Ccl21a C-C motif chemokine ligand 21 (serine) [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Ccl21aprovided by MGI
Official Full Name: C-C motif chemokine ligand 21 (serine)provided by MGI
Primary source: MGI:MGI:1349183
See related: Ensembl:ENSMUSG00000094686 AllianceGenome:MGI:1349183
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: ALP; SLC; plt; CKb9; Tca4; 6Ckine; Gm1987; Scya21; 6CKBAC2; SCYA21a; Scya21b
Summary: Enables CCR7 chemokine receptor binding activity and chemokine activity. Involved in several processes, including dendritic cell dendrite assembly; negative regulation of dendritic cell dendrite assembly; and positive regulation of T cell chemotaxis. Acts upstream of or within induction of positive chemotaxis and lymph node development. Predicted to be active in extracellular space. Is expressed in branchial arch; hemolymphoid system; renal vasculature; and trunk. Orthologous to human CCL21 (C-C motif chemokine ligand 21). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in thymus adult (RPKM 143.1), spleen adult (RPKM 121.4) and 14 other tissues See more
Orthologs: human all
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Genomic context

Location:: 4 A5; 4 22.43 cM

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	4	NC_000070.7 (42772860..42773991, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	4	NC_000070.6 (42772860..42773991, complement)

Chromosome 4 - NC_000070.7 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: Mouse ENCODE transcriptome data 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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

CCL21-Ser expression in melanoma cells recruits CCR7[+] naive T cells to tumor tissues and promotes tumor growth.
Title: CCL21-Ser expression in melanoma cells recruits CCR7(+) naïve T cells to tumor tissues and promotes tumor growth.
The Important Role of the Chemokine Axis CCR7-CCL19 and CCR7-CCL21 in the Pathophysiology of the Immuno-inflammatory Response in Dry Eye Disease.
Title: The Important Role of the Chemokine Axis CCR7-CCL19 and CCR7-CCL21 in the Pathophysiology of the Immuno-inflammatory Response in Dry Eye Disease.
ACKR4 restrains antitumor immunity by regulating CCL21.
Title: ACKR4 restrains antitumor immunity by regulating CCL21.
CCL21/CCR7 axis regulating juvenile cartilage repair can enhance cartilage healing in adults.
Title: CCL21/CCR7 axis regulating juvenile cartilage repair can enhance cartilage healing in adults.
Data indicate the nonredundant role of chemokine (C-C motif) ligand 21A (serine) (CCL21Ser)-encoding Ccl21a in the establishment of self-tolerance in T cells in the thymic medulla
Title: Essential role of CCL21 in establishment of central self-tolerance in T cells.
Results suggest that baicalin exerts an inhibitory effect on airway inflammation, and this effect may be associated with the inhibition of CCR7 and its ligands, CCL19 and CCL21, as well as on the nuclear factor-Kappa B (NF-kappaB) pathway in a mouse model of asthma.
Title: Baicalin attenuates inflammation in mice with OVA-induced asthma by inhibiting NF-κB and suppressing CCR7/CCL19/CCL21.
Intralymphatic CCL21 promotes tissue egress of dendritic cells through afferent lymphatic vessels.
Title: Intralymphatic CCL21 Promotes Tissue Egress of Dendritic Cells through Afferent Lymphatic Vessels.
the graft site microenvironment plays a critical role in alloimmunity by determining DC trafficking through the CCR7-CCL19/21 axis.
Title: Graft Site Microenvironment Determines Dendritic Cell Trafficking Through the CCR7-CCL19/21 Axis.
Loss of CCL21 signaling and dendritic cell migration is required for development of ileitis in SAMP mice.
Title: SAMP1/YitFc mice develop ileitis via loss of CCL21 and defects in dendritic cell migration.
found that lymph node fringes indeed contained physiological gradients of the chemokine CCL21, which depended on the expression of CCRL1, the atypical receptor for the CCR7 ligands CCL19 and CCL21
Title: The atypical chemokine receptor CCRL1 shapes functional CCL21 gradients in lymph nodes.

Submit: New GeneRIF Correction See all GeneRIFs (29)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (1)
Targeted (1) 1 citation

General gene information

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Markers

AI159701 (e-PCR)
- UniSTS:159233

Ccl21a (e-PCR), detects polymorphism
- UniSTS:530815

AW987545 (e-PCR)
- UniSTS:185579

Ccl21a (e-PCR), detects polymorphism
- UniSTS:526069

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables CCR chemokine receptor binding	IBA Inferred from Biological aspect of Ancestor more info
enables CCR7 chemokine receptor binding	IPI Inferred from Physical Interaction more info	PubMed
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	IMP Inferred from Mutant Phenotype more info	PubMed
enables chemokine activity	ISO Inferred from Sequence Orthology more info
enables chemokine receptor binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in G protein-coupled receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in T cell costimulation	IDA Inferred from Direct Assay more info	PubMed
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	ISO Inferred from Sequence Orthology more info
involved_in cell chemotaxis	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell chemotaxis	ISO Inferred from Sequence Orthology more info
involved_in cell maturation	IDA Inferred from Direct Assay more info	PubMed
involved_in cellular response to chemokine	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in chemokine (C-C motif) ligand 21 signaling pathway	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 dendritic cell chemotaxis	ISO Inferred from Sequence Orthology more info
involved_in dendritic cell dendrite assembly	IDA Inferred from Direct Assay more info	PubMed
involved_in establishment of T cell polarity	ISO Inferred from Sequence Orthology more info
involved_in establishment of T cell polarity	ISS Inferred from Sequence or Structural Similarity more info
involved_in immune response	IEA Inferred from Electronic Annotation more info
involved_in immunological synapse formation	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within induction of positive chemotaxis	IDA Inferred from Direct Assay more info	PubMed
involved_in inflammatory response	IBA Inferred from Biological aspect of Ancestor more info
involved_in inflammatory response	IEA Inferred from Electronic Annotation more info
involved_in killing of cells of another organism	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within lymph node development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mesangial cell-matrix adhesion	ISO Inferred from Sequence Orthology more info
involved_in mesangial cell-matrix adhesion	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of dendritic cell apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of dendritic cell apoptotic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of dendritic cell dendrite assembly	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of leukocyte tethering or rolling	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of ERK1 and ERK2 cascade	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of ERK1 and ERK2 cascade	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of JNK cascade	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of JNK cascade	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of T cell chemotaxis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within positive regulation of T cell migration	ISO Inferred from Sequence Orthology more info	PubMed
involved_in positive regulation of actin filament polymerization	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of actin filament polymerization	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of canonical NF-kappaB signal transduction	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of canonical NF-kappaB signal transduction	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of cell adhesion mediated by integrin	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell adhesion mediated by integrin	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of cell migration	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of cell motility	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell motility	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of cell-matrix adhesion	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell-matrix adhesion	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of chemotaxis	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of dendritic cell antigen processing and presentation	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of filopodium assembly	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of filopodium assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of glycoprotein biosynthetic process	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of macrophage chemotaxis	NAS Non-traceable Author Statement more info	PubMed
involved_in positive regulation of myeloid dendritic cell chemotaxis	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of myeloid dendritic cell chemotaxis	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of neutrophil chemotaxis	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of neutrophil chemotaxis	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of pseudopodium assembly	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of pseudopodium assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of receptor-mediated endocytosis	IDA Inferred from Direct Assay more info	PubMed
involved_in release of sequestered calcium ion into cytosol	ISO Inferred from Sequence Orthology more info
involved_in release of sequestered calcium ion into cytosol	ISS Inferred from Sequence or Structural Similarity more info
involved_in response to prostaglandin E	ISO Inferred from Sequence Orthology more info
involved_in response to prostaglandin E	ISS Inferred from Sequence or Structural Similarity more info
involved_in ruffle organization	ISO Inferred from Sequence Orthology more info
involved_in ruffle organization	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info
located_in extracellular space	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: C-C motif chemokine 21a

Names: CC chemokine 6Ckine-ser; CCL21-Ser; beta-chemokine exodus-2; chemokine (C-C motif) ligand 21A (serine); exodus-2; small inducible cytokine A21a; thymus-derived chemotactic agent 4

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_011124.4 → NP_035254.1 C-C motif chemokine 21a precursor

See identical proteins and their annotated locations for NP_035254.1

Status: PROVISIONAL

Source sequence(s)

AL772334

Consensus CDS

CCDS18081.1

UniProtKB/Swiss-Prot

O09002, O09006, P84444, Q3U1J2, Q91V84

Related

ENSMUSP00000092732.5, ENSMUST00000095114.5

Conserved Domains (1) summary

cl00134
Location:29 → 91

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 ...