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Ccl21a Gene Detail
Summary
  • Symbol
    Ccl21a
  • Name
    C-C motif chemokine ligand 21 (serine)
  • Synonyms
    6CKBAC2, 6Ckine, ALP, CKb9, Exodus-2, Gm1987, Scya21, Scya21b, SLC, Tca4
  • Feature Type
    protein coding gene
  • IDs
    MGI:1349183
    NCBI Gene: 18829
  • Alliance
    gene page
  • Transcription Start Sites
    1 TSS
Location &
Maps
more
  • Sequence Map
    Chr4:42772860-42773991 bp, - strand
    From NCBI annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 4, 22.43 cM
  • Mapping Data
    6 experiments
Strain
Comparison
more
  • SNPs within 2kb
    8 from dbSNP Build 142
  • Strain Annotations
    6
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_1349183
 protein coding gene Chr4:42772860-42773993 (-)
129S1/SvImJ MGP_129S1SvImJ_G0028185
 protein coding gene Chr4:40648261-40649380 (+)
A/J no annotation
AKR/J no annotation
BALB/cJ MGP_BALBcJ_G0028161
 protein coding gene Chr4:39322466-39323708 (+)
C3H/HeJ MGP_C3HHeJ_G0027886
 protein coding gene Chr4:40701449-40702582 (+)
C57BL/6NJ no annotation
CAROLI/EiJ no annotation
CAST/EiJ no annotation
CBA/J no annotation
DBA/2J no annotation
FVB/NJ no annotation
LP/J no annotation
NOD/ShiLtJ MGP_NODShiLtJ_G0027992
 protein coding gene Chr4:46791295-46792427 (+)
NZO/HlLtJ no annotation
PWK/PhJ no annotation
SPRET/EiJ MGP_SPRETEiJ_G0026876
 protein coding gene Chr4:39861632-39862714 (+)
WSB/EiJ no annotation



Homology
more
  • Human Ortholog
    CCL21, C-C motif chemokine ligand 21
  • Vertebrate Orthologs
    4
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    CCL21, C-C motif chemokine ligand 21
  • Synonyms
    6Ckine, CKb9, ECL, SCYA21, SLC, TCA4
  • Links
    NCBI Gene ID: 6366
    neXtProt AC: NX_O00585
    UniProt: O00585

  • Chr Location
    9p13.3; chr9:34709005-34710136 (-)  GRCh38
Human Diseases
less
  • References
    1 with disease annotations
Mutations,
Alleles, and
Phenotypes
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  • Phenotype Summary
    9 phenotypes from 1 allele in 1 genetic background
    83 phenotype references
Phenotype Overview

adipose tissue
behavior/neurological
cardiovascular system
cellular
craniofacial
digestive/alimentary system
embryo
endocrine/exocrine glands
growth/size/body
hearing/vestibular/ear
hematopoietic system
homeostasis/metabolism
integument
immune system
limbs/digits/tail
liver/biliary system
mortality/aging
muscle
nervous system
pigmentation
renal/urinary system
reproductive system
respiratory system
skeleton
taste/olfaction
neoplasm
vision/eye

Click cells to view annotations.
Mice homozygous for a knock-out allele exhibit impaired negative T cell selection with small thymus medulla, decreased thymic B cells and autoimmune dacryoadenitis.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    73
  • GO References
    12
Molecular Function

carbohydrate derivative binding
cytoskeletal protein binding
DNA binding
enzyme regulator
hydrolase
ligase
lipid binding
oxidoreductase
RNA binding
signaling receptor activity
signaling receptor binding
transcription
transferase
transporter
Biological Process

carbohydrate derivative metabolism
cell differentiation
cell population proliferation
cellular component organization
DNA-templated transcription
establishment of localization
homeostatic process
immune system process
lipid metabolic process
programmed cell death
protein metabolic process
response to stimulus
signaling
system development
Cellular Component

cell projection
cytoplasmic vesicle
cytoskeleton
cytosol
endoplasmic reticulum
endosome
extracellular region
Golgi apparatus
mitochondrion
non-membrane-bounded organelle
nucleus
organelle envelope
organelle lumen
plasma membrane
protein-containing complex
synapse
vacuole
Click cells to view annotations.
Expression
less
Expression Overview

early conceptus
embryo ectoderm
embryo endoderm
embryo mesoderm
embryo mesenchyme
extraembryonic component
alimentary system
auditory system
branchial arches
cardiovascular system
connective tissue
endocrine system
exocrine system
hemolymphoid system
integumental system
limbs
liver and biliary system
musculoskeletal system
nervous system
olfactory system
reproductive system
respiratory system
urinary system
visual system
Click cells to view annotations.


  • Assay Results
    760
  • Tissues
    30
  • cDNA Data
    13
  • Literature Summary
    30
  • Comparison Matrix
    Gene Expression + Phenotype
    • Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic 18829 NCBI Gene Model | MGI Sequence Detail 1132 C57BL/6J ±  kb
    transcript NM_011124 RefSeq | MGI Sequence Detail 868 ZRU/MplStud  
    polypeptide P84444 UniProt | EBI | MGI Sequence Detail 133 Not Applicable  
    For the selected sequence
    Protein
    Information
    less
    Molecular
    Reagents
    less
    • All nucleic 20
      Genomic 3
      cDNA 13
      Primer pair 3
      Other 1

      Microarray probesets 1
    Other
    Accession IDs
    less
    MGI:1270157, MGI:2140627, MGI:3780156
    References
    more
    • Summaries
      All 161
      Developmental Gene Expression 30
      Diseases 1
      Gene Ontology 12
      Phenotypes 83
    • Earliest
      J:15290 Nakano H, et al., Nonspecific augmentation of lymph node T cells and I-E-independent selective deletion of V beta 14+ T cells by Mtv-2 in the DDD mouse. Eur J Immunol. 1993 Oct;23(10):2434-9
    • Latest
      J:336858 Vallecillo-Garcia P, et al., A local subset of mesenchymal cells expressing the transcription factor Osr1 orchestrates lymph node initiation. Immunity. 2023 Jun 13;56(6):1204-1219.e8
    Contributing Projects:
    Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
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    Funding Information
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    Send questions and comments to User Support.     		last database update
    04/09/2024
    MGI 6.23     		The Jackson Laboratory