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

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Gene: Ccl20 (C-C motif chemokine ligand 20) Rattus norvegicus
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Symbol: Ccl20
Name: C-C motif chemokine ligand 20
RGD ID: 3646
Description: Enables chemokine activity. Involved in cellular response to molecule of bacterial origin; chemotaxis; and positive regulation of interleukin-1 alpha production. Located in extracellular space. Used to study transient cerebral ischemia. Biomarker of brain ischemia and ulcerative colitis. Orthologous to human CCL20 (C-C motif chemokine ligand 20); PARTICIPATES IN chemokine mediated signaling pathway; cytokine mediated signaling pathway; rheumatoid arthritis pathway; INTERACTS WITH 1,2,4-trimethylbenzene; 1-naphthyl isothiocyanate; 2,2',4,4'-Tetrabromodiphenyl ether.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: beta chemokine exodus-1; beta-chemokine exodus-1; C-C motif chemokine 20; CC chemokine LARC; CC chemokine ST38; chemokine (C-C motif) ligand 20; liver and activation-regulated chemokine; macrophage inflammatory protein 3 alpha; MIP-3-alpha; Scya20; small inducible cytokine subfamily A20; small-inducible cytokine A20; ST38
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8991,837,139 - 91,839,736 (+)NCBIGRCr8
mRatBN7.2984,389,031 - 84,391,629 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl984,388,904 - 84,391,629 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx992,819,272 - 92,821,849 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0997,947,738 - 97,950,315 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0996,330,459 - 96,333,051 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
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 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1982,624,383 - 82,626,960 (+)NCBI
Celera981,830,990 - 81,833,567 (+)NCBICelera
Cytogenetic Map9q35NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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Object Symbol
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Original Reference(s)
Ccl20Ratacrodermatitis  ISOCCL20 (Homo sapiens)7483609mRNA:decreased expression:skinRGD 
Ccl20RatAcute Liver Failure  ISOCCL20 (Homo sapiens)14995923protein:increased expression:serum:RGD 
Ccl20RatAcute-On-Chronic Liver Failure  ISOCCL20 (Homo sapiens)14995923protein:increased expression:serum:RGD 
Ccl20Ratanogenital venereal wart  ISOCCL20 (Homo sapiens)7483603protein:decreased expression:skinRGD 
Ccl20Ratasthma  ISOCCL20 (Homo sapiens)7483597protein:increased expression:respiratory system fluid/secretionRGD 
Ccl20Ratasthma  ISOCCL20 (Homo sapiens)7483618associated with Allergic Rhinitis and protein:increased expression:serumRGD 
Ccl20Ratatopic dermatitis treatmentISOCcl20 (Mus musculus)7483583 RGD 
Ccl20Ratatopic dermatitis severityISOCCL20 (Homo sapiens)7483580protein:increased expression:plasmaRGD 
Ccl20RatBrain Injuries treatmentIEP 7483630 RGD 
Ccl20Ratbrain ischemia  IEP 69987mRNA:increased expression:cerebral cortexRGD 
Ccl20RatColorectal Neoplasms treatmentISOCcl20 (Mus musculus)7483600 RGD 
Ccl20RatCOVID-19  ISOCCL20 (Homo sapiens)9068941mRNA:increased expression:bronchoalveolar lavage (human)RGDPMID:32407669 and REF_RGD_ID:30296672
Ccl20Ratdacryocystitis  ISOCcl20 (Mus musculus)7483616 RGD 
Ccl20RatDiabetic Nephropathies  IEP 7483629associated with Diabetes Mellitus and ExperimentalRGD 
Ccl20Ratdry eye syndrome treatmentISOCcl20 (Mus musculus)7483582 RGD 
Ccl20Ratexanthem  ISOCCL20 (Homo sapiens)7483602mRNA and protein:increased expression:skinRGD 
Ccl20RatExperimental Melanoma treatmentISOCcl20 (Mus musculus)7483600 RGD 
Ccl20Ratfungal infectious disease  ISOCCL20 (Homo sapiens)7483612associated with RhinosinusitisRGD 
Ccl20Ratherpes simplex virus keratitis  ISOCcl20 (Mus musculus)7483593 RGD 
Ccl20RatHypothermia  IEP 2311385 RGD 
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Original Reference(s)
Ccl20Ratallergic disease  ISOCCL20 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:21625544
Ccl20RatArsenic Poisoning  ISOCCL20 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:16835338
Ccl20RatBreast Neoplasms  ISOCCL20 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:16298037
Ccl20RatColonic Neoplasms  ISOCCL20 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:15059925
Ccl20RatExperimental Diabetes Mellitus  ISOCCL20 (Homo sapiens)11554173CTD Direct Evidence: therapeuticCTDPMID:21340626
Ccl20RatExperimental Liver Neoplasms  ISOCCL20 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:30603057
Ccl20Ratmultiple sclerosis  ISOCCL20 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:31068361
Ccl20RatNeoplasm Metastasis  ISOCCL20 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:30603057
Ccl20Ratpancreatic cancer  ISOCCL20 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:30603057
Ccl20Ratpneumonia  ISOCCL20 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:21625544
Ccl20Ratskin disease  ISOCCL20 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:16835338
Ccl20Rattype 1 diabetes mellitus  ISOCCL20 (Homo sapiens)11554173CTD Direct Evidence: therapeuticCTDPMID:21340626
Ccl20Ratulcerative colitis  ISOCCL20 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:16306769
Ccl20Ratureteral obstruction  ISOCCL20 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:28318631
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Original Reference(s)
Ccl20Rat(-)-demecolcine increases expressionISOCCL20 (Homo sapiens)6480464Demecolcine results in increased expression of CCL20 mRNACTDPMID:23649840
Ccl20Rat1,2,4-trimethylbenzene increases expressionEXP 6480464pseudocumene results in increased expression of CCL20 proteinCTDPMID:17337753
Ccl20Rat1,2-dichloroethane decreases expressionISOCcl20 (Mus musculus)6480464ethylene dichloride results in decreased expression of CCL20 mRNACTDPMID:28960355
Ccl20Rat1,2-dimethylhydrazine decreases expressionISOCcl20 (Mus musculus)64804641 and 2-Dimethylhydrazine results in decreased expression of CCL20 mRNACTDPMID:22206623
Ccl20Rat1-chloro-2,4-dinitrobenzene affects expressionISOCcl20 (Mus musculus)6480464Dinitrochlorobenzene affects the expression of CCL20 mRNACTDPMID:28219650
Ccl20Rat1-naphthyl isothiocyanate increases expressionEXP 64804641-Naphthylisothiocyanate results in increased expression of CCL20 mRNACTDPMID:30723492
Ccl20Rat1-nitropyrene increases expressionISOCCL20 (Homo sapiens)64804641-nitropyrene results in increased expression of CCL20 mRNACTDPMID:19428942 more ...
Ccl20Rat17beta-estradiol decreases expressionISOCCL20 (Homo sapiens)6480464Estradiol results in decreased expression of CCL20 mRNACTDPMID:16298037
Ccl20Rat17beta-estradiol multiple interactionsISOCCL20 (Homo sapiens)6480464[Estradiol co-treated with TGFB1 protein] results in decreased expression of CCL20 mRNACTDPMID:30165855
Ccl20Rat17beta-estradiol increases expressionISOCCL20 (Homo sapiens)6480464Estradiol results in increased expression of CCL20 mRNACTDPMID:20106945 and PMID:25878060
Ccl20Rat17beta-estradiol affects expressionISOCCL20 (Homo sapiens)6480464Estradiol affects the expression of CCL20 mRNACTDPMID:25878060
Ccl20Rat2,2',4,4'-Tetrabromodiphenyl ether increases expressionEXP 64804642 more ...CTDPMID:20566336
Ccl20Rat2,3,7,8-tetrachlorodibenzodioxine affects expressionISOCCL20 (Homo sapiens)6480464Tetrachlorodibenzodioxin affects the expression of CCL20 mRNACTDPMID:22298810
Ccl20Rat2,3,7,8-tetrachlorodibenzodioxine increases expressionISOCCL20 (Homo sapiens)6480464Tetrachlorodibenzodioxin results in increased expression of CCL20 mRNACTDPMID:20106945 more ...
Ccl20Rat2,3,7,8-tetrachlorodibenzodioxine increases expressionISOCcl20 (Mus musculus)6480464Tetrachlorodibenzodioxin results in increased expression of CCL20 mRNACTDPMID:19933214 and PMID:26259605
Ccl20Rat2,3,7,8-tetrachlorodibenzodioxine affects expressionISOCcl20 (Mus musculus)6480464Tetrachlorodibenzodioxin affects the expression of CCL20 mRNACTDPMID:26377647
Ccl20Rat2,3,7,8-tetrachlorodibenzodioxine multiple interactionsISOCcl20 (Mus musculus)6480464[Tetrachlorodibenzodioxin co-treated with IL1B protein] results in increased expression of CCL20 mRNA more ...CTDPMID:26259605
Ccl20Rat2,3,7,8-tetrachlorodibenzodioxine multiple interactionsISOCCL20 (Homo sapiens)6480464[Endosulfan co-treated with Tetrachlorodibenzodioxin] results in increased expression of CCL20 mRNACTDPMID:26159488
Ccl20Rat2,4-dibromophenyl 2,4,5-tribromophenyl ether affects expressionISOCcl20 (Mus musculus)64804642 more ...CTDPMID:38648751
Ccl20Rat2-amino-2-deoxy-D-glucopyranose multiple interactionsEXP 6480464Glucosamine inhibits the reaction [IL1B results in increased expression of CCL20 mRNA] and IL1B promotes the reaction [Glucosamine results in increased expression of CCL20 mRNA]CTDPMID:17109745

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Biological Process
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Original Reference(s)
Ccl20Ratantimicrobial humoral immune response mediated by antimicrobial peptide involved_inISOCCL20 (Homo sapiens) and UniProtKB:P78556-PRO_00000052171624291 PMID:12949249 and PMID:19109182RGDPMID:12949249 and PMID:19109182
Ccl20Ratcalcium-mediated signaling involved_inISOCCL20 (Homo sapiens)1624291 PMID:25122636RGDPMID:25122636
Ccl20Ratcalcium-mediated signaling involved_inISSUniProtKB:P785561600115GO_REF:0000024UniProtGO_REF:0000024
Ccl20Ratcell chemotaxis involved_inISOCCL20 (Homo sapiens)1624291 PMID:23765988RGDPMID:23765988
Ccl20Ratcell chemotaxis involved_inIEAGO:00080091600115GO_REF:0000108GOCGO_REF:0000108
Ccl20Ratcell migration involved_inIEAARBA:ARBA000287951600115GO_REF:0000117UniProtGO_REF:0000117
Ccl20Ratcellular response to lipopolysaccharide  IEP 7483631 RGD 
Ccl20Ratcellular response to lipoteichoic acid  IEP 7483631 RGD 
Ccl20Ratchemotaxis  IDA 69987 RGD 
Ccl20Ratchemotaxis involved_inIEAUniProtKB-KW:KW-01451600115GO_REF:0000043UniProtGO_REF:0000043
Ccl20Ratchemotaxis involved_inIEAARBA:ARBA000277071600115GO_REF:0000117UniProtGO_REF:0000117
Ccl20Ratchemotaxis involved_inISOCCL20 (Homo sapiens)1624291 PMID:20068036RGDPMID:20068036
Ccl20Ratchemotaxis involved_inISOCcl20 (Mus musculus)1624291 PMID:20068036RGDPMID:20068036
Ccl20Ratimmune response involved_inIEAInterPro:IPR001811 and InterPro:IPR0360481600115GO_REF:0000002InterProGO_REF:0000002
Ccl20Ratinflammatory response involved_inIEAUniProtKB-KW:KW-03951600115GO_REF:0000043UniProtGO_REF:0000043
Ccl20Ratpositive regulation of interleukin-1 alpha production  IDA 7488896 RGD 
Ccl20Ratpositive regulation of T cell migration acts_upstream_of_or_withinISOCCL20 (Homo sapiens)1624291 PMID:23620790RGDPMID:23620790
Ccl20Ratregulation of T cell cytokine production NOT|involved_inISOCcl20 (Mus musculus)1624291 PMID:19050256RGDPMID:19050256
Ccl20Ratregulation of T-helper 17 cell differentiation NOT|involved_inISOCcl20 (Mus musculus)1624291 PMID:19050256RGDPMID:19050256
Ccl20Ratsignal transduction involved_inIEAARBA:ARBA000290501600115GO_REF:0000117UniProtGO_REF:0000117
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Cellular Component

  
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Original Reference(s)
Ccl20Ratextracellular region located_inIEAUniProtKB-KW:KW-09641600115GO_REF:0000043UniProtGO_REF:0000043
Ccl20Ratextracellular region located_inIEAUniProtKB-SubCell:SL-02431600115GO_REF:0000044UniProtGO_REF:0000044
Ccl20Ratextracellular region located_inIEAInterPro:IPR001811 and InterPro:IPR0360481600115GO_REF:0000002InterProGO_REF:0000002
Ccl20Ratextracellular space  IDA 7488896 RGD 
Ccl20Ratextracellular space located_inIEAUniProtKB-KW:KW-02021600115GO_REF:0000043UniProtGO_REF:0000043

Molecular Function
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Imported Annotations - KEGG (archival)

Object Symbol
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Original Reference(s)
Ccl20Ratchemokine mediated signaling pathway  IEA 6907045 KEGGrno:04062
Ccl20Ratcytokine mediated signaling pathway  IEA 6907045 KEGGrno:04060
Ccl20Ratrheumatoid arthritis pathway  IEA 6907045 KEGGrno:05323

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#
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. CCL20/macrophage inflammatory protein 3alpha and tumor necrosis factor alpha production by primary uterine epithelial cells in response to treatment with lipopolysaccharide or Pam3Cys. Crane-Godreau MA and Wira CR, Infect Immun. 2005 Jan;73(1):476-84.
4. 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.
5. 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.
6. 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.
7. 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.
8. 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.
9. [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.
10. 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.
11. 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.
12. 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.
13. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
14. TNF inhibition rapidly down-regulates multiple proinflammatory pathways in psoriasis plaques. Gottlieb AB, etal., J Immunol. 2005 Aug 15;175(4):2721-9.
15. 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.
16. 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.
17. 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.
18. Up-regulation of chemokine ligand 20 in chronic rhinosinusitis. Lee JH, etal., Arch Otolaryngol Head Neck Surg. 2006 May;132(5):537-41.
19. 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.
20. 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.
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PMID:9862452   PMID:12081481   PMID:12949249   PMID:19050256   PMID:19109182   PMID:20068036   PMID:23620790   PMID:23765988   PMID:24638065   PMID:25122636   PMID:26704184   PMID:30619251  



Ccl20
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8991,837,139 - 91,839,736 (+)NCBIGRCr8
mRatBN7.2984,389,031 - 84,391,629 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl984,388,904 - 84,391,629 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx992,819,272 - 92,821,849 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0997,947,738 - 97,950,315 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0996,330,459 - 96,333,051 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
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 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1982,624,383 - 82,626,960 (+)NCBI
Celera981,830,990 - 81,833,567 (+)NCBICelera
Cytogenetic Map9q35NCBI
CCL20
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382227,813,842 - 227,817,556 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2227,805,739 - 227,817,564 (+)EnsemblGRCh38hg38GRCh38
GRCh372228,678,558 - 228,682,272 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362228,386,814 - 228,390,494 (+)NCBINCBI36Build 36hg18NCBI36
Build 342228,504,074 - 228,507,755NCBI
Celera2222,448,001 - 222,451,723 (+)NCBICelera
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 (+)NCBIT2T-CHM13v2.0
Ccl20
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39183,094,487 - 83,096,888 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl183,094,487 - 83,096,888 (+)EnsemblGRCm39 Ensembl
GRCm38183,116,766 - 83,119,167 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl183,116,766 - 83,119,167 (+)EnsemblGRCm38mm10GRCm38
MGSCv37183,113,341 - 83,115,742 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36182,995,806 - 82,998,190 (+)NCBIMGSCv36mm8
Celera183,181,441 - 83,183,842 (+)NCBICelera
Cytogenetic Map1C5NCBI
cM Map142.69NCBI
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
NHGRI_mPanPan1-v213130,426,843 - 130,430,630 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B130,441,887 - 130,445,600 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02B115,052,768 - 115,056,479 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12B233,862,505 - 233,866,225 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B233,862,505 - 233,866,225 (+)Ensemblpanpan1.1panPan2
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 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02540,753,667 - 40,756,954 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2540,753,401 - 40,756,953 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12540,689,847 - 40,692,573 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02540,531,942 - 40,534,671 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02540,704,782 - 40,707,510 (+)NCBIUU_Cfam_GSD_1.0
Ccl20
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303182,698,770 - 182,701,593 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365258,237,831 - 8,240,974 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
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 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl10113,832,573 - 113,835,736 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604085,618,590 - 85,622,439 (-)NCBIVero_WHO_p1.0Vero_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_1.0HetGla 1.0hetGla2

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Variants in Ccl20
33 total Variants

Predicted Target Of
Summary Value
Count of predictions:40
Count of miRNA genes:39
Interacting mature miRNAs:39
Transcripts:ENSRNOT00000021730
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.


1 to 10 of 25 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
11353957Bmd92Bone mineral density QTL 920.01tibia mineral mass (VT:1000283)volumetric bone mineral density (CMO:0001553)94611419991114199Rat
724547Cm21Cardiac mass QTL 212.7heart mass (VT:0007028)calculated heart weight (CMO:0000073)979271511102910209Rat
61385Edpm9Estrogen-dependent pituitary mass QTL 93.430.05pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)963869687108869687Rat
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)925268044114175309Rat
1578760Cm53Cardiac mass QTL 533.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)956771635101771635Rat
1581580Uae34Urinary albumin excretion QTL 34urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)96207227596470995Rat
12879506Pur33Proteinuria QTL 33urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)94464992189649921Rat
1354626Bvd1Brain ventricular dilatation QTL 13.730.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)975712843111552878Rat
7794784Mcs31Mammary carcinoma susceptibility QTL 312.98mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)977813894111552878Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)925661188100929786Rat

1 to 10 of 25 rows
AB015136  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2984,391,211 - 84,391,296 (+)MAPPERmRatBN7.2
Rnor_6.0988,920,586 - 88,920,670NCBIRnor6.0
Rnor_5.0988,664,962 - 88,665,046UniSTSRnor5.0
RGSC_v3.4982,443,125 - 82,443,209UniSTSRGSC3.4
Celera981,833,150 - 81,833,234UniSTS
Cytogenetic Map9q34UniSTS




alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 1 49 47 52 64 35 18 35 6 160 71 39 44 40 29



Ensembl Acc Id: ENSRNOT00000021730   ⟹   ENSRNOP00000021730
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl984,388,904 - 84,391,629 (+)Ensembl
Rnor_6.0 Ensembl988,918,433 - 88,921,001 (+)Ensembl
RefSeq Acc Id: NM_019233   ⟹   NP_062106
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8991,837,159 - 91,839,736 (+)NCBI
mRatBN7.2984,389,052 - 84,391,629 (+)NCBI
Rnor_6.0988,918,426 - 88,921,003 (+)NCBI
Rnor_5.0988,662,765 - 88,665,379 (+)NCBI
RGSC_v3.4982,440,965 - 82,443,542 (+)RGD
Celera981,830,990 - 81,833,567 (+)RGD
Sequence:
RefSeq Acc Id: XM_006245164   ⟹   XP_006245226
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8991,837,139 - 91,839,736 (+)NCBI
mRatBN7.2984,389,031 - 84,391,629 (+)NCBI
Rnor_6.0988,918,359 - 88,921,017 (+)NCBI
Rnor_5.0988,662,765 - 88,665,379 (+)NCBI
Sequence:
Protein RefSeqs NP_062106 (Get FASTA)   NCBI Sequence Viewer  
  XP_006245226 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAB61459 (Get FASTA)   NCBI Sequence Viewer  
  AAC78294 (Get FASTA)   NCBI Sequence Viewer  
  EDL75527 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000021730
GenBank Protein P97884 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_062106   ⟸   NM_019233
- Peptide Label: precursor
- UniProtKB: P97884 (UniProtKB/Swiss-Prot),   A6JWB9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006245226   ⟸   XM_006245164
- Peptide Label: isoform X1
- UniProtKB: A0A8L2QAZ9 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000021730   ⟸   ENSRNOT00000021730
Name Modeler Protein Id AA Range Protein Structure
AF-P97884-F1-model_v2 AlphaFold P97884 1-96 view protein structure


eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

RGD ID:13696804
Promoter ID:EPDNEW_R7328
Type:single initiation site
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/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0988,918,422 - 88,918,482EPDNEW


1 to 21 of 21 rows
Database
Acc Id
Source(s)
BioCyc Gene G2FUF-26966 BioCyc
Ensembl Genes ENSRNOG00000015992 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000021730 ENTREZGENE
Gene3D-CATH 2.40.50.40 UniProtKB/Swiss-Prot
InterPro Chemokine_b/g/d 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 rno:29538 UniProtKB/Swiss-Prot
NCBI Gene 29538 ENTREZGENE
PANTHER C-C MOTIF CHEMOKINE 20 UniProtKB/Swiss-Prot
  PTHR12015 UniProtKB/Swiss-Prot
Pfam IL8 UniProtKB/Swiss-Prot
PhenoGen Ccl20 PhenoGen
RatGTEx ENSRNOG00000015992 RatGTEx
SMART SCY UniProtKB/Swiss-Prot
Superfamily-SCOP SSF54117 UniProtKB/Swiss-Prot
TIGR TC203208
UniProt A0A8L2QAZ9 ENTREZGENE, UniProtKB/TrEMBL
  A6JWB9 ENTREZGENE, UniProtKB/TrEMBL
  CCL20_RAT UniProtKB/Swiss-Prot, ENTREZGENE
1 to 21 of 21 rows


Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-08 Ccl20  C-C motif chemokine ligand 20  Ccl20  chemokine (C-C motif) ligand 20  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Ccl20  chemokine (C-C motif) ligand 20  Scya20  small inducible cytokine subfamily A20  Symbol and Name updated 1299863 APPROVED
2002-06-10 Scya20  small inducible cytokine subfamily A20      Name updated 70584 APPROVED

Note Type Note Reference
gene_regulation expression is induced by TNF in the brain 69987