Ccl21b C-C motif chemokine ligand 21B (leucine) [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Ccl21bprovided by MGI
Official Full Name: C-C motif chemokine ligand 21B (leucine)provided by MGI
Primary source: MGI:MGI:1349182
See related: Ensembl:ENSMUSG00000095675 AllianceGenome:MGI:1349182
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: SLC; CKb9; TCA4; 6Ckine; Scya21; 6CKBAC1; Scya21a; Scya21b; Scya21c; exodus-2
Summary: Predicted to enable CCR chemokine receptor binding activity and chemokine activity. Predicted to be involved in several processes, including positive regulation of cellular component biogenesis; positive regulation of intracellular signal transduction; and regulation of leukocyte migration. Predicted to act upstream of or within leukocyte chemotaxis and negative regulation of myeloid cell differentiation. Located in external side of plasma membrane. Is expressed in branchial arch; hemolymphoid system; and renal vasculature. Orthologous to human CCL21 (C-C motif chemokine ligand 21). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Broad expression in thymus adult (RPKM 81.9), spleen adult (RPKM 57.0) and 15 other tissues See more
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Genomic context

Location:: 4 A5; 4 22.12 cM

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	4	NC_000070.7 (42173120..42256825)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	4	NC_000070.6 (42173120..42256825)

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:

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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?

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.
Secondary lymphoid organ chemokine gene CCL21a, expressed predominantly in the lymphoid organs, promotes lymphocyte recruitment to the pancreas of transgenic mice, where it induces formation of lymph node-like structures.
Title: Ectopic expression of the murine chemokines CCL21a and CCL21b induces the formation of lymph node-like structures in pancreas, but not skin, of transgenic mice.
The occurrence of LYVE-1-expressing lymphatic compartments and the alteration of CCL21 expression in the lymphatics may be involved in defective thymocyte differentiation and migration, and play a significant role in insulitic and diabetic processes.
Title: Lymphatic vascular endothelial hyaluronan receptor (LYVE)-1- and CCL21-positive lymphatic compartments in the diabetic thymus.

Submit: New GeneRIF Correction

Variation

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Alleles

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

Endonuclease-mediated (1)

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 chemokine activity	IBA Inferred from Biological aspect of Ancestor more info
enables chemokine activity	ISO Inferred from Sequence Orthology more info	PubMed
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 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 chemokine-mediated signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in dendritic cell chemotaxis	ISO Inferred from Sequence Orthology more info
involved_in establishment of T cell polarity	ISO Inferred from Sequence Orthology more info
involved_in immune response	IEA Inferred from Electronic Annotation more info
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 leukocyte chemotaxis	ISO Inferred from Sequence Orthology more info	PubMed
involved_in mesangial cell-matrix adhesion	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of dendritic cell apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of leukocyte tethering or rolling	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of myeloid cell differentiation	ISO Inferred from Sequence Orthology more info	PubMed
involved_in positive regulation of ERK1 and ERK2 cascade	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of JNK cascade	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of actin filament polymerization	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of canonical NF-kappaB signal transduction	ISO Inferred from Sequence Orthology 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 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-matrix adhesion	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of filopodium assembly	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of myeloid dendritic cell chemotaxis	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of neutrophil chemotaxis	ISO Inferred from Sequence Orthology 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 pseudopodium assembly	ISO Inferred from Sequence Orthology more info
involved_in release of sequestered calcium ion into cytosol	ISO Inferred from Sequence Orthology more info
involved_in response to prostaglandin E	ISO Inferred from Sequence Orthology more info
involved_in ruffle organization	ISO Inferred from Sequence Orthology more info
involved_in signal transduction	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in external side of plasma membrane	IDA Inferred from Direct Assay more info	PubMed
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 21b

Names: C-C motif chemokine 21c; Ccl21-leu; Small-inducible cytokine A21c; beta-chemokine exodus-2; chemokine (C-C motif) ligand 21B (leucine); chemokine (C-C motif) ligand 21C (leucine); secondary lymphoid organ chemokine; small inducible cytokine A21; small-inducible cytokine A21a; small-inducible cytokine A21b; 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_001378605.1 → NP_001365534.1 C-C motif chemokine 21b isoform 2

Status: VALIDATED

Source sequence(s)

AL824709, AL844494

Conserved Domains (1) summary

cl00134
Location:84 → 146

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 into 4 ...
NM_011335.3 → NP_035465.2 C-C motif chemokine 21b isoform 1 precursor

See identical proteins and their annotated locations for NP_035465.2

Status: VALIDATED

Source sequence(s)

AL824709, AL844494

Consensus CDS

CCDS51145.1

UniProtKB/Swiss-Prot

P84443, P86792, P86793, Q5M8M5

Conserved Domains (1) summary

cl00134
Location:29 → 91

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 into 4 ...

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000070.7 Reference GRCm39 C57BL/6J

Range

42173120..42256825

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_036163529.1 → XP_036019422.1 C-C motif chemokine 21b isoform X2

Conserved Domains (1) summary

cl00134
Location:116 → 178

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 into 4 ...
XM_036163528.1 → XP_036019421.1 C-C motif chemokine 21b isoform X1

UniProtKB/Swiss-Prot

P84443, P86792, P86793, Q5M8M5

Related

ENSMUSP00000137149.2, ENSMUST00000178864.3

Conserved Domains (1) summary

cl00134
Location:29 → 91

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 into 4 ...