CCL19 C-C motif chemokine ligand 19 [Homo sapiens (human)] - Gene

Summary

Official Symbol: CCL19provided by HGNC
Official Full Name: C-C motif chemokine ligand 19provided by HGNC
Primary source: HGNC:HGNC:10617
See related: Ensembl:ENSG00000172724 MIM:602227; AllianceGenome:HGNC:10617
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: ELC; CKb11; MIP3B; MIP-3b; SCYA19
Summary: This antimicrobial gene is one of several CC cytokine genes clustered on the p-arm of chromosome 9. 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 may play a role in normal lymphocyte recirculation and homing. It also plays an important role in trafficking of T cells in thymus, and in T cell and B cell migration to secondary lymphoid organs. It specifically binds to chemokine receptor CCR7. [provided by RefSeq, Sep 2014]
Expression: Biased expression in appendix (RPKM 274.6), lymph node (RPKM 208.4) and 5 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 9p13.3

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	9	NC_000009.12 (34689570..34691276, complement)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	9	NC_060933.1 (34708593..34710301, complement)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	9	NC_000009.11 (34689567..34691273, complement)

Chromosome 9 - NC_000009.12 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Downregulation of dermatopontin in cholangiocarcinoma cells suppresses CCL19 secretion of macrophages and immune infiltration.
Title: Downregulation of dermatopontin in cholangiocarcinoma cells suppresses CCL19 secretion of macrophages and immune infiltration.
CCL19 (rs3136658) and CCL21 (rs2812377) Variants Are Associated With Susceptibility and Related Mortality of SARS-CoV-2 Infection.
Title: CCL19 (rs3136658) and CCL21 (rs2812377) Variants Are Associated With Susceptibility and Related Mortality of SARS-CoV-2 Infection.
CCL19/CCR7 drives regulatory T cell migration and indicates poor prognosis in gastric cancer.
Title: CCL19/CCR7 drives regulatory T cell migration and indicates poor prognosis in gastric cancer.
Plasma levels of CCL21, but not CCL19, independently predict future coronary events in a prospective population-based cohort.
Title: Plasma levels of CCL21, but not CCL19, independently predict future coronary events in a prospective population-based cohort.
Heparin Specifically Interacts with Basic BBXB Motifs of the Chemokine CCL21 to Define CCR7 Signaling.
Title: Heparin Specifically Interacts with Basic BBXB Motifs of the Chemokine CCL21 to Define CCR7 Signaling.
WGCNA and molecular docking reveal key hub genes and potential natural inhibitor in interstitial cystitis/bladder pain syndrome.
Title: WGCNA and molecular docking reveal key hub genes and potential natural inhibitor in interstitial cystitis/bladder pain syndrome.
CCL19 has potential to be a potential prognostic biomarker and a modulator of tumor immune microenvironment (TIME) of breast cancer: a comprehensive analysis based on TCGA database.
Title: CCL19 has potential to be a potential prognostic biomarker and a modulator of tumor immune microenvironment (TIME) of breast cancer: a comprehensive analysis based on TCGA database.
Structural Insights into Molecular Recognition by Human Chemokine CCL19.
Title: Structural Insights into Molecular Recognition by Human Chemokine CCL19.
Combination of IDO1(high) and CCL19(low) expression in the tumor tissue reduces survival in HPV positive cervical cancer.
Title: Combination of IDO1(high) and CCL19(low) expression in the tumor tissue reduces survival in HPV positive cervical cancer.
CCL19 associates with lymph node metastasis and inferior prognosis in patients with small cell lung cancer.
Title: CCL19 associates with lymph node metastasis and inferior prognosis in patients with small cell lung cancer.

Submit: New GeneRIF Correction See all GeneRIFs (78)

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

EBI GWAS Catalog

Description
Genetics of rheumatoid arthritis contributes to biology and drug discovery. EBI GWAS Catalog EBI GWAS CatalogPubMed

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

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Protein interactions

Protein	Gene	Interaction	Pubs
Nef	nef	HIV-1 Nef impairs the mobility of primary CD4+ lymphocytes and inhibits chemotaxis of primary T cells to CCL19	PubMed
Pr55(Gag)	gag	The migration capacity of MVA-gag-infected human monocyte-derived dendritic cells is significantly higher in the presence of CCL19 than in the absence of this chemokine	PubMed
Tat	tat	HIV-1 Tat upregulates the expression of chemokine (C-C motif) ligand 19 (CCL19) in human primary T cells	PubMed
Vpu	vpu	HIV-1 Vpu inhibits the chemotactic potential of primary CD4+ T cells to migrate specifically toward CCL19	PubMed
	vpu	Vpu-mediated downregulation of CCR7 upon viral infection results in an impaired ability of infected primary CD4+ T cells to respond to CCL19	PubMed
capsid	gag	The migration capacity of PLA-p24-loaded human monocyte-derived dendritic cells is significantly higher in the presence of CCL19 than in the absence of this chemokine	PubMed
matrix	gag	Treatment of plasmacytoid dendritic cells (pDCs) with HIV-1 MA upregulates the expression of CCR7. Coculture with MA and CCL19 induces a dose-dependent migration of pDCs	PubMed

Go to the HIV-1, Human Interaction Database

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

SHGC-37670 (e-PCR)
- UniSTS:13864

AFM326vd1 (e-PCR)
- UniSTS:26675

RH91355 (e-PCR)
- UniSTS:91830

STS-U77180 (e-PCR)
- UniSTS:13042

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables CCR chemokine receptor binding	IBA Inferred from Biological aspect of Ancestor more info
enables CCR chemokine receptor binding	IPI Inferred from Physical Interaction more info	PubMed
enables CCR10 chemokine receptor binding	IDA Inferred from Direct Assay more info	PubMed
enables CCR7 chemokine receptor binding	ISS Inferred from Sequence or Structural Similarity more info
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 receptor binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in T cell costimulation	ISS Inferred from Sequence or Structural Similarity more info
involved_in antimicrobial humoral immune response mediated by antimicrobial peptide	IBA Inferred from Biological aspect of Ancestor more info
involved_in antimicrobial humoral immune response mediated by antimicrobial peptide	IDA Inferred from Direct Assay more info	PubMed
involved_in cell chemotaxis	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell communication	TAS Traceable Author Statement more info	PubMed
involved_in cell maturation	ISS Inferred from Sequence or Structural Similarity more info
involved_in cellular response to virus	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in chemokine-mediated signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in dendritic cell chemotaxis	IDA Inferred from Direct Assay more info	PubMed
involved_in establishment of T cell polarity	IDA Inferred from Direct Assay more info	PubMed
involved_in immune response	TAS Traceable Author Statement more info	PubMed
involved_in immunological synapse formation	ISS Inferred from Sequence or Structural Similarity more info
involved_in inflammatory response	IBA Inferred from Biological aspect of Ancestor more info
involved_in inflammatory response	NAS Non-traceable Author Statement more info	PubMed
involved_in intracellular calcium ion homeostasis	TAS Traceable Author Statement more info	PubMed
involved_in killing of cells of another organism	IDA Inferred from Direct Assay more info	PubMed
involved_in mature conventional dendritic cell differentiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in myeloid dendritic cell chemotaxis	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of dendritic cell apoptotic process	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of ERK1 and ERK2 cascade	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of ERK1 and ERK2 cascade	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of GTPase activity	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of JNK cascade	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of positive regulation of JUN kinase activity	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of T cell proliferation	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of T-helper 1 cell differentiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of canonical NF-kappaB signal transduction	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of cell migration	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of cell motility	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of chemotaxis	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of dendritic cell antigen processing and presentation	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of dendritic cell dendrite assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of endocytosis	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of glycoprotein biosynthetic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of interleukin-1 beta production	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of positive regulation of interleukin-12 production	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of neutrophil chemotaxis	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of non-canonical NF-kappaB signal transduction	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of protein kinase activity	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of receptor-mediated endocytosis	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of tumor necrosis factor production	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of cell projection assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in release of sequestered calcium ion into cytosol	IDA Inferred from Direct Assay more info	PubMed
involved_in response to nitric oxide	IDA Inferred from Direct Assay more info	PubMed
involved_in response to prostaglandin E	IDA Inferred from Direct Assay more info	PubMed
involved_in response to virus	TAS Traceable Author Statement more info	PubMed

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 19

Names: CC chemokine ligand 19; CK beta-11; EBI1-ligand chemokine; MIP-3-beta; beta chemokine exodus-3; chemokine (C-C motif) ligand 19; epstein-Barr virus-induced molecule 1 ligand chemokine; exodus-3; macrophage inflammatory protein 3-beta; small inducible cytokine subfamily A (Cys-Cys), member 19; small-inducible cytokine A19

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)

NM_006274.3 → NP_006265.1 C-C motif chemokine 19 precursor

See identical proteins and their annotated locations for NP_006265.1

Status: REVIEWED

Source sequence(s)

AL162231

Consensus CDS

CCDS6570.1

UniProtKB/Swiss-Prot

O00697, O00736, Q99731

UniProtKB/TrEMBL

Q5VZ75, Q6IBD6

Related

ENSP00000308815.2, ENST00000311925.7

Conserved Domains (1) summary

cd01119
Location:27 → 87

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 progenitor proliferation by ...