Cxcl6 (C-X-C motif chemokine ligand 6) - Rat Genome Database

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Gene: Cxcl6 (C-X-C motif chemokine ligand 6) Rattus norvegicus
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Symbol: Cxcl6
Name: C-X-C motif chemokine ligand 6
RGD ID: 708540
Description: Enables chemokine activity. Involved in several processes, including cellular response to lipopolysaccharide; positive regulation of receptor signaling pathway via JAK-STAT; and response to gamma radiation. Located in extracellular space. Used to study colon carcinoma. Biomarker of prostatitis and severe acute respiratory syndrome. Human ortholog(s) of this gene implicated in idiopathic pulmonary fibrosis. Orthologous to several human genes including CXCL6 (C-X-C motif chemokine ligand 6); INTERACTS WITH 17alpha-ethynylestradiol; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: C-X-C motif chemokine 5; chemokine (C-X-C motif) ligand 5; chemokine (C-X-C motif) ligand 6; chemokine (C-X-C motif) ligand 6 (granulocyte chemotactic protein 2); CXC chemokine LIX; Cxcl5; cytokine LIX; LOC60665; small-inducible cytokine B5
RGD Orthologs
Human
Mouse
Bonobo
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81417,594,959 - 17,596,417 (-)NCBIGRCr8
mRatBN7.21417,310,790 - 17,312,250 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1417,310,426 - 17,313,093 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1417,310,917 - 17,312,359 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01418,629,838 - 18,631,280 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01417,322,143 - 17,323,623 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01418,860,201 - 18,920,839 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1418,860,264 - 18,862,407 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01418,770,999 - 18,771,910 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41418,825,357 - 18,826,269 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11418,825,357 - 18,826,269 (-)NCBI
Celera1416,687,262 - 16,688,187 (-)NCBICelera
Cytogenetic Map14p22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(E)-thiamethoxam  (ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
1-nitropyrene  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (EXP,ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-trinitrobenzenesulfonic acid  (ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2-amino-2-deoxy-D-glucopyranose  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,4-dichloroaniline  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3-methylcholanthrene  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-(ethoxymethylene)-2-phenyloxazol-5-one  (ISO)
4-hydroxyphenyl retinamide  (ISO)
4-nitroquinoline N-oxide  (ISO)
7,12-dimethyltetraphene  (ISO)
8'-apo-beta,psi-caroten-8'-al  (ISO)
acetylsalicylic acid  (EXP)
aldehydo-D-glucosamine  (EXP)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
Aroclor 1254  (ISO)
arsenite(3-)  (ISO)
asperentin  (ISO)
benzalkonium chloride  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
beta-carotene  (ISO)
beta-D-glucosamine  (EXP)
beta-naphthoflavone  (ISO)
bisphenol A  (EXP,ISO)
Botulinum toxin type A  (ISO)
Brevianamide A  (ISO)
C60 fullerene  (EXP)
cadmium dichloride  (EXP,ISO)
capsaicin  (EXP)
carbon nanotube  (EXP,ISO)
ceric oxide  (ISO)
chloroprene  (ISO)
chlorpyrifos  (ISO)
choline  (ISO)
chrysene  (ISO)
cobalt atom  (ISO)
crocidolite asbestos  (ISO)
cyclophosphamide  (ISO)
cyclosporin A  (ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
dibenz[a,h]anthracene  (ISO)
diethyl malate  (ISO)
diethylstilbestrol  (ISO)
dioxygen  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
flavonoids  (EXP)
folic acid  (ISO)
formaldehyde  (ISO)
fulvestrant  (ISO)
furan  (EXP)
Genipin  (ISO)
genistein  (ISO)
graphene oxide  (ISO)
GW 4064  (ISO)
hexachlorobenzene  (EXP)
hydrogen peroxide  (ISO)
Indeno[1,2,3-cd]pyrene  (ISO)
L-ascorbic acid  (ISO)
L-methionine  (ISO)
lipopolysaccharide  (ISO)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (ISO)
mercury atom  (EXP)
mercury(0)  (EXP)
methylmercury chloride  (ISO)
microcystin-LR  (EXP,ISO)
mycophenolic acid  (ISO)
mycotoxin  (ISO)
N-acetyl-L-cysteine  (ISO)
N-Acetyl-S-(1,2-dichlorovinyl)-cysteine  (ISO)
naproxen  (EXP)
neoechinulin A  (ISO)
nickel atom  (ISO)
nickel dichloride  (ISO)
nickel sulfate  (ISO)
oleanolic acid  (EXP)
oxaliplatin  (EXP)
ozone  (ISO)
p-chloromercuribenzoic acid  (ISO)
p-menthan-3-ol  (EXP)
paracetamol  (ISO)
phenylephrine  (EXP)
phenylmercury acetate  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
pioglitazone  (ISO)
pirinixic acid  (ISO)
progesterone  (ISO)
quartz  (EXP)
raloxifene  (ISO)
resveratrol  (ISO)
ritonavir  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
SB 431542  (ISO)
serpentine asbestos  (ISO)
silicon dioxide  (EXP,ISO)
simvastatin  (EXP)
sodium arsenite  (ISO)
sodium fluoride  (ISO)
sterigmatocystin  (ISO)
succimer  (ISO)
sumatriptan  (EXP)
taurocholic acid  (ISO)
tetrachloromethane  (ISO)
tetraphene  (ISO)
thiamethoxam  (ISO)
titanium dioxide  (EXP,ISO)
TMC-120A  (ISO)
toluene 2,4-diisocyanate  (ISO)
topotecan  (EXP)
trichostatin A  (ISO)
valproic acid  (ISO)
XL147  (ISO)
zinc atom  (EXP,ISO)
zinc dichloride  (ISO)
zinc(0)  (EXP,ISO)

References

References - curated
# Reference Title Reference Citation
1. Lipid peroxides, superoxide dismutase and circulating IL-8 and GCP-2 in patients with severe obstructive sleep apnea: a pilot study. Alzoghaibi MA and Bahammam AS, Sleep Breath. 2005 Sep;9(3):119-26.
2. Both TRIF- and MyD88-dependent signaling contribute to host defense against pulmonary Klebsiella infection. Cai S, etal., J Immunol. 2009 Nov 15;183(10):6629-38. Epub 2009 Oct 21.
3. Ischemia-reperfusion of rat myocardium activates nuclear factor-KappaB and induces neutrophil infiltration via lipopolysaccharide-induced CXC chemokine. Chandrasekar B, etal., Circulation. 2001 May 8;103(18):2296-302.
4. Chemokine-cytokine cross-talk. The ELR+ CXC chemokine LIX (CXCL5) amplifies a proinflammatory cytokine response via a phosphatidylinositol 3-kinase-NF-kappa B pathway. Chandrasekar B, etal., J Biol Chem 2003 Feb 14;278(7):4675-86.
5. Titanium dioxide nanoparticles induce emphysema-like lung injury in mice. Chen HW, etal., FASEB J. 2006 Nov;20(13):2393-5. Epub 2006 Oct 5.
6. Lung and liver injury following hepatic ischemia/reperfusion in the rat is increased by exogenous lipopolysaccharide which also increases hepatic TNF production in vivo and in vitro. Colletti LM and Green M, Shock. 2001 Oct;16(4):312-9.
7. The ratio of ELR+ to ELR- CXC chemokines affects the lung and liver injury following hepatic ischemia/ reperfusion in the rat. Colletti LM, etal., Hepatology. 2000 Feb;31(2):435-45.
8. Chemokine expression during hepatic ischemia/reperfusion-induced lung injury in the rat. The role of epithelial neutrophil activating protein. Colletti LM, etal., J Clin Invest. 1995 Jan;95(1):134-41.
9. Proliferative effects of CXC chemokines in rat hepatocytes in vitro and in vivo. Colletti LM, etal., Shock. 1998 Oct;10(4):248-57.
10. Rhinovirus induction of the CXC chemokine epithelial-neutrophil activating peptide-78 in bronchial epithelium. Donninger H, etal., J Infect Dis. 2003 Jun 1;187(11):1809-17.
11. Alpha-chemokines regulate proliferation, neurogenesis, and dopaminergic differentiation of ventral midbrain precursors and neurospheres. Edman LC, etal., Stem Cells. 2008 Jul;26(7):1891-900. Epub 2008 Apr 24.
12. Gastric TFF1 Expression from Acute to Chronic Helicobacter Infection. Esposito R, etal., Front Cell Infect Microbiol. 2017 Oct 9;7:434. doi: 10.3389/fcimb.2017.00434. eCollection 2017.
13. Rat respiratory coronavirus infection: replication in airway and alveolar epithelial cells and the innate immune response. Funk CJ, etal., J Gen Virol. 2009 Dec;90(Pt 12):2956-64. Epub 2009 Sep 9.
14. 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.
15. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
16. Inflammatory cytokines in patients with persistence of the acute respiratory distress syndrome. Goodman RB, etal., Am J Respir Crit Care Med. 1996 Sep;154(3 Pt 1):602-11.
17. The role of an epithelial neutrophil-activating peptide-78-like protein in rat adjuvant-induced arthritis. Halloran MM, etal., J Immunol. 1999 Jun 15;162(12):7492-500.
18. Folic acid treatment reduces chemokine release from peripheral blood mononuclear cells in hyperhomocysteinemic subjects. Holven KB, etal., Arterioscler Thromb Vasc Biol. 2002 Apr 1;22(4):699-703.
19. Different regulation of cigarette smoke induced inflammation in upper versus lower airways. Huvenne W, etal., Respir Res. 2010 Jul 23;11:100.
20. Induction of CXCL5 during inflammation in the rodent lung involves activation of alveolar epithelium. Jeyaseelan S, etal., Am J Respir Cell Mol Biol. 2005 Jun;32(6):531-9. Epub 2005 Mar 18.
21. Transcriptional profiling of lipopolysaccharide-induced acute lung injury. Jeyaseelan S, etal., Infect Immun. 2004 Dec;72(12):7247-56.
22. ENA-78 is an important angiogenic factor in idiopathic pulmonary fibrosis. Keane MP, etal., Am J Respir Crit Care Med. 2001 Dec 15;164(12):2239-42.
23. Genetically determined susceptibility to tuberculosis in mice causally involves accelerated and enhanced recruitment of granulocytes. Keller C, etal., Infect Immun. 2006 Jul;74(7):4295-309.
24. [Association of ENA-78, IP-10 and VEGF gene polymorphism with idiopathic pulmonary fibrosis]. Liu L, etal., Zhonghua Yi Xue Za Zhi. 2009 Oct 20;89(38):2690-4.
25. Mast cells produce ENA-78, which can function as a potent neutrophil chemoattractant during allergic airway inflammation. Lukacs NW, etal., J Leukoc Biol. 1998 Jun;63(6):746-51.
26. Single-dose gamma-irradiation induces up-regulation of chemokine gene expression and recruitment of granulocytes into the portal area but not into other regions of rat hepatic tissue. Malik IA, etal., Am J Pathol. 2010 Apr;176(4):1801-15. Epub 2010 Feb 25.
27. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
28. Comparison of BALF concentrations of ENA-78 and IP10 in patients with idiopathic pulmonary fibrosis and nonspecific interstitial pneumonia. Nakayama S, etal., Respir Med. 2005 Sep;99(9):1145-51. Epub 2005 Mar 25.
29. Activation of nuclear factor kappa B and cytokine imbalance in experimental alcoholic liver disease in the rat. Nanji AA, etal., Hepatology. 1999 Oct;30(4):934-43.
30. Significance of microparticles in progressive systemic sclerosis with interstitial pneumonia. Nomura S, etal., Platelets. 2008 May;19(3):192-8.
31. Biopsy neutrophilia, neutrophil chemokine and receptor gene expression in severe exacerbations of chronic obstructive pulmonary disease. Qiu Y, etal., Am J Respir Crit Care Med. 2003 Oct 15;168(8):968-75. Epub 2003 Jul 11.
32. Bronchial mucosal inflammation and upregulation of CXC chemoattractants and receptors in severe exacerbations of asthma. Qiu Y, etal., Thorax. 2007 Jun;62(6):475-82. Epub 2007 Jan 18.
33. GOA pipeline RGD automated data pipeline
34. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
35. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
36. Comprehensive gene review and curation RGD comprehensive gene curation
37. The murine neutrophil-chemoattractant chemokines LIX, KC, and MIP-2 have distinct induction kinetics, tissue distributions, and tissue-specific sensitivities to glucocorticoid regulation in endotoxemia. Rovai LE, etal., J Leukoc Biol. 1998 Oct;64(4):494-502.
38. Tristetraprolin and LPS-inducible CXC chemokine are rapidly induced in presumptive satellite cells in response to skeletal muscle injury. Sachidanandan C, etal., J Cell Sci 2002 Jul 1;115(Pt 13):2701-12.
39. Hepatic interferon regulatory factor 8 expression mediates liver ischemia/reperfusion injury in mice. Shi G, etal., Biochem Pharmacol. 2021 Oct;192:114728. doi: 10.1016/j.bcp.2021.114728. Epub 2021 Aug 13.
40. Cloning and genomic localization of the murine LPS-induced CXC chemokine (LIX) gene, Scyb5. Smith JB, etal., Immunogenetics 2002 Nov;54(8):599-603. Epub 2002 Oct 1.
41. Disrupted expression of CXCL5 in colorectal cancer is associated with rapid tumor formation in rats and poor prognosis in patients. Speetjens FM, etal., Clin Cancer Res. 2008 Apr 15;14(8):2276-84.
42. Effect of a phytotherapeutic agent, Eviprostat(R), on prostatic and urinary cytokines/chemokines in a rat model of nonbacterial prostatitis. Sugimoto M, etal., Prostate. 2011 Mar 1;71(4):438-44. doi: 10.1002/pros.21299. Epub 2010 Oct 28.
43. Elevated levels of interferon gamma-inducible protein-10 and epithelial neutrophil-activating peptide-78 in patients with pulmonary sarcoidosis. Sugiyama K, etal., Respirology. 2006 Nov;11(6):708-14.
44. Chemokine-dependent neutrophil recruitment in a murine model of Legionella pneumonia: potential role of neutrophils as immunoregulatory cells. Tateda K, etal., Infect Immun. 2001 Apr;69(4):2017-24.
45. Airway inflammation in employees involved in cultivating Japanese mushrooms (bunashimeji). Tsushima K, etal., Respirology. 2008 Jun;13(4):546-52. Epub 2008 Apr 10.
46. Venous thrombosis-associated inflammation and attenuation with neutralizing antibodies to cytokines and adhesion molecules. Wakefield TW, etal., Arterioscler Thromb Vasc Biol. 1995 Feb;15(2):258-68.
47. Elevated levels of macrophage inflammatory protein 2 in severe murine peritonitis increase neutrophil recruitment and mortality. Walley KR, etal., Infect Immun. 1997 Sep;65(9):3847-51.
48. A pathway-based approach to find novel markers of local glucocorticoid treatment in intermittent allergic rhinitis. Wang H, etal., Allergy. 2011 Jan;66(1):132-40. doi: 10.1111/j.1398-9995.2010.02444.x.
49. Modulation of ozone-induced airway hyperresponsiveness and inflammation by interleukin-13. Williams AS, etal., Eur Respir J. 2008 Sep;32(3):571-8. Epub 2008 Apr 16.
50. Expression profiling of inflammatory mediators in pediatric sinus mucosa. Wu X, etal., Arch Otolaryngol Head Neck Surg. 2009 Jan;135(1):65-72.
51. Adipose tissue-derived stem cells secrete CXCL5 cytokine with neurotrophic effects on cavernous nerve regeneration. Zhang H, etal., J Sex Med. 2011 Feb;8(2):437-46. doi: 10.1111/j.1743-6109.2010.02128.x. Epub 2010 Nov 29.
Additional References at PubMed
PMID:8399143   PMID:20643340   PMID:21734176   PMID:22034072   PMID:27717828   PMID:29126185   PMID:33741291   PMID:33752504   PMID:33810797  


Genomics

Comparative Map Data
Cxcl6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81417,594,959 - 17,596,417 (-)NCBIGRCr8
mRatBN7.21417,310,790 - 17,312,250 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1417,310,426 - 17,313,093 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1417,310,917 - 17,312,359 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01418,629,838 - 18,631,280 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01417,322,143 - 17,323,623 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01418,860,201 - 18,920,839 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1418,860,264 - 18,862,407 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01418,770,999 - 18,771,910 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41418,825,357 - 18,826,269 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11418,825,357 - 18,826,269 (-)NCBI
Celera1416,687,262 - 16,688,187 (-)NCBICelera
Cytogenetic Map14p22NCBI
CXCL6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38473,836,678 - 73,838,760 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl473,836,640 - 73,849,064 (+)EnsemblGRCh38hg38GRCh38
GRCh37474,702,395 - 74,704,477 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36474,921,277 - 74,923,341 (+)NCBINCBI36Build 36hg18NCBI36
Build 34475,067,447 - 75,069,511NCBI
Celera472,062,419 - 72,064,623 (+)NCBICelera
Cytogenetic Map4q13.3NCBI
HuRef470,513,410 - 70,515,614 (+)NCBIHuRef
CHM1_1474,738,258 - 74,740,462 (+)NCBICHM1_1
T2T-CHM13v2.0477,180,324 - 77,182,406 (+)NCBIT2T-CHM13v2.0
Cxcl5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39590,907,157 - 90,909,484 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl590,907,219 - 90,909,483 (+)EnsemblGRCm39 Ensembl
GRCm38590,759,298 - 90,761,625 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl590,759,360 - 90,761,624 (+)EnsemblGRCm38mm10GRCm38
MGSCv37591,188,325 - 91,190,651 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36591,834,578 - 91,836,824 (+)NCBIMGSCv36mm8
Celera588,910,984 - 88,913,251 (+)NCBICelera
Cytogenetic Map5E1NCBI
cM Map544.78NCBI
CXCL6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2356,225,837 - 56,227,789 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1456,414,925 - 56,416,877 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0450,357,643 - 50,359,822 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1456,190,130 - 56,192,402 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl456,189,961 - 56,192,402 (-)Ensemblpanpan1.1panPan2
AMCF-II
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl870,008,162 - 70,010,358 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1870,008,225 - 70,010,360 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2874,160,033 - 74,162,170 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CXCL6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1722,291,949 - 22,294,191 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl722,292,045 - 22,294,207 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666084497,366 - 499,651 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Cxcl6
19 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:47
Count of miRNA genes:42
Interacting mature miRNAs:45
Transcripts:ENSRNOT00000003823
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2300159Bmd61Bone mineral density QTL 615.30.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14126541967Rat
2300183Bmd60Bone mineral density QTL 605.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14126541967Rat
619619Rf4Renal disease susceptibility QTL 44.10.002urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)14132754612Rat
634352Apr6Acute phase response QTL 63.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)14141131407Rat
2293089Iddm31Insulin dependent diabetes mellitus QTL 314.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)14381307418274691Rat
2293089Iddm31Insulin dependent diabetes mellitus QTL 314.7blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)14381307418274691Rat
1300114Srn2Serum renin concentration QTL 23.27blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)14381307421217635Rat
70195Mcs8Mammary carcinoma susceptibility QTL 84.28mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)14381307424531477Rat
1331740Bw26Body weight QTL 263.028body mass (VT:0001259)body weight (CMO:0000012)14381307430767156Rat
1581500Renag1Renal agenesis QTL 1kidney development trait (VT:0000527)percentage of study population developing unilateral renal agenesis during a period of time (CMO:0000940)14817066868298175Rat
1358296Ael3Aortic elastin QTL 33.70.00051aorta elastin amount (VT:0003905)aortic elastin14826709053267090Rat
2302045Pia39Pristane induced arthritis QTL 394.90.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G2a level (CMO:0002116)14826709053267090Rat
731183Pia20Pristane induced arthritis QTL 203.55joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)14908897839057237Rat
2302277Gluco38Glucose level QTL 385.8blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141103062228035204Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141103062295876975Rat
631212Bw5Body weight QTL55.43retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)141103081230320092Rat
1300140Srn3Serum renin concentration QTL 33.19blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)141487516830883947Rat

Markers in Region
U27267  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21417,310,695 - 17,310,820 (+)MAPPERmRatBN7.2
Rnor_6.01418,860,803 - 18,860,927NCBIRnor6.0
Rnor_5.01418,770,445 - 18,770,569UniSTSRnor5.0
RGSC_v3.41418,824,804 - 18,824,928UniSTSRGSC3.4
Celera1416,686,708 - 16,686,832UniSTS
Cytogenetic Map14p22UniSTS
U27267  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21417,311,119 - 17,311,242 (+)MAPPERmRatBN7.2
Rnor_6.01418,861,227 - 18,861,349NCBIRnor6.0
Rnor_5.01418,770,869 - 18,770,991UniSTSRnor5.0
RGSC_v3.41418,825,228 - 18,825,350UniSTSRGSC3.4
Celera1416,687,132 - 16,687,254UniSTS
Cytogenetic Map14p22UniSTS


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 appendage
High
Medium 1 2
Low 3 5 40 24 18 24 1 1 38 9 21 11 1
Below cutoff 30 17 17 17 7 10 32 14 15 7

Sequence


RefSeq Acc Id: ENSRNOT00000003823   ⟹   ENSRNOP00000003823
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1417,310,426 - 17,313,093 (-)Ensembl
Rnor_6.0 Ensembl1418,860,264 - 18,862,407 (-)Ensembl
RefSeq Acc Id: NM_022214   ⟹   NP_071550
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81417,594,959 - 17,596,417 (-)NCBI
mRatBN7.21417,310,790 - 17,312,250 (-)NCBI
Rnor_6.01418,861,357 - 18,862,268 (-)NCBI
Rnor_5.01418,770,999 - 18,771,910 (-)NCBI
RGSC_v3.41418,825,357 - 18,826,269 (-)RGD
Celera1416,687,262 - 16,688,187 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_071550 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAB61460 (Get FASTA)   NCBI Sequence Viewer  
  EDL88563 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000003823
  ENSRNOP00000003823.1
GenBank Protein P97885 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_071550   ⟸   NM_022214
- Peptide Label: precursor
- UniProtKB: P97885 (UniProtKB/Swiss-Prot),   G3V6C8 (UniProtKB/TrEMBL),   A6KKE7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000003823   ⟸   ENSRNOT00000003823
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P97885-F1-model_v2 AlphaFold P97885 1-130 view protein structure

Transcriptome

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

Promoters
RGD ID:13699230
Promoter ID:EPDNEW_R9754
Type:single initiation site
Name:Cxcl6_1
Description:C-X-C motif chemokine ligand 6
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_6.01418,862,352 - 18,862,412EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:708540 AgrOrtholog
BioCyc Gene G2FUF-16201 BioCyc
Ensembl Genes ENSRNOG00000002843 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000003823 ENTREZGENE
  ENSRNOT00000003823.4 UniProtKB/TrEMBL
Gene3D-CATH 2.40.50.40 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Chemokine_b/g/d UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Chemokine_CXC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Chemokine_CXC_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Chemokine_IL8-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CXC_Chemokine_domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Interleukin_8-like_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:60665 UniProtKB/Swiss-Prot
NCBI Gene 60665 ENTREZGENE
PANTHER C-X-C MOTIF CHEMOKINE 6 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SMALL INDUCIBLE CYTOKINE A UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam IL8 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cxcl6 PhenoGen
PRINTS INTERLEUKIN8 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SMALLCYTKCXC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE SMALL_CYTOKINES_CXC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000002843 RatGTEx
SMART SCY UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF54117 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A6KKE7 ENTREZGENE, UniProtKB/TrEMBL
  CXCL5_RAT UniProtKB/Swiss-Prot
  G3V6C8 ENTREZGENE, UniProtKB/TrEMBL
  P97885 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-08 Cxcl6  C-X-C motif chemokine ligand 6  Cxcl6  chemokine (C-X-C motif) ligand 6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2014-04-29 Cxcl6  chemokine (C-X-C motif) ligand 6  Cxcl5  chemokine (C-X-C motif) ligand 5  Name and Symbol changed 629549 APPROVED
2011-07-14 Cxcl5  chemokine (C-X-C motif) ligand 5  Cxcl6  chemokine (C-X-C motif) ligand 6 (granulocyte chemotactic protein 2)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-26 Cxcl6  chemokine (C-X-C motif) ligand 6 (granulocyte chemotactic protein 2)  Cxcl5  chemokine (C-X-C motif) ligand 5  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-07-08 Cxcl5  chemokine (C-X-C motif) ligand 5  LOC60665  CXC chemokine LIX  Symbol and Name updated 1299863 APPROVED