CCL20 (C-C motif chemokine ligand 20) - Rat Genome Database

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Gene: CCL20 (C-C motif chemokine ligand 20) Homo sapiens
Analyze
Symbol: CCL20
Name: C-C motif chemokine ligand 20
RGD ID: 1347908
HGNC Page HGNC
Description: Enables CCR6 chemokine receptor binding activity. Involved in several processes, including antimicrobial humoral immune response mediated by antimicrobial peptide; calcium-mediated signaling using intracellular calcium source; and killing of cells of another organism. Acts upstream of or within positive regulation of T cell migration. Predicted to be located in extracellular region. Predicted to be active in extracellular space. Biomarker of several diseases, including IgA glomerulonephritis; Lyme disease; anogenital venereal wart; dermatitis (multiple); and skin papilloma.
Type: protein-coding
RefSeq Status: REVIEWED
Previously known as: beta chemokine exodus-1; beta-chemokine exodus-1; C-C motif chemokine 20; CC chemokine LARC; chemokine (C-C motif) ligand 20; CKb4; Exodus; exodus-1; LARC; liver and activation-regulated chemokine; macrophage inflammatory protein 3 alpha; MIP-3-alpha; MIP-3a; MIP3A; SCYA20; small inducible cytokine subfamily A (Cys-Cys), member 20; small-inducible cytokine A20; ST38
RGD Orthologs
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
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
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
extracellular region  (IEA,TAS)
extracellular space  (IBA,IEA,ISO,TAS)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Ayers CM, etal., Int Forum Allergy Rhinol. 2011 Jul-Aug;1(4):296-302. doi: 10.1002/alr.20046. Epub 2011 Apr 11.
2. Codolo G, etal., Arthritis Rheum. 2013 May;65(5):1232-42. doi: 10.1002/art.37875.
3. Crittenden M, etal., Cancer Res. 2003 Sep 1;63(17):5505-12.
4. Dai SX, etal., Phytother Res. 2012 Apr;26(4):498-504. doi: 10.1002/ptr.3581. Epub 2011 Sep 2.
5. Das M, etal., J Neuroinflammation. 2011 Oct 31;8:148. doi: 10.1186/1742-2094-8-148.
6. De Paiva CS, etal., Rheumatology (Oxford). 2010 Feb;49(2):246-58. doi: 10.1093/rheumatology/kep357. Epub 2009 Dec 9.
7. Dohlman TH, etal., Invest Ophthalmol Vis Sci. 2013 Jun 12;54(6):4081-91. doi: 10.1167/iovs.12-11216.
8. Feng JY, etal., Nan Fang Yi Ke Da Xue Xue Bao. 2007 Apr;27(4):418-20.
9. Fernandez TD, etal., Allergy. 2008 Jun;63(6):712-9. doi: 10.1111/j.1398-9995.2007.01607.x. Epub 2008 Mar 29.
10. 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. Ganta CK, etal., Am J Physiol Regul Integr Comp Physiol. 2006 Sep;291(3):R558-65.
12. GOA_HUMAN data from the GO Consortium
13. Gottlieb AB, etal., J Immunol. 2005 Aug 15;175(4):2721-9.
14. Homey B, etal., J Immunol. 2000 Jun 15;164(12):6621-32.
15. Ichimura M, etal., J Oral Pathol Med. 2006 Mar;35(3):167-74.
16. Kleeff J, etal., Int J Cancer. 1999 May 17;81(4):650-7.
17. Lee JH, etal., Arch Otolaryngol Head Neck Surg. 2006 May;132(5):537-41.
18. 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.
19. Mabuchi T, etal., J Invest Dermatol. 2013 Jan;133(1):164-71. doi: 10.1038/jid.2012.260. Epub 2012 Aug 16.
20. 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.
21. Mullegger RR, etal., Infect Immun. 2007 Sep;75(9):4621-8. Epub 2007 Jul 2.
22. Nakayama T, etal., Int Immunol. 2001 Jan;13(1):95-103.
23. Nakayama Y, etal., J Dermatol Sci. 2011 Sep;63(3):173-83. doi: 10.1016/j.jdermsci.2011.05.006. Epub 2011 Jun 6.
24. Oshio T, etal., Int Immunopharmacol. 2009 Apr;9(4):403-11. doi: 10.1016/j.intimp.2008.12.013. Epub 2009 Jan 20.
25. Park SJ, etal., J Immunol. 2010 Nov 15;185(10):6190-7. doi: 10.4049/jimmunol.1002064. Epub 2010 Oct 6.
26. Pelegrino FS, etal., Arthritis Res Ther. 2012 Nov 1;14(6):R234.
27. Pipeline to import KEGG annotations from KEGG into RGD
28. Qi W, etal., Nephrol Dial Transplant. 2007 Nov;22(11):3147-53. Epub 2007 Jul 29.
29. RGD automated import pipeline for gene-chemical interactions
30. Roberti MP, etal., Cancer Biol Ther. 2012 Sep;13(11):1123-40. doi: 10.4161/cbt.21187. Epub 2012 Jul 24.
31. Roth GA, etal., Scand J Gastroenterol. 2009;44(6):745-51. doi: 10.1080/00365520902770086.
32. Shirane J, etal., Curr Eye Res. 2004 May;28(5):297-306.
33. Tao J, etal., Eur J Dermatol. 2011 Sep-Oct;21(5):731-6. doi: 10.1684/ejd.2011.1469.
34. Terao Y, etal., Neurosci Res. 2009 May;64(1):75-82. doi: 10.1016/j.neures.2009.01.017. Epub 2009 Feb 13.
35. Utans-Schneitz U, etal., J Neuroimmunol 1998 Dec 1;92(1-2):179-90.
36. Vikman P, etal., J Neurosurg. 2007 Nov;107(5):1015-22.
37. Villa L, etal., J Pathol. 2013 Apr;229(5):672-84. doi: 10.1002/path.4151. Epub 2013 Mar 5.
38. 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.
39. Zhou Z, etal., Cell Host Microbe. 2020 Jun 10;27(6):883-890.e2. doi: 10.1016/j.chom.2020.04.017. Epub 2020 May 4.
Additional References at PubMed
PMID:8076819   PMID:9013939   PMID:9038201   PMID:9129037   PMID:9169459   PMID:9223454   PMID:9294137   PMID:10064080   PMID:10438902   PMID:10521347   PMID:10601351   PMID:11035086  
PMID:11083865   PMID:11352563   PMID:11532377   PMID:11807793   PMID:11877260   PMID:11994140   PMID:11994436   PMID:12010510   PMID:12067311   PMID:12081481   PMID:12089333   PMID:12149255  
PMID:12239608   PMID:12356943   PMID:12414801   PMID:12427784   PMID:12477932   PMID:12496186   PMID:12528183   PMID:12684696   PMID:12760962   PMID:12821122   PMID:12949249   PMID:14714554  
PMID:15069060   PMID:15336571   PMID:15474097   PMID:15489334   PMID:15618437   PMID:15671814   PMID:15679580   PMID:15815621   PMID:15972662   PMID:16034074   PMID:16095490   PMID:16215992  
PMID:16531471   PMID:16764701   PMID:16820679   PMID:17075975   PMID:17133360   PMID:17241869   PMID:17295217   PMID:17356539   PMID:17548638   PMID:17562763   PMID:17703191   PMID:17903302  
PMID:18047937   PMID:18086840   PMID:18239685   PMID:18240029   PMID:18512817   PMID:18576931   PMID:18577758   PMID:18684866   PMID:18703490   PMID:18757306   PMID:18980993   PMID:19006683  
PMID:19233848   PMID:19295614   PMID:19303953   PMID:19305396   PMID:19324905   PMID:19340288   PMID:19350575   PMID:19423540   PMID:19479364   PMID:19492413   PMID:19567485   PMID:19644053  
PMID:19784662   PMID:19797510   PMID:19885605   PMID:19913121   PMID:20023216   PMID:20054338   PMID:20064082   PMID:20068036   PMID:20237496   PMID:20400327   PMID:20406964   PMID:20420712  
PMID:20438785   PMID:20439195   PMID:20459729   PMID:20511548   PMID:20595617   PMID:20628086   PMID:20816914   PMID:20819093   PMID:20942936   PMID:20969772   PMID:21178014   PMID:21178448  
PMID:21248725   PMID:21300824   PMID:21724701   PMID:21858117   PMID:21873635   PMID:21881590   PMID:21911466   PMID:21912453   PMID:21935436   PMID:21949768   PMID:21961038   PMID:21988832  
PMID:22001440   PMID:22019504   PMID:22099878   PMID:22199357   PMID:22286692   PMID:22388957   PMID:22533972   PMID:22553918   PMID:22715389   PMID:22796894   PMID:22857950   PMID:22860513  
PMID:22911498   PMID:22926691   PMID:22926920   PMID:23011799   PMID:23118497   PMID:23383108   PMID:23460117   PMID:23568457   PMID:23620790   PMID:23681234   PMID:23717583   PMID:23765988  
PMID:23790181   PMID:23817679   PMID:23823618   PMID:23898208   PMID:24081898   PMID:24162774   PMID:24394994   PMID:24395091   PMID:24401998   PMID:24557363   PMID:24627531   PMID:24629487  
PMID:24657657   PMID:24699535   PMID:24733189   PMID:24743888   PMID:24851271   PMID:24866282   PMID:24984269   PMID:25122636   PMID:25172034   PMID:25202827   PMID:25352172   PMID:25579056  
PMID:25593462   PMID:25661365   PMID:25768730   PMID:25864589   PMID:25882704   PMID:25918170   PMID:26103626   PMID:26116899   PMID:26125463   PMID:26154142   PMID:26156805   PMID:26284335  
PMID:26296735   PMID:26345847   PMID:26400278   PMID:26448160   PMID:26536229   PMID:26634210   PMID:26771764   PMID:26789110   PMID:26883727   PMID:26910332   PMID:26968871   PMID:27015366  
PMID:27018255   PMID:27152707   PMID:27173614   PMID:27301951   PMID:27590109   PMID:27617163   PMID:27797715   PMID:27834463   PMID:27916417   PMID:28188806   PMID:28283475   PMID:28381538  
PMID:28483840   PMID:28526351   PMID:28552941   PMID:28602508   PMID:28618084   PMID:28851919   PMID:29229985   PMID:29362221   PMID:29535421   PMID:29690903   PMID:29880013   PMID:29946002  
PMID:30048972   PMID:30052635   PMID:30114340   PMID:30192865   PMID:30287142   PMID:30399422   PMID:30537747   PMID:30655106   PMID:30760665   PMID:31010609   PMID:31322256   PMID:31352173  
PMID:31395078   PMID:31497857   PMID:31682009   PMID:31852159   PMID:31866467   PMID:31898342   PMID:32060846   PMID:32238601   PMID:32412043   PMID:32480426   PMID:32533638   PMID:32541785  
PMID:32596949   PMID:32601464   PMID:32732864   PMID:33113266   PMID:33165673   PMID:33483346   PMID:33509657   PMID:33574564   PMID:33750014   PMID:33768543   PMID:34225700   PMID:34239010  
PMID:34278466   PMID:34477989   PMID:34519637   PMID:34565470   PMID:34569432   PMID:34584171   PMID:34632963   PMID:34719426   PMID:34725321   PMID:35099275  


Genomics

Comparative Map Data
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
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
(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
CCL20_2649  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh372228,681,731 - 228,682,397UniSTSGRCh37
Build 362228,389,975 - 228,390,641RGDNCBI36
Celera2222,451,174 - 222,451,840RGD
HuRef2220,524,148 - 220,524,814UniSTS

miRNA Target Status

Confirmed Target Of
miRNA GeneMature miRNAMethod NameResult TypeData TypeSupport TypePMID
MIR21hsa-miR-21-5pMirtarbaseexternal_infoELISA//Immunofluorescence//Luciferase reporter assFunctional MTI22001440
MIR21hsa-miR-21-5pOncomiRDBexternal_infoNANA22099878
MIR21hsa-miR-21-5pOncomiRDBexternal_infoNANA22001440

Predicted Target Of
Summary Value
Count of predictions:342
Count of miRNA genes:192
Interacting mature miRNAs:197
Transcripts:ENST00000358813, ENST00000409189, ENST00000473642, ENST00000489160
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
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


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system sensory system visual system adipose tissue appendage entire extraembryonic component pharyngeal arch
High 1 2 2 1 2 2 5
Medium 336 57 191 183 124 176 199 7 40 77 149 323 10 106 84
Low 714 768 490 277 829 165 1390 117 622 235 784 682 120 1 377 772 2 1
Below cutoff 756 1402 793 139 674 101 1601 794 1924 86 327 450 40 534 1085 1

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000358813   ⟹   ENSP00000351671
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl2227,813,842 - 227,817,556 (+)Ensembl
RefSeq Acc Id: ENST00000409189   ⟹   ENSP00000386273
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl2227,813,842 - 227,817,564 (+)Ensembl
RefSeq Acc Id: ENST00000473642
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl2227,815,369 - 227,817,463 (+)Ensembl
RefSeq Acc Id: ENST00000489160
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl2227,813,843 - 227,815,984 (+)Ensembl
RefSeq Acc Id: ENST00000646475   ⟹   ENSP00000496658
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl2227,805,739 - 227,813,987 (+)Ensembl
RefSeq Acc Id: NM_001130046   ⟹   NP_001123518
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh382227,813,842 - 227,817,556 (+)NCBI
GRCh372228,678,558 - 228,682,280 (+)ENTREZGENE
HuRef2220,520,976 - 220,524,697 (+)ENTREZGENE
CHM1_12228,684,755 - 228,688,476 (+)NCBI
Sequence:
RefSeq Acc Id: NM_004591   ⟹   NP_004582
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh382227,813,842 - 227,817,556 (+)NCBI
GRCh372228,678,558 - 228,682,280 (+)ENTREZGENE
Build 362228,386,814 - 228,390,494 (+)NCBI Archive
HuRef2220,520,976 - 220,524,697 (+)ENTREZGENE
CHM1_12228,684,755 - 228,688,476 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_004582   ⟸   NM_004591
- Peptide Label: isoform 1 precursor
- UniProtKB: P78556 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001123518   ⟸   NM_001130046
- Peptide Label: isoform 2 precursor
- UniProtKB: P78556 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSP00000386273   ⟸   ENST00000409189
RefSeq Acc Id: ENSP00000496658   ⟸   ENST00000646475
RefSeq Acc Id: ENSP00000351671   ⟸   ENST00000358813

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P78556-F1-model_v2 AlphaFold P78556 1-96 view protein structure

Promoters
RGD ID:6863008
Promoter ID:EPDNEW_H4669
Type:initiation region
Name:CCL20_2
Description:C-C motif chemokine ligand 20
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_H4670  
Experiment Methods:Single-end sequencing.; Paired-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh382227,805,752 - 227,805,812EPDNEW
RGD ID:6863010
Promoter ID:EPDNEW_H4670
Type:initiation region
Name:CCL20_1
Description:C-C motif chemokine ligand 20
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_H4669  
Experiment Methods:Single-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh382227,813,842 - 227,813,902EPDNEW

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 2q32.3-37.3(chr2:194898783-236473913)x3 copy number gain See cases [RCV000051119] Chr2:194898783..236473913 [GRCh38]
Chr2:195763507..237382556 [GRCh37]
Chr2:195471752..237047295 [NCBI36]
Chr2:2q32.3-37.3
pathogenic
GRCh38/hg38 2q36.3-37.3(chr2:226978129-236886599)x1 copy number loss See cases [RCV000052637] Chr2:226978129..236886599 [GRCh38]
Chr2:227842845..237795242 [GRCh37]
Chr2:227551089..237459981 [NCBI36]
Chr2:2q36.3-37.3
pathogenic
GRCh38/hg38 2q36.3-37.2(chr2:227343278-235339168)x1 copy number loss See cases [RCV000052638] Chr2:227343278..235339168 [GRCh38]
Chr2:228207994..236247812 [GRCh37]
Chr2:227916238..235912551 [NCBI36]
Chr2:2q36.3-37.2
pathogenic
GRCh38/hg38 2q32.2-37.3(chr2:188818195-242065208)x3 copy number gain See cases [RCV000052958] Chr2:188818195..242065208 [GRCh38]
Chr2:189682921..243007359 [GRCh37]
Chr2:189391166..242656032 [NCBI36]
Chr2:2q32.2-37.3
pathogenic
GRCh38/hg38 2q32.2-37.3(chr2:190310736-241892770)x3 copy number gain See cases [RCV000052959] Chr2:190310736..241892770 [GRCh38]
Chr2:191175462..242834921 [GRCh37]
Chr2:190883707..242483594 [NCBI36]
Chr2:2q32.2-37.3
pathogenic
GRCh38/hg38 2q32.3-37.3(chr2:193122313-241074980)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052960]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052960]|See cases [RCV000052960] Chr2:193122313..241074980 [GRCh38]
Chr2:193987039..242014395 [GRCh37]
Chr2:193695284..241663068 [NCBI36]
Chr2:2q32.3-37.3
pathogenic
GRCh38/hg38 2q35-36.3(chr2:219547204-228287942)x4 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052965]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052965]|See cases [RCV000052965] Chr2:219547204..228287942 [GRCh38]
Chr2:220411926..229152658 [GRCh37]
Chr2:220120170..228860902 [NCBI36]
Chr2:2q35-36.3
pathogenic
GRCh38/hg38 2q36.1-37.3(chr2:223992431-242126245)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052972]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052972]|See cases [RCV000052972] Chr2:223992431..242126245 [GRCh38]
Chr2:224857148..243059659 [GRCh37]
Chr2:224565392..242717069 [NCBI36]
Chr2:2q36.1-37.3
pathogenic
GRCh38/hg38 2q36.3-37.3(chr2:227803148-242086301)x3 copy number gain See cases [RCV000052973] Chr2:227803148..242086301 [GRCh38]
Chr2:228667864..243028452 [GRCh37]
Chr2:228376108..242677125 [NCBI36]
Chr2:2q36.3-37.3
pathogenic
GRCh38/hg38 2q34-37.3(chr2:210579676-242126245)x3 copy number gain See cases [RCV000135934] Chr2:210579676..242126245 [GRCh38]
Chr2:211444400..243059659 [GRCh37]
Chr2:211152645..242717069 [NCBI36]
Chr2:2q34-37.3
pathogenic
GRCh38/hg38 2q32.2-37.3(chr2:189436149-241841232)x3 copy number gain See cases [RCV000142307] Chr2:189436149..241841232 [GRCh38]
Chr2:190300875..242783384 [GRCh37]
Chr2:190009120..242432057 [NCBI36]
Chr2:2q32.2-37.3
pathogenic
GRCh38/hg38 2q35-37.3(chr2:218101759-242126245)x3 copy number gain See cases [RCV000143216] Chr2:218101759..242126245 [GRCh38]
Chr2:218966482..243059659 [GRCh37]
Chr2:218674727..242717069 [NCBI36]
Chr2:2q35-37.3
pathogenic
GRCh37/hg19 2q35-37.3(chr2:219966808-237815985)x3 copy number gain See cases [RCV000448049] Chr2:219966808..237815985 [GRCh37]
Chr2:2q35-37.3
pathogenic
GRCh37/hg19 2q36.1-37.1(chr2:223378640-232061074)x1 copy number loss See cases [RCV000448773] Chr2:223378640..232061074 [GRCh37]
Chr2:2q36.1-37.1
likely pathogenic
GRCh37/hg19 2p25.3-q37.3(chr2:12771-242783384) copy number gain See cases [RCV000512056] Chr2:12771..242783384 [GRCh37]
Chr2:2p25.3-q37.3
pathogenic
GRCh37/hg19 2q36.1-37.3(chr2:222077224-239394441)x3 copy number gain See cases [RCV000511816] Chr2:222077224..239394441 [GRCh37]
Chr2:2q36.1-37.3
pathogenic
GRCh37/hg19 2q34-37.3(chr2:213518431-242783384)x3 copy number gain See cases [RCV000512009] Chr2:213518431..242783384 [GRCh37]
Chr2:2q34-37.3
pathogenic
GRCh37/hg19 2p25.3-q37.3(chr2:12771-242783384)x3 copy number gain See cases [RCV000511212] Chr2:12771..242783384 [GRCh37]
Chr2:2p25.3-q37.3
pathogenic
GRCh37/hg19 2q35-37.3(chr2:219225872-242016876)x3 copy number gain not provided [RCV000682170] Chr2:219225872..242016876 [GRCh37]
Chr2:2q35-37.3
pathogenic
GRCh37/hg19 2p25.3-q37.3(chr2:14238-243048760)x3 copy number gain not provided [RCV000752802] Chr2:14238..243048760 [GRCh37]
Chr2:2p25.3-q37.3
pathogenic
GRCh37/hg19 2p25.3-q37.3(chr2:15672-243101834)x3 copy number gain not provided [RCV000752804] Chr2:15672..243101834 [GRCh37]
Chr2:2p25.3-q37.3
pathogenic
GRCh37/hg19 2q36.3(chr2:228637113-228685262)x3 copy number gain not provided [RCV000740931] Chr2:228637113..228685262 [GRCh37]
Chr2:2q36.3
benign
GRCh37/hg19 2q34-37.3(chr2:210779657-239879183)x3 copy number gain See cases [RCV000790568] Chr2:210779657..239879183 [GRCh37]
Chr2:2q34-37.3
pathogenic
NM_004591.3(CCL20):c.222C>T (p.Cys74=) single nucleotide variant not provided [RCV000908605] Chr2:227816337 [GRCh38]
Chr2:228681053 [GRCh37]
Chr2:2q36.3
benign
GRCh37/hg19 2q36.2-36.3(chr2:226027074-229110812)x1 copy number loss not provided [RCV001259188] Chr2:226027074..229110812 [GRCh37]
Chr2:2q36.2-36.3
likely pathogenic
GRCh37/hg19 2q31.2-37.3(chr2:178397959-243007457)x3 copy number gain See cases [RCV001263052] Chr2:178397959..243007457 [GRCh37]
Chr2:2q31.2-37.3
pathogenic
GRCh37/hg19 2q35-37.3(chr2:219606537-239217703) copy number loss not specified [RCV002053285] Chr2:219606537..239217703 [GRCh37]
Chr2:2q35-37.3
pathogenic
GRCh37/hg19 2q36.1-37.1(chr2:223378640-232061074) copy number loss not specified [RCV002053287] Chr2:223378640..232061074 [GRCh37]
Chr2:2q36.1-37.1
pathogenic

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:10619 AgrOrtholog
COSMIC CCL20 COSMIC
Ensembl Genes ENSG00000115009 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSP00000351671 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSP00000386273 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSP00000496658 UniProtKB/TrEMBL
Ensembl Transcript ENST00000358813 ENTREZGENE, UniProtKB/Swiss-Prot
  ENST00000409189 ENTREZGENE, UniProtKB/Swiss-Prot
  ENST00000646475 UniProtKB/TrEMBL
GTEx ENSG00000115009 GTEx
HGNC ID HGNC:10619 ENTREZGENE
Human Proteome Map CCL20 Human Proteome Map
InterPro Chemokine_b/g/d UniProtKB/Swiss-Prot
  Chemokine_CC_CS UniProtKB/Swiss-Prot
  Chemokine_CC_DCCL UniProtKB/Swiss-Prot
  Chemokine_IL8-like_dom UniProtKB/Swiss-Prot
  Interleukin_8-like_sf UniProtKB/Swiss-Prot
KEGG Report hsa:6364 UniProtKB/Swiss-Prot
NCBI Gene 6364 ENTREZGENE
OMIM 601960 OMIM
PANTHER PTHR12015 UniProtKB/Swiss-Prot
Pfam IL8 UniProtKB/Swiss-Prot
PharmGKB PA35551 PharmGKB
PROSITE SMALL_CYTOKINES_CC UniProtKB/Swiss-Prot
SMART SCY UniProtKB/Swiss-Prot
Superfamily-SCOP SSF54117 UniProtKB/Swiss-Prot
UniProt A0A2R8Y806_HUMAN UniProtKB/TrEMBL
  CCL20_HUMAN UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary Q53S51 UniProtKB/Swiss-Prot
  Q99664 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-07 CCL20  C-C motif chemokine ligand 20    chemokine (C-C motif) ligand 20  Symbol and/or name change 5135510 APPROVED