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Aliases for CCL21 Gene

Aliases for CCL21 Gene

  • C-C Motif Chemokine Ligand 21 2 3
  • Chemokine (C-C Motif) Ligand 21 2 3 5
  • Small Inducible Cytokine Subfamily A (Cys-Cys), Member 21 2 3
  • Efficient Chemoattractant For Lymphocytes 2 3
  • Secondary Lymphoid Tissue Chemokine 2 3
  • Beta Chemokine Exodus-2 2 3
  • SCYA21 3 4
  • 6Ckine 3 4
  • SLC 3 4
  • Secondary Lymphoid-Tissue Chemokine 4
  • Small-Inducible Cytokine A21 4
  • Beta-Chemokine Exodus-2 4
  • CKb9 3
  • TCA4 3
  • ECL 3

External Ids for CCL21 Gene

Previous HGNC Symbols for CCL21 Gene

  • SCYA21

Previous GeneCards Identifiers for CCL21 Gene

  • GC09M035021
  • GC09M034878
  • GC09M034699
  • GC09M034663

Summaries for CCL21 Gene

Entrez Gene Summary for CCL21 Gene

  • 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. Similar to other chemokines the protein encoded by this gene inhibits hemopoiesis and stimulates chemotaxis. This protein is chemotactic in vitro for thymocytes and activated T cells, but not for B cells, macrophages, or neutrophils. The cytokine encoded by this gene may also play a role in mediating homing of lymphocytes to secondary lymphoid organs. It is a high affinity functional ligand for chemokine receptor 7 that is expressed on T and B lymphocytes and a known receptor for another member of the cytokine family (small inducible cytokine A19). [provided by RefSeq, Sep 2014]

GeneCards Summary for CCL21 Gene

CCL21 (C-C Motif Chemokine Ligand 21) is a Protein Coding gene. Diseases associated with CCL21 include posterolateral myocardial infarction and sjogren's syndrome. Among its related pathways are Signaling by GPCR and ERK Signaling. GO annotations related to this gene include chemokine activity and CCR7 chemokine receptor binding.

UniProtKB/Swiss-Prot for CCL21 Gene

  • Inhibits hemopoiesis and stimulates chemotaxis. Chemotactic in vitro for thymocytes and activated T-cells, but not for B-cells, macrophages, or neutrophils. Shows preferential activity towards naive T-cells. May play a role in mediating homing of lymphocytes to secondary lymphoid organs. Binds to atypical chemokine receptor ACKR4 and mediates the recruitment of beta-arrestin (ARRB1/2) to ACKR4.

Gene Wiki entry for CCL21 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CCL21 Gene

Genomics for CCL21 Gene

Regulatory Elements for CCL21 Gene

Genomic Location for CCL21 Gene

Chromosome:
9
Start:
34,709,005 bp from pter
End:
34,710,167 bp from pter
Size:
1,163 bases
Orientation:
Minus strand

Genomic View for CCL21 Gene

Genes around CCL21 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CCL21 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CCL21 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CCL21 Gene

Proteins for CCL21 Gene

  • Protein details for CCL21 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O00585-CCL21_HUMAN
    Recommended name:
    C-C motif chemokine 21
    Protein Accession:
    O00585

    Protein attributes for CCL21 Gene

    Size:
    134 amino acids
    Molecular mass:
    14646 Da
    Quaternary structure:
    • Monomer. Binds to CCR7.

    Three dimensional structures from OCA and Proteopedia for CCL21 Gene

neXtProt entry for CCL21 Gene

Proteomics data for CCL21 Gene at MOPED

Post-translational modifications for CCL21 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for CCL21 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

No data available for DME Specific Peptides for CCL21 Gene

Domains & Families for CCL21 Gene

Gene Families for CCL21 Gene

Protein Domains for CCL21 Gene

Suggested Antigen Peptide Sequences for CCL21 Gene

Graphical View of Domain Structure for InterPro Entry

O00585

UniProtKB/Swiss-Prot:

CCL21_HUMAN :
  • Belongs to the intercrine beta (chemokine CC) family.
Family:
  • Belongs to the intercrine beta (chemokine CC) family.
genes like me logo Genes that share domains with CCL21: view

Function for CCL21 Gene

Molecular function for CCL21 Gene

UniProtKB/Swiss-Prot Function:
Inhibits hemopoiesis and stimulates chemotaxis. Chemotactic in vitro for thymocytes and activated T-cells, but not for B-cells, macrophages, or neutrophils. Shows preferential activity towards naive T-cells. May play a role in mediating homing of lymphocytes to secondary lymphoid organs. Binds to atypical chemokine receptor ACKR4 and mediates the recruitment of beta-arrestin (ARRB1/2) to ACKR4.
genes like me logo Genes that share phenotypes with CCL21: view

Animal Model Products

  • Taconic Biosciences Mouse Models for CCL21

CRISPR Products

Inhibitory RNA Products

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for CCL21 Gene

Localization for CCL21 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CCL21 Gene

Secreted.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for CCL21 Gene COMPARTMENTS Subcellular localization image for CCL21 gene
Compartment Confidence
extracellular 5
plasma membrane 2
cytoskeleton 1
cytosol 1
nucleus 1
vacuole 1

No data available for Gene Ontology (GO) - Cellular Components for CCL21 Gene

Pathways & Interactions for CCL21 Gene

genes like me logo Genes that share pathways with CCL21: view

SIGNOR curated interactions for CCL21 Gene

Activates:

Gene Ontology (GO) - Biological Process for CCL21 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001768 establishment of T cell polarity IDA 12729902
GO:0001771 immunological synapse formation ISS --
GO:0001954 positive regulation of cell-matrix adhesion IDA 15569314
GO:0002407 dendritic cell chemotaxis IDA 15778365
GO:0002548 monocyte chemotaxis IBA --
genes like me logo Genes that share ontologies with CCL21: view

Drugs & Compounds for CCL21 Gene

(3) Drugs for CCL21 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials

(6) Additional Compounds for CCL21 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with CCL21: view

Transcripts for CCL21 Gene

mRNA/cDNA for CCL21 Gene

Unigene Clusters for CCL21 Gene

Chemokine (C-C motif) ligand 21:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for CCL21 Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4a · 4b
SP1:
SP2:

Relevant External Links for CCL21 Gene

GeneLoc Exon Structure for
CCL21
ECgene alternative splicing isoforms for
CCL21

Expression for CCL21 Gene

mRNA expression in normal human tissues for CCL21 Gene

mRNA differential expression in normal tissues according to GTEx for CCL21 Gene

This gene is overexpressed in Small Intestine - Terminal Ileum (x11.1) and Thyroid (x7.7).

Protein differential expression in normal tissues from HIPED for CCL21 Gene

This gene is overexpressed in Esophagus (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for CCL21 Gene



SOURCE GeneReport for Unigene cluster for CCL21 Gene Hs.57907

mRNA Expression by UniProt/SwissProt for CCL21 Gene

O00585-CCL21_HUMAN
Tissue specificity: Highly expressed in high endothelial venules of lymph nodes, spleen and appendix. Intermediate levels found in small intestine, thyroid gland and trachea. Low level expression in thymus, bone marrow, liver, and pancreas. Also found in tonsil, fetal heart and fetal spleen.
genes like me logo Genes that share expression patterns with CCL21: view

Protein tissue co-expression partners for CCL21 Gene

- Elite partner

Primer Products

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery for CCL21 Gene

Orthologs for CCL21 Gene

This gene was present in the common ancestor of mammals.

Orthologs for CCL21 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia CCL21 35
  • 83.97 (n)
  • 72.52 (a)
CCL21 36
  • 73 (a)
OneToOne
dog
(Canis familiaris)
Mammalia CCL21 35
  • 87.22 (n)
  • 79.7 (a)
mouse
(Mus musculus)
Mammalia Gm21541 35
  • 79.95 (n)
  • 71.43 (a)
Gm21541 16
Ccl21a 36
  • 71 (a)
OneToMany
CCL21A 36
  • 71 (a)
OneToMany
Ccl21b 36
  • 71 (a)
OneToMany
Ccl21c 36
  • 71 (a)
OneToMany
Ccl21c 36
  • 71 (a)
OneToMany
Ccl21c 36
  • 71 (a)
OneToMany
Gm10591 36
  • 71 (a)
OneToMany
Gm13304 36
  • 71 (a)
OneToMany
Gm21541 36
  • 71 (a)
OneToMany
chimpanzee
(Pan troglodytes)
Mammalia CCL21 35
  • 100 (n)
  • 100 (a)
CCL21 36
  • 100 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Ccl21 35
  • 79.17 (n)
  • 70.31 (a)
oppossum
(Monodelphis domestica)
Mammalia CCL21 36
  • 56 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia CCL21 36
  • 38 (a)
OneToOne
Species with no ortholog for CCL21:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for CCL21 Gene

ENSEMBL:
Gene Tree for CCL21 (if available)
TreeFam:
Gene Tree for CCL21 (if available)

Paralogs for CCL21 Gene

(20) SIMAP similar genes for CCL21 Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with CCL21: view

No data available for Paralogs for CCL21 Gene

Variants for CCL21 Gene

Sequence variations from dbSNP and Humsavar for CCL21 Gene

SNP ID Clin Chr 09 pos Sequence Context AA Info Type
rs1801937 -- 34,709,063(-) CCTCT(G/T)CCTTG utr-variant-3-prime
rs2812377 -- 34,710,453(-) ACAAT(G/T)TAATA upstream-variant-2KB
rs2812378 -- 34,710,263(-) GTCCA(C/T)TTAGT upstream-variant-2KB
rs10814135 -- 34,710,878(+) TGGCC(A/T)CCCAA upstream-variant-2KB
rs10814136 -- 34,711,064(+) TCAAT(A/G)GTATA upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for CCL21 Gene

Variant ID Type Subtype PubMed ID
nsv831544 CNV Gain 17160897
nsv893040 CNV Gain 21882294
nsv509301 CNV Insertion 20534489

Variation tolerance for CCL21 Gene

Residual Variation Intolerance Score: 50.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.14; 3.12% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for CCL21 Gene

HapMap Linkage Disequilibrium report
CCL21

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CCL21 Gene

Disorders for CCL21 Gene

MalaCards: The human disease database

(4) MalaCards diseases for CCL21 Gene - From: DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
posterolateral myocardial infarction
sjogren's syndrome
  • sicca syndrome
thymic hyperplasia
  • hyperplasia of thymus gland
skin carcinoma in situ
  • carcinoma in situ of ear
- elite association - COSMIC cancer census association via MalaCards
Search CCL21 in MalaCards View complete list of genes associated with diseases

Relevant External Links for CCL21

Genetic Association Database (GAD)
CCL21
Human Genome Epidemiology (HuGE) Navigator
CCL21
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
CCL21
genes like me logo Genes that share disorders with CCL21: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CCL21 Gene

Publications for CCL21 Gene

  1. Molecular cloning of a novel human CC chemokine secondary lymphoid- tissue chemokine that is a potent chemoattractant for lymphocytes and mapped to chromosome 9p13. (PMID: 9235955) Nagira M. … Yoshie O. (J. Biol. Chem. 1997) 2 3 4 23 67
  2. Interaction of polysialic acid with CCL21 regulates the migratory capacity of human dendritic cells. (PMID: 19750015) Bax M. … van Kooyk Y. (PLoS ONE 2009) 3 23
  3. Dendritic cell transfected with secondary lymphoid-tissue chemokine and/or interleukin-2 gene-enhanced cytotoxicity of T-lymphocyte in human bladder tumor cell S in vitro. (PMID: 19832038) Li Y.G. … Zhang T. (Cancer Invest. 2009) 3 23
  4. CCL21 overexpressed on lymphatic vessels drives thymic hyperplasia in myasthenia. (PMID: 19847900) Berrih-Aknin S. … Le Panse R. (Ann. Neurol. 2009) 3 23
  5. CXCL13, CCL21, and CXCL12 expression in salivary glands of patients with Sjogren's syndrome and MALT lymphoma: association with reactive and malignant areas of lymphoid organization. (PMID: 18354239) Barone F. … Pitzalis C. (J. Immunol. 2008) 3 23

Products for CCL21 Gene

Sources for CCL21 Gene

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