptors (GPCRs; 7TM receptors; seven transmembrane domain receptors; heptahelical receptors; G protein-linked receptors [GPLR]) are the largest family of transmembrane receptors i...
Products Interactant Other Gene Complex Source Pubs Description

Markers

Homology

Clone Names

  • MGC71902

Gene Ontology Provided by GOA

Function Evidence Code Pubs
chemokine activity IDA
Inferred from Direct Assay
more info
PubMed 
chemokine activity TAS
Traceable Author Statement
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
G-protein coupled receptor signaling pathway TAS
Traceable Author Statement
more info
 
cell chemotaxis IDA
Inferred from Direct Assay
more info
PubMed 
chemotaxis TAS
Traceable Author Statement
more info
PubMed 
immune response IEA
Inferred from Electronic Annotation
more info
 
negative regulation of leukocyte tethering or rolling IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of cell-matrix adhesion IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of cytosolic calcium ion concentration IEA
Inferred from Electronic Annotation
more info
 
regulation of signaling receptor activity IEA
Inferred from Electronic Annotation
more info
 
response to nutrient IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
cell IEA
Inferred from Electronic Annotation
more info
 
extracellular exosome HDA PubMed 
extracellular region TAS
Traceable Author Statement
more info
 
Preferred Names
C-C motif chemokine 28
Names
CC chemokine CCL28
chemokine (C-C motif) ligand 28 splice variant chi
mucosae-associated epithelial chemokine
small inducible cytokine A28
small inducible cytokine subfamily A (Cys-Cys), member 28

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_001301873.1NP_001288802.1  C-C motif chemokine 28 isoform a precursor

    See identical proteins and their annotated locations for NP_001288802.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 3' UTR compared to variant 1. Variants 1, 2, and 3 all encode the same isoform (a).
    Source sequence(s)
    AC025457, AF110384, BX486632
    Consensus CDS
    CCDS3944.1
    UniProtKB/Swiss-Prot
    Q9NRJ3
    UniProtKB/TrEMBL
    A0N0Q3
    Related
    ENSP00000426424.1, OTTHUMP00000221629, ENST00000489442.5, OTTHUMT00000211630
    Conserved Domains (1) summary
    pfam00048
    Location:2886
    IL8; Small cytokines (intecrine/chemokine), interleukin-8 like
  2. NM_001301874.1NP_001288803.1  C-C motif chemokine 28 isoform a precursor

    See identical proteins and their annotated locations for NP_001288803.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 3' UTR compared to variant 1. Variants 1, 2, and 3 all encode the same isoform (a).
    Source sequence(s)
    AF266504, BX486632
    Consensus CDS
    CCDS3944.1
    UniProtKB/Swiss-Prot
    Q9NRJ3
    UniProtKB/TrEMBL
    A0N0Q3
    Conserved Domains (1) summary
    pfam00048
    Location:2886
    IL8; Small cytokines (intecrine/chemokine), interleukin-8 like
  3. NM_001301875.1NP_001288804.1  C-C motif chemokine 28 isoform b

    See identical proteins and their annotated locations for NP_001288804.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) uses an alternate promoter, as evidenced by epigenomic data, and has an alternate 5' terminal exon compared to variant 1. The resulting isoform (b) is shorter at the N-terminus compared to isoform a.
    Source sequence(s)
    AC025457, CD671712
    Consensus CDS
    CCDS78006.1
    UniProtKB/TrEMBL
    D6RC73
    Related
    ENSP00000422369.1, OTTHUMP00000221628, ENST00000513525.1, OTTHUMT00000367999
    Conserved Domains (1) summary
    cl00134
    Location:339
    Chemokine; Chemokine: small cytokines, including a number of secreted growth factors and interferons involved in mitogenic, chemotactic, and inflammatory activity; distinguished from other cytokines by their receptors, which are G-protein coupled receptors; divided ...
  4. NM_148672.3NP_683513.1  C-C motif chemokine 28 isoform a precursor

    See identical proteins and their annotated locations for NP_683513.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (a). Variants 1, 2, and 3 all encode the same isoform (a).
    Source sequence(s)
    AC025457, BX486632
    Consensus CDS
    CCDS3944.1
    UniProtKB/Swiss-Prot
    Q9NRJ3
    UniProtKB/TrEMBL
    A0N0Q3
    Related
    ENSP00000354416.4, OTTHUMP00000120046, ENST00000361115.4, OTTHUMT00000211631
    Conserved Domains (1) summary
    pfam00048
    Location:2886
    IL8; Small cytokines (intecrine/chemokine), interleukin-8 like

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000005.10 Reference GRCh38.p12 Primary Assembly

    Range
    43356972..43412391 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

RNA

  1. XR_427660.2 RNA Sequence

  2. XR_925633.2 RNA Sequence

  3. XR_241706.3 RNA Sequence

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_019846.3: Suppressed sequence

    Description
    NM_019846.3: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
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