Ccl20 (chemokine (C-C motif) ligand 20) - Rat Genome Database

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Gene: Ccl20 (chemokine (C-C motif) ligand 20) Mus musculus
Analyze
Symbol: Ccl20
Name: chemokine (C-C motif) ligand 20
RGD ID: 1332345
MGI Page MGI
Description: Enables CCR6 chemokine receptor binding activity and cytokine activity. Involved in chemotaxis and thymocyte migration. Predicted to be located in extracellular region. Predicted to be active in extracellular space. Is expressed in trachea epithelium. Orthologous to human CCL20 (C-C motif chemokine ligand 20).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: beta chemokine exodus-1; beta-chemokine exodus-1; C-C motif chemokine 20; CC chemokine LARC; CC chemokine ST38; CKb4; exodus; exodus-1; LARC; liver and activation-regulated chemokine; macrophage inflammatory protein 3 alpha; MI; MIP; MIP-3; MIP-3-alpha; MIP-3[a]; MIP-3A; MIP3A; Scya; Scya20; small inducible cytokine subfamily A20; small-inducible cytokine A20; ST3; ST38
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39183,094,487 - 83,096,888 (+)NCBIGRCm39mm39
GRCm39 Ensembl183,094,487 - 83,096,888 (+)Ensembl
GRCm38183,116,766 - 83,119,167 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl183,116,766 - 83,119,167 (+)EnsemblGRCm38mm10GRCm38
MGSCv37183,113,341 - 83,115,742 (+)NCBIGRCm37mm9NCBIm37
MGSCv36182,995,806 - 82,998,190 (+)NCBImm8
Celera183,181,441 - 83,183,842 (+)NCBICelera
Cytogenetic Map1C5NCBI
cM Map142.69NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-demecolcine  (ISO)
1,2,4-trimethylbenzene  (ISO)
1,2-dichloroethane  (EXP)
1,2-dimethylhydrazine  (EXP)
1-chloro-2,4-dinitrobenzene  (EXP)
1-naphthyl isothiocyanate  (ISO)
1-nitropyrene  (ISO)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-amino-2-deoxy-D-glucopyranose  (ISO)
2-hydroxypropanoic acid  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (ISO)
3-chlorophenol  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (EXP)
3-Nitrofluoranthene  (ISO)
3-phenylprop-2-enal  (EXP,ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
6alpha-methylprednisolone  (ISO)
aflatoxin B1  (ISO)
aldehydo-D-glucosamine  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (ISO)
antirheumatic drug  (ISO)
aripiprazole  (ISO)
aristolochic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
asperentin  (EXP)
azathioprine  (ISO)
barium sulfate  (ISO)
benzalkonium chloride  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
beta-D-glucosamine  (ISO)
beta-naphthoflavone  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
butan-1-ol  (ISO)
butanal  (ISO)
cadmium dichloride  (ISO)
calcitriol  (ISO)
cannabidiol  (ISO)
capsaicin  (ISO)
carbon nanotube  (ISO)
cefaloridine  (ISO)
ceric oxide  (EXP,ISO)
chenodeoxycholic acid  (EXP)
chloroprene  (EXP)
chromium(6+)  (EXP)
ciglitazone  (ISO)
cisplatin  (ISO)
cobalt atom  (EXP,ISO)
copper(II) sulfate  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (EXP,ISO)
deoxycholic acid  (EXP)
deoxynivalenol  (ISO)
dexamethasone  (EXP,ISO)
diarsenic trioxide  (ISO)
dibenzofuran  (ISO)
dibutyl phthalate  (ISO)
dichlorine  (EXP)
diethyl malate  (EXP)
dioxygen  (ISO)
dorsomorphin  (ISO)
doxorubicin  (EXP,ISO)
endosulfan  (ISO)
eugenol  (ISO)
flavonoids  (ISO)
formaldehyde  (ISO)
fragrance  (ISO)
fulvestrant  (ISO)
fumonisin B1  (ISO)
furan  (ISO)
gemcitabine  (ISO)
gentamycin  (ISO)
glutathione  (ISO)
hexachlorobenzene  (ISO)
hydrogen peroxide  (ISO)
indoxyl sulfate  (EXP)
iron(2+) sulfate (anhydrous)  (ISO)
leflunomide  (ISO)
linuron  (EXP)
lipopolysaccharide  (EXP,ISO)
melphalan  (ISO)
mercury dichloride  (ISO)
mesalamine  (ISO)
methotrexate  (ISO)
methylisothiazolinone  (ISO)
methylmercury chloride  (ISO)
Muraglitazar  (ISO)
mycophenolic acid  (EXP)
mycotoxin  (EXP)
N-acetyl-L-cysteine  (ISO)
N-methyl-N-nitrosourea  (EXP)
N-Nitrosopyrrolidine  (ISO)
naphthalenes  (ISO)
naproxen  (ISO)
neoechinulin A  (EXP)
nickel atom  (EXP,ISO)
nickel dichloride  (ISO)
nickel sulfate  (ISO)
niclosamide  (EXP,ISO)
nicotinamide  (ISO)
o-anisidine  (ISO)
oxaliplatin  (ISO)
ozone  (EXP,ISO)
paracetamol  (EXP,ISO)
paraquat  (EXP,ISO)
PD 0325901  (ISO)
pentanal  (ISO)
peptidoglycan  (ISO)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluoroundecanoic acid  (ISO)
phenobarbital  (ISO)
PhIP  (ISO)
phorbol 13-acetate 12-myristate  (EXP)
pirinixic acid  (EXP,ISO)
piroxicam  (ISO)
potassium bromate  (EXP,ISO)
potassium dichromate  (ISO)
prednisolone  (ISO)
propanal  (ISO)
prostaglandin E2  (EXP,ISO)
pyrrolidine dithiocarbamate  (ISO)
rac-lactic acid  (ISO)
raloxifene  (ISO)
razoxane  (ISO)
resveratrol  (EXP)
ritonavir  (ISO)
rofecoxib  (EXP)
SB 431542  (ISO)
serpentine asbestos  (ISO)
silicon dioxide  (EXP,ISO)
simvastatin  (ISO)
sirtinol  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (EXP,ISO)
sodium aurothiomalate  (ISO)
sodium dichromate  (ISO)
sodium dodecyl sulfate  (ISO)
sterigmatocystin  (EXP)
sulforaphane  (EXP,ISO)
sulfur dioxide  (ISO)
sumatriptan  (ISO)
tacrolimus hydrate  (EXP)
tamoxifen  (ISO)
taurocholic acid  (EXP)
tenofovir disoproxil fumarate  (ISO)
titanium dioxide  (EXP,ISO)
topotecan  (ISO)
trichloroethene  (ISO)
trimellitic anhydride  (EXP)
troglitazone  (ISO)
Tryptanthrine  (EXP)
Tungsten carbide  (ISO)
tunicamycin  (ISO)
undecane  (ISO)
valproic acid  (ISO)
vincristine  (ISO)
vorinostat  (ISO)
zinc atom  (EXP,ISO)
zinc dichloride  (ISO)
zinc oxide  (ISO)
zinc(0)  (EXP,ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Increased presence of dendritic cells and dendritic cell chemokines in the sinus mucosa of chronic rhinosinusitis with nasal polyps and allergic fungal rhinosinusitis. Ayers CM, etal., Int Forum Allergy Rhinol. 2011 Jul-Aug;1(4):296-302. doi: 10.1002/alr.20046. Epub 2011 Apr 11.
2. Orchestration of inflammation and adaptive immunity in Borrelia burgdorferi-induced arthritis by neutrophil-activating protein A. Codolo G, etal., Arthritis Rheum. 2013 May;65(5):1232-42. doi: 10.1002/art.37875.
3. Expression of inflammatory chemokines combined with local tumor destruction enhances tumor regression and long-term immunity. Crittenden M, etal., Cancer Res. 2003 Sep 1;63(17):5505-12.
4. Baicalin down-regulates the expression of macrophage migration inhibitory factor (MIF) effectively for rats with ulcerative colitis. Dai SX, etal., Phytother Res. 2012 Apr;26(4):498-504. doi: 10.1002/ptr.3581. Epub 2011 Sep 2.
5. Lateral fluid percussion injury of the brain induces CCL20 inflammatory chemokine expression in rats. Das M, etal., J Neuroinflammation. 2011 Oct 31;8:148. doi: 10.1186/1742-2094-8-148.
6. Age-related T-cell cytokine profile parallels corneal disease severity in Sjogren's syndrome-like keratoconjunctivitis sicca in CD25KO mice. De Paiva CS, etal., Rheumatology (Oxford). 2010 Feb;49(2):246-58. doi: 10.1093/rheumatology/kep357. Epub 2009 Dec 9.
7. The CCR6/CCL20 axis mediates Th17 cell migration to the ocular surface in dry eye disease. Dohlman TH, etal., Invest Ophthalmol Vis Sci. 2013 Jun 12;54(6):4081-91. doi: 10.1167/iovs.12-11216.
8. [Expression of CCL20 and CXCR4 in epidermal condyloma acuminatum lesions]. Feng JY, etal., Nan Fang Yi Ke Da Xue Xue Bao. 2007 Apr;27(4):418-20.
9. Cytokine and chemokine expression in the skin from patients with maculopapular exanthema to drugs. Fernandez TD, etal., Allergy. 2008 Jun;63(6):712-9. doi: 10.1111/j.1398-9995.2007.01607.x. Epub 2008 Mar 29.
10. Elevated CCR6+ CD4+ T lymphocytes in tissue compared with blood and induction of CCL20 during the asthmatic late response. Francis JN, etal., Clin Exp Immunol. 2008 Jun;152(3):440-7. doi: 10.1111/j.1365-2249.2008.03657.x. Epub 2008 Apr 16.
11. Hypothermia-enhanced splenic cytokine gene expression is independent of the sympathetic nervous system. Ganta CK, etal., Am J Physiol Regul Integr Comp Physiol. 2006 Sep;291(3):R558-65.
12. TNF inhibition rapidly down-regulates multiple proinflammatory pathways in psoriasis plaques. Gottlieb AB, etal., J Immunol. 2005 Aug 15;175(4):2721-9.
13. Up-regulation of macrophage inflammatory protein-3 alpha/CCL20 and CC chemokine receptor 6 in psoriasis. Homey B, etal., J Immunol. 2000 Jun 15;164(12):6621-32.
14. Expression profile of chemokines and chemokine receptors in epithelial cell layers of oral lichen planus. Ichimura M, etal., J Oral Pathol Med. 2006 Mar;35(3):167-74.
15. Detection and localization of Mip-3alpha/LARC/Exodus, a macrophage proinflammatory chemokine, and its CCR6 receptor in human pancreatic cancer. Kleeff J, etal., Int J Cancer. 1999 May 17;81(4):650-7.
16. Up-regulation of chemokine ligand 20 in chronic rhinosinusitis. Lee JH, etal., Arch Otolaryngol Head Neck Surg. 2006 May;132(5):537-41.
17. Sensitization to Per a 2 of the American cockroach correlates with more clinical severity among airway allergic patients in Taiwan. Lee MF, etal., Ann Allergy Asthma Immunol. 2012 Apr;108(4):243-8. doi: 10.1016/j.anai.2012.01.014. Epub 2012 Feb 14.
18. CCR6 is required for epidermal trafficking of gammadelta-T cells in an IL-23-induced model of psoriasiform dermatitis. Mabuchi T, etal., J Invest Dermatol. 2013 Jan;133(1):164-71. doi: 10.1038/jid.2012.260. Epub 2012 Aug 16.
19. Electronic Transfer of Homolog Data MGD and Homologene mouse data transfer
20. MGDs mouse GO annotations MGD data from the GO Consortium
21. IL-22, but not IL-17, dominant environment in cutaneous T-cell lymphoma. Miyagaki T, etal., Clin Cancer Res. 2011 Dec 15;17(24):7529-38. doi: 10.1158/1078-0432.CCR-11-1192. Epub 2011 Nov 2.
22. Chemokine signatures in the skin disorders of Lyme borreliosis in Europe: predominance of CXCL9 and CXCL10 in erythema migrans and acrodermatitis and CXCL13 in lymphocytoma. Mullegger RR, etal., Infect Immun. 2007 Sep;75(9):4621-8. Epub 2007 Jul 2.
23. Inducible expression of a CC chemokine liver- and activation-regulated chemokine (LARC)/macrophage inflammatory protein (MIP)-3 alpha/CCL20 by epidermal keratinocytes and its role in atopic dermatitis. Nakayama T, etal., Int Immunol. 2001 Jan;13(1):95-103.
24. Dendritic cell subsets and immunological milieu in inflammatory human papilloma virus-related skin lesions. Nakayama Y, etal., J Dermatol Sci. 2011 Sep;63(3):173-83. doi: 10.1016/j.jdermsci.2011.05.006. Epub 2011 Jun 6.
25. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
26. Dermatophagoides farinae extract induces severe atopic dermatitis in NC/Nga mice, which is effectively suppressed by the administration of tacrolimus ointment. Oshio T, etal., Int Immunopharmacol. 2009 Apr;9(4):403-11. doi: 10.1016/j.intimp.2008.12.013. Epub 2009 Jan 20.
27. Neutropenia enhances lung dendritic cell recruitment in response to Aspergillus via a cytokine-to-chemokine amplification loop. Park SJ, etal., J Immunol. 2010 Nov 15;185(10):6190-7. doi: 10.4049/jimmunol.1002064. Epub 2010 Oct 6.
28. Deletion of interferon-gamma delays onset and severity of dacryoadenitis in CD25KO mice. Pelegrino FS, etal., Arthritis Res Ther. 2012 Nov 1;14(6):R234.
29. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
30. High glucose induces macrophage inflammatory protein-3 alpha in renal proximal tubule cells via a transforming growth factor-beta 1 dependent mechanism. Qi W, etal., Nephrol Dial Transplant. 2007 Nov;22(11):3147-53. Epub 2007 Jul 29.
31. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
32. Protein expression changes during human triple negative breast cancer cell line progression to lymph node metastasis in a xenografted model in nude mice. Roberti MP, etal., Cancer Biol Ther. 2012 Sep;13(11):1123-40. doi: 10.4161/cbt.21187. Epub 2012 Jul 24.
33. MCP-1 and MIP3-alpha serum levels in acute liver failure and molecular adsorbent recirculating system (MARS) treatment: a pilot study. Roth GA, etal., Scand J Gastroenterol. 2009;44(6):745-51. doi: 10.1080/00365520902770086.
34. Corneal epithelial cells and stromal keratocytes efficently produce CC chemokine-ligand 20 (CCL20) and attract cells expressing its receptor CCR6 in mouse herpetic stromal keratitis. Shirane J, etal., Curr Eye Res. 2004 May;28(5):297-306.
35. Up-regulation of CC chemokine ligand 20 and its receptor CCR6 in the lesional skin of early systemic sclerosis. Tao J, etal., Eur J Dermatol. 2011 Sep-Oct;21(5):731-6. doi: 10.1684/ejd.2011.1469.
36. Macrophage inflammatory protein-3alpha plays a key role in the inflammatory cascade in rat focal cerebral ischemia. Terao Y, etal., Neurosci Res. 2009 May;64(1):75-82. doi: 10.1016/j.neures.2009.01.017. Epub 2009 Feb 13.
37. A novel rat CC chemokine, identified by targeted differential display, is upregulated in brain inflammation. Utans-Schneitz U, etal., J Neuroimmunol 1998 Dec 1;92(1-2):179-90.
38. Transcriptional regulation of inflammatory and extracellular matrix-regulating genes in cerebral arteries following experimental subarachnoid hemorrhage in rats. Laboratory investigation. Vikman P, etal., J Neurosurg. 2007 Nov;107(5):1015-22.
39. Late angiotensin II receptor blockade in progressive rat mesangioproliferative glomerulonephritis: new insights into mechanisms. Villa L, etal., J Pathol. 2013 Apr;229(5):672-84. doi: 10.1002/path.4151. Epub 2013 Mar 5.
40. Gene expression profiles of nasal polyps associated with allergic rhinitis. Wu J, etal., Am J Otolaryngol. 2009 Jan-Feb;30(1):24-32. doi: 10.1016/j.amjoto.2008.01.003. Epub 2008 Jul 9.
Additional References at PubMed
PMID:9862452   PMID:10064080   PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:11465103   PMID:12080938   PMID:12126650   PMID:12477932   PMID:12528183   PMID:12794163  
PMID:12816871   PMID:15381731   PMID:15730387   PMID:16141072   PMID:16141073   PMID:16602821   PMID:17272517   PMID:17885999   PMID:17934471   PMID:18025126   PMID:18083111   PMID:18287559  
PMID:18315924   PMID:19050256   PMID:19295614   PMID:19303953   PMID:19305396   PMID:20068036   PMID:20101616   PMID:20804501   PMID:21346235   PMID:21518851   PMID:21559338   PMID:21677750  
PMID:21873635   PMID:22277947   PMID:22319003   PMID:22796894   PMID:23025258   PMID:23178752   PMID:23601903   PMID:23620790   PMID:24296428   PMID:24534531   PMID:24638065   PMID:24657179  
PMID:24699535   PMID:24733189   PMID:24807244   PMID:25177208   PMID:25265199   PMID:25378482   PMID:26259605   PMID:26890063   PMID:27311858   PMID:27590109   PMID:27653694   PMID:27742702  
PMID:28358362   PMID:28602508   PMID:28798316   PMID:28837246   PMID:29695802   PMID:29984403   PMID:30133119   PMID:31132747   PMID:31151410   PMID:31883833   PMID:32093751   PMID:32286221  
PMID:32507279   PMID:32533638   PMID:32599163   PMID:33707780   PMID:34278466  


Genomics

Comparative Map Data
Ccl20
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39183,094,487 - 83,096,888 (+)NCBIGRCm39mm39
GRCm39 Ensembl183,094,487 - 83,096,888 (+)Ensembl
GRCm38183,116,766 - 83,119,167 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl183,116,766 - 83,119,167 (+)EnsemblGRCm38mm10GRCm38
MGSCv37183,113,341 - 83,115,742 (+)NCBIGRCm37mm9NCBIm37
MGSCv36182,995,806 - 82,998,190 (+)NCBImm8
Celera183,181,441 - 83,183,842 (+)NCBICelera
Cytogenetic Map1C5NCBI
cM Map142.69NCBI
CCL20
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382227,813,842 - 227,817,556 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl2227,805,739 - 227,817,564 (+)EnsemblGRCh38hg38GRCh38
GRCh372228,678,558 - 228,682,272 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362228,386,814 - 228,390,494 (+)NCBINCBI36hg18NCBI36
Build 342228,504,074 - 228,507,755NCBI
Celera2222,448,001 - 222,451,723 (+)NCBI
Cytogenetic Map2q36.3NCBI
HuRef2220,520,976 - 220,524,697 (+)NCBIHuRef
CHM1_12228,684,755 - 228,688,476 (+)NCBICHM1_1
T2T-CHM13v2.02228,296,236 - 228,299,949 (+)NCBI
Ccl20
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2984,389,031 - 84,391,629 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl984,388,904 - 84,391,629 (+)Ensembl
Rnor_6.0988,918,359 - 88,921,017 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl988,918,433 - 88,921,001 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0988,662,765 - 88,665,379 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4982,440,965 - 82,443,542 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1982,624,383 - 82,626,960 (+)NCBI
Celera981,830,990 - 81,833,567 (+)NCBICelera
Cytogenetic Map9q34NCBI
Ccl20
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554536,846,549 - 6,850,031 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554536,846,625 - 6,850,007 (-)NCBIChiLan1.0ChiLan1.0
CCL20
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12B233,862,505 - 233,866,225 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B233,862,505 - 233,866,225 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02B115,052,768 - 115,056,479 (+)NCBIMhudiblu_PPA_v0panPan3
CCL20
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12540,506,385 - 40,509,903 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2540,506,753 - 40,509,709 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2541,124,207 - 41,127,161 (+)NCBI
ROS_Cfam_1.02540,753,667 - 40,756,954 (+)NCBI
ROS_Cfam_1.0 Ensembl2540,753,401 - 40,756,953 (+)Ensembl
UMICH_Zoey_3.12540,689,847 - 40,692,573 (+)NCBI
UNSW_CanFamBas_1.02540,531,942 - 40,534,671 (+)NCBI
UU_Cfam_GSD_1.02540,704,782 - 40,707,510 (+)NCBI
Ccl20
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303182,698,770 - 182,701,593 (+)NCBI
SpeTri2.0NW_0049365258,238,128 - 8,240,974 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CCL20
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.115129,172,743 - 129,176,069 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215143,050,303 - 143,053,630 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CCL20
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.110113,815,099 - 113,836,562 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl10113,832,573 - 113,835,736 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604085,618,590 - 85,622,439 (-)NCBIVero_WHO_p1.0
Ccl20
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248432,017,738 - 2,021,153 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
AB015136  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38183,118,755 - 83,118,839UniSTSGRCm38
MGSCv37183,115,330 - 83,115,414UniSTSGRCm37
Celera183,183,430 - 83,183,514UniSTS
Cytogenetic Map1C5UniSTS
cM Map152.0UniSTS
Whitehead/MRC_RH11181.15UniSTS
Scya20  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38183,117,836 - 83,118,804UniSTSGRCm38
MGSCv37183,114,411 - 83,115,379UniSTSGRCm37
Celera183,182,511 - 83,183,479UniSTS
Cytogenetic Map1C5UniSTS
cM Map152.0UniSTS


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
13824984Twq5_mtestis weight QTL 5 (mouse)13069992184732197Mouse
11039528Ccc3_mcolitis susceptibility in the Collaborative Cross 3 (mouse)13680142195051546Mouse
1357753Kidq2_mkidney weight QTL 2 (mouse)Not determined134760138150193871Mouse
1357488Splq3_mspleen weight QTL 3 (mouse)Not determined134760138150193871Mouse
1558860W10q7_mweight 10 weeks QTL 7 (mouse)Not determined134760138150193871Mouse
1357721Sle17_msystematic lupus erythematosus susceptibility 17 (mouse)Not determined139132808126445310Mouse
1301722Cia9_mcollagen induced arthritis QTL 9 (mouse)Not determined145783900189303617Mouse
10043965Obq24_mobesity QTL 24 (mouse)Not determined15089021684890216Mouse
4141305Tgq9_mtriglyceride QTL 9 (mouse)Not determined5142160585421605Mouse
4142291Aec2_mautoimmune exocrinopathy 2 (mouse)Not determined52457737182250592Mouse
1357741Nidd5k_mNidd5 on KK-A<y> (mouse)Not determined15597494889975057Mouse
4142467Wbcq1_mwhite blood cell quantitative locus 1 (mouse)Not determined15626621490266360Mouse
1357505Vtbt1_mvertebral trabecular bone trait 1 (mouse)Not determined15626621490266360Mouse
1558717Ses1a_msalmonella enteritidis susceptibility 1a (mouse)Not determined15672692290727077Mouse
1301933Insq6_minsulin QTL 6 (mouse)Not determined15672692290727077Mouse
14746998Mancz1_mmandible centroid size 1 (mouse)15794135191941351Mouse
14747009Manh49_mmandible shape 49 (mouse)15794135191941351Mouse
1300746Skl1_mskeletal size (tail length) 1 (mouse)Not determined15799197791992080Mouse
1357679Egrm1_mearly growth rate, maternal effect 1 (mouse)Not determined15799197791992080Mouse
1301162Skull1_mskull morphology 1 (mouse)Not determined15799197791992080Mouse
1301667Lxw5_mlupus BXSB x NZW 5 (mouse)Not determined15854919192549443Mouse
1301444Alcw5_malcohol withdrawal 5 (mouse)Not determined15854919192549443Mouse
1301748Abbp1_mA/J and C57BL/6 blood pressure 1 (mouse)Not determined162946755120529678Mouse
10412185Hcs9_mhepatocarcinogenesis susceptibility 9 (mouse)Not determined163854690189303617Mouse
1300841Ssial1_msusceptibility to sialadenitis 1 (mouse)Not determined163920002153557562Mouse
1302119Cia15_mcollagen induced arthritis 15 (mouse)Not determined16588900688496101Mouse
27095918Ulnl1_mulna length 1, 5 week (mouse)167339159129727737Mouse
4141625Emo4_memotionality 4 (mouse)Not determined6807134586235027Mouse
1302146Cocrb1_mcocaine related behavior 1 (mouse)Not determined170133533104139557Mouse
1300976Bmd19_mbone mineral density 19 (mouse)Not determined173266214108838414Mouse
4142394Mssq1_mmandible size and shape QTL 1 (mouse)Not determined73615692107615830Mouse
1301304Hrq3_mheart rate quantitative locus 3 (mouse)Not determined173615692107615830Mouse
1300989Lrdg1_mlight induced retinal degeneration 1 (mouse)Not determined173755175147125370Mouse
4141914Gcsfis_mG-CSF induced splenomegaly (mouse)Not determined74516235148715579Mouse
1357847Jckm2_mjuvenile cystic kidney modifier 2 (mouse)Not determined174991977133290937Mouse
1300821Lore1_mloss of righting induced by ethanol 1 (mouse)Not determined17554919192941077Mouse
27095931Pglq1_mpelvic girdle length QTL 1, 5 week (mouse)175976637128527737Mouse
27095928Pglq6_mpelvic girdle length QTL 6, 10 week (mouse)175976637148775742Mouse
26884448Sklq1_mskull length QTL 1, 5 week (mouse)175976637181327565Mouse
1558928Mord2_mmodifier of retinal degeneration 2 (mouse)Not determined177123115110536075Mouse
14697706Stsl3a_mSalmonella typhimurium susceptibility locus 3a (mouse)17747663795827725Mouse
14696691Malq1_mmean attack latency QTL 1 (mouse)17797663787927722Mouse
14696693Avd2q1_mattack value day 2 QTL 1 (mouse)17897771790927722Mouse
4141725Wbcq4_mwhite blood cell quantitative locus 4 (mouse)Not determined179858683113858791Mouse
12050069Nabq1_mnasal bone morphology QTL 1 (mouse)179858683113858791Mouse
13452395Leusq2_mleucocytosis susceptibility QTL 2 (mouse)180245593126386517Mouse
1302029Sst1_msusceptibility to tuberculosis 1 (mouse)Not determined18165211487130822Mouse
14696692Tavq1_mtotal attack value QTL 1 (mouse)18197771588427722Mouse
1301350Nidd4k_mNidd4 on KK-A (mouse)Not determined782291982147125370Mouse
1357439Popoa_mpremature ovulation and primary oocyte arrest (mouse)Not determined182643189135615379Mouse
10412238Alpq5_malcohol preference QTL 5 (mouse)Not determined182832635116832635Mouse
12791004Aath7_maortic arch atherosclerosis 7 (mouse)182832635116832635Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:296
Count of miRNA genes:189
Interacting mature miRNAs:200
Transcripts:ENSMUST00000027351, ENSMUST00000113437
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000027351   ⟹   ENSMUSP00000027351
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl183,094,487 - 83,096,887 (+)Ensembl
GRCm38.p6 Ensembl183,116,766 - 83,119,166 (+)Ensembl
RefSeq Acc Id: ENSMUST00000113437   ⟹   ENSMUSP00000109064
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl183,094,495 - 83,096,888 (+)Ensembl
GRCm38.p6 Ensembl183,116,774 - 83,119,167 (+)Ensembl
RefSeq Acc Id: ENSMUST00000186832   ⟹   ENSMUSP00000139923
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl183,094,514 - 83,096,888 (+)Ensembl
GRCm38.p6 Ensembl183,116,793 - 83,119,167 (+)Ensembl
RefSeq Acc Id: NM_001159738   ⟹   NP_001153210
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39183,094,487 - 83,096,888 (+)NCBI
GRCm38183,116,766 - 83,119,167 (+)NCBI
MGSCv37183,113,341 - 83,115,742 (+)RGD
Celera183,181,441 - 83,183,842 (+)RGD
cM Map1 ENTREZGENE
Sequence:
RefSeq Acc Id: NM_016960   ⟹   NP_058656
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39183,094,487 - 83,096,888 (+)NCBI
GRCm38183,116,766 - 83,119,167 (+)NCBI
MGSCv37183,113,341 - 83,115,742 (+)RGD
Celera183,181,441 - 83,183,842 (+)RGD
cM Map1 ENTREZGENE
Sequence:
Reference Sequences
RefSeq Acc Id: NP_058656   ⟸   NM_016960
- Peptide Label: isoform 1 precursor
- UniProtKB: O89093 (UniProtKB/Swiss-Prot),   Q54AI7 (UniProtKB/TrEMBL),   Q642U4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001153210   ⟸   NM_001159738
- Peptide Label: isoform 2 precursor
- UniProtKB: O89093 (UniProtKB/Swiss-Prot),   Q642U4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000027351   ⟸   ENSMUST00000027351
RefSeq Acc Id: ENSMUSP00000139923   ⟸   ENSMUST00000186832
RefSeq Acc Id: ENSMUSP00000109064   ⟸   ENSMUST00000113437
Protein Domains
SCY

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-O89093-F1-model_v2 AlphaFold O89093 1-97 view protein structure

Promoters
RGD ID:6874252
Promoter ID:EPDNEW_M576
Type:single initiation site
Name:Ccl20_1
Description:Mus musculus chemokine (C-C motif) ligand 20 , transcript variant2, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38183,116,767 - 83,116,827EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1329031 AgrOrtholog
Ensembl Genes ENSMUSG00000026166 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSMUSP00000027351.8 UniProtKB/TrEMBL
  ENSMUSP00000109064 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000139923 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000027351.13 UniProtKB/TrEMBL
  ENSMUST00000113437 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000186832 ENTREZGENE, UniProtKB/Swiss-Prot
InterPro Chemokine_b/g/d UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Chemokine_CC_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Chemokine_CC_DCCL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Chemokine_IL8-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Interleukin_8-like_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:20297 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:1329031 ENTREZGENE
NCBI Gene 20297 ENTREZGENE
PANTHER PTHR12015 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam IL8 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ccl20 PhenoGen
PROSITE SMALL_CYTOKINES_CC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART SCY UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF54117 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt CCL20_MOUSE UniProtKB/Swiss-Prot
  F8WHA7_MOUSE UniProtKB/TrEMBL
  O89093 ENTREZGENE
  Q54AI7 ENTREZGENE, UniProtKB/TrEMBL
  Q642U4 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary Q9Z1X3 UniProtKB/Swiss-Prot