Cxcl2 (C-X-C motif chemokine ligand 2) - Rat Genome Database

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Gene: Cxcl2 (C-X-C motif chemokine ligand 2) Rattus norvegicus
Analyze
Symbol: Cxcl2
Name: C-X-C motif chemokine ligand 2
RGD ID: 70069
Description: Enables chemokine activity. Involved in several processes, including cellular response to interleukin-1; cellular response to lipopolysaccharide; and neutrophil chemotaxis. Located in extracellular space. Biomarker of several diseases, including bile duct disease (multiple); brain edema; periodontitis; pleurisy; and pneumonia (multiple). Orthologous to human CXCL2 (C-X-C motif chemokine ligand 2); PARTICIPATES IN chemokine mediated signaling pathway; cytokine mediated signaling pathway; NOD-like receptor signaling pathway; INTERACTS WITH (+)-alpha-tocopherol; 1,2,4-trimethylbenzene; 1-naphthyl isothiocyanate.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: C-X-C motif chemokine 2; chemokine (C-X-C motif) ligand 2; CINC-3; cytokine-induced neutrophil chemoattractant 3; macrophage inflammatory protein 2; Mip-2; MIP2; Scyb2; small inducible cytokine subfamily member 2; small inducible cytokine subfamily, member 2
RGD Orthologs
Human
Mouse
Bonobo
Pig
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21417,181,030 - 17,183,075 (-)NCBImRatBN7.2
Rnor_6.0 Ensembl1418,731,378 - 18,733,391 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01418,731,346 - 18,733,391 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01418,640,312 - 18,642,357 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41418,677,129 - 18,679,175 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11418,677,128 - 18,679,175 (-)NCBI
Celera1416,558,112 - 16,560,157 (-)NCBICelera
Cytogenetic Map14p22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-alpha-tocopherol  (EXP)
(-)-epigallocatechin 3-gallate  (ISO)
(2R,4R)-1-[(2S)-5-(diaminomethylideneamino)-2-[(3-methyl-1,2,3,4-tetrahydroquinolin-8-yl)sulfonylamino]-1-oxopentyl]-4-methyl-2-piperidinecarboxylic acid  (ISO)
(4Z,7Z,10Z,13Z,15E,19Z)-17-hydroxydocosahexaenoic acid  (ISO)
(E)-cinnamyl alcohol  (ISO)
(S)-nicotine  (ISO)
1,2,4-trimethylbenzene  (EXP)
1,3-benzothiazole-2-thiol  (ISO)
1,4-phenylenediamine  (ISO)
1,7-dimethylxanthine  (ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
1-naphthyl isothiocyanate  (EXP,ISO)
1-nitropyrene  (ISO)
13,14-dihydro-15-ketoprostaglandin D2  (ISO)
15-acetyldeoxynivalenol  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (EXP)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-trinitrobenzenesulfonic acid  (ISO)
2-acetamidofluorene  (EXP)
2-amino-2-deoxy-D-galactopyranose  (ISO)
2-amino-2-deoxy-D-glucopyranose  (EXP)
2-butoxyethanol  (ISO)
2-hydroxypropanoic acid  (ISO)
2-naphthylamine  (ISO)
22-Hydroxycholesterol  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (ISO)
3,7-dihydropurine-6-thione  (EXP)
3-acetyldeoxynivalenol  (ISO)
3-aminobenzamide  (ISO)
3-chloropropane-1,2-diol  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3-methyladenine  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-(ethoxymethylene)-2-phenyloxazol-5-one  (ISO)
4-hydroxyphenyl retinamide  (ISO)
4-nitroquinoline N-oxide  (ISO)
5-fluorouracil  (ISO)
6alpha-methylprednisolone  (ISO)
acrolein  (ISO)
Actein  (EXP)
aflatoxin B1  (ISO)
Aflatoxin G1  (ISO)
aldehydo-D-glucosamine  (EXP)
aldehydo-D-glucose  (ISO)
alpha-hexylcinnamaldehyde  (ISO)
amiloride  (ISO)
amiodarone  (ISO)
amlexanox  (ISO)
ammonium chloride  (EXP)
Ammothamnine  (EXP)
amphibole asbestos  (EXP,ISO)
ampicillin  (ISO)
andrographolide  (EXP)
anthocyanin  (ISO)
anthra[1,9-cd]pyrazol-6(2H)-one  (ISO)
antirheumatic drug  (ISO)
argatroban  (ISO)
aripiprazole  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
asbestos  (ISO)
asperentin  (ISO)
ATP  (ISO)
azathioprine  (ISO)
azetidine  (ISO)
benzalkonium chloride  (ISO)
benzene-1,2,4-triol  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzoates  (ISO)
beta-D-glucosamine  (EXP)
beta-eudesmol  (ISO)
beta-naphthoflavone  (ISO)
bilirubin IXalpha  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bleomycin A2  (ISO)
boron nitride  (ISO)
bortezomib  (EXP,ISO)
budesonide  (EXP)
butanal  (ISO)
C60 fullerene  (EXP)
cadmium atom  (EXP,ISO)
cadmium dichloride  (EXP,ISO)
cadmium sulfate  (ISO)
calcitriol  (ISO)
calcium atom  (ISO)
calcium(0)  (ISO)
capsaicin  (EXP)
carbamazepine  (ISO)
carbon nanotube  (EXP,ISO)
carmustine  (ISO)
carrageenan  (EXP,ISO)
chenodeoxycholic acid  (ISO)
chloroethene  (ISO)
cholesterol  (ISO)
choline  (ISO)
chondroitin sulfate  (ISO)
cinnamyl alcohol  (ISO)
ciprofloxacin  (ISO)
cis-caffeic acid  (ISO)
cisplatin  (ISO)
citral  (ISO)
cobalt atom  (EXP,ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (EXP,ISO)
corosolic acid  (ISO)
crocidolite asbestos  (EXP,ISO)
crotonaldehyde  (ISO)
curcumin  (EXP,ISO)
cyclosporin A  (ISO)
D-glucose  (ISO)
dantrolene  (ISO)
decabromodiphenyl ether  (EXP)
Decursin  (ISO)
deoxycholic acid  (ISO)
deoxynivalenol  (ISO)
desferrioxamine B  (EXP)
dexamethasone  (EXP,ISO)
dextran sulfate  (ISO)
Diallyl sulfide  (EXP)
diarsenic trioxide  (ISO)
diclofenac  (EXP,ISO)
dicloxacillin  (ISO)
diflorasone  (ISO)
dimercaprol  (ISO)
dioxygen  (EXP,ISO)
disodium selenite  (ISO)
diuron  (EXP)
divanadium pentaoxide  (ISO)
dobutamine  (ISO)
domperidone  (ISO)
dopexamine  (ISO)
doxorubicin  (ISO)
edaravone  (EXP)
elemental selenium  (ISO)
emodin  (EXP)
endosulfan  (EXP)
enflurane  (EXP)
ethanol  (EXP,ISO)
ethylene glycol dimethacrylate  (ISO)
excitatory amino acid agonist  (ISO)
ferroheme b  (ISO)
flavonoids  (EXP)
flucloxacillin  (ISO)
flutamide  (ISO)
fomepizole  (EXP)
fulvestrant  (EXP,ISO)
fumonisin B1  (ISO)
furan  (EXP)
Fusarenone X  (ISO)
gadolinium trichloride  (EXP,ISO)
gemcitabine  (ISO)
gentamycin  (EXP)
geranial  (ISO)
glucose  (ISO)
gold atom  (ISO)
gold(0)  (ISO)
graphene oxide  (ISO)
graphite  (EXP)
halothane  (EXP,ISO)
heme b  (ISO)
heparin  (EXP)
hexadecanoic acid  (ISO)
hydrogen chloride  (EXP)
hydrogen peroxide  (EXP,ISO)
ibuprofen  (EXP,ISO)
imidurea  (ISO)
indometacin  (EXP,ISO)
iron atom  (EXP)
iron trichloride  (EXP)
iron(0)  (EXP)
iron(2+) sulfate (anhydrous)  (EXP)
isoeugenol  (ISO)
isoflurane  (EXP)
L-methionine  (ISO)
lipopolysaccharide  (EXP,ISO)
lipoteichoic acid  (EXP)
lipoxin A4  (ISO)
lithocholic acid  (ISO)
LY294002  (ISO)
manganese atom  (EXP,ISO)
manganese(0)  (EXP,ISO)
manganese(II) chloride  (EXP,ISO)
manganese(II) sulfate  (EXP)
maslinic acid  (ISO)
mercaptopurine  (EXP)
mercury dichloride  (EXP)
metacetamol  (ISO)
metformin  (ISO)
methamphetamine  (ISO)
methimazole  (EXP,ISO)
methotrexate  (EXP,ISO)
methyl methacrylate  (ISO)
methyl salicylate  (ISO)
methylmercury chloride  (EXP,ISO)
metoclopramide  (ISO)
mifepristone  (ISO)
mycophenolic acid  (ISO)
mycotoxin  (ISO)
N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine  (ISO)
N-acetyl-L-cysteine  (ISO)
N1'-[2-[[5-[(dimethylamino)methyl]-2-furanyl]methylthio]ethyl]-N1-methyl-2-nitroethene-1,1-diamine  (EXP)
naphthalene  (ISO)
naphthalenes  (EXP)
naproxen  (EXP)
naringin  (ISO)
neocuproine  (ISO)
neoechinulin A  (ISO)
nickel atom  (EXP,ISO)
nickel dichloride  (ISO)
nickel sulfate  (EXP,ISO)
nicotine  (ISO)
nitrofen  (EXP)
nitrogen dioxide  (EXP,ISO)
Nivalenol  (ISO)
nonivamide  (ISO)
o-anisidine  (ISO)
obeticholic acid  (ISO)
olaparib  (ISO)
oleanolic acid  (ISO)
oleic acid  (ISO)
oligopeptide  (ISO)
oxaliplatin  (EXP)
ozone  (EXP,ISO)
p-menthan-3-ol  (EXP)
paracetamol  (ISO)
paraquat  (EXP,ISO)
parthenolide  (ISO)
pentanal  (ISO)
Pentoxifylline  (EXP)
peptidoglycan  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
phalloidin  (ISO)
phenanthridone  (ISO)
phenobarbital  (EXP)
phenytoin  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
pioglitazone  (ISO)
pirinixic acid  (ISO)
piroxicam  (ISO)
poly(I:C)  (EXP)
polymyxin B2  (ISO)
pravastatin  (EXP,ISO)
prednisolone  (ISO)
procymidone  (EXP)
progesterone  (ISO)
propan-2-ol  (ISO)
propanal  (ISO)
prostaglandin D2  (ISO)
prostaglandin E1  (ISO)
purine-6-thiol  (EXP)
pyrrolidine dithiocarbamate  (EXP,ISO)
quartz  (EXP)
quercetin  (EXP,ISO)
quercetin 3-O-beta-D-glucofuranoside  (EXP)
quercetin 3-O-beta-D-glucopyranoside  (EXP)
quinomethionate  (ISO)
rac-lactic acid  (ISO)
ranitidine  (EXP)
reactive oxygen species  (EXP,ISO)
resolvin D1  (ISO)
resolvin D2  (ISO)
resorcinol  (ISO)
resveratrol  (EXP,ISO)
ritonavir  (ISO)
Roridin A  (ISO)
rotenone  (EXP)
ryanodine  (ISO)
S-butyl-DL-homocysteine (S,R)-sulfoximine  (EXP,ISO)
salicylic acid  (ISO)
SB 203580  (EXP,ISO)
SB 431542  (ISO)
selenium atom  (ISO)
serpentine asbestos  (ISO)
sevoflurane  (EXP)
silicon dioxide  (EXP,ISO)
silver atom  (EXP)
silver(0)  (EXP)
simvastatin  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium aurothiomalate  (ISO)
sodium dodecyl sulfate  (ISO)
sterigmatocystin  (ISO)
succimer  (ISO)
sumatriptan  (EXP)
tauro-beta-muricholic acid  (ISO)
taurocholic acid  (ISO)
temozolomide  (ISO)
tert-butyl hydroperoxide  (ISO)
Tesaglitazar  (EXP)
testosterone  (EXP)
tetrachloromethane  (EXP,ISO)
tetradecane  (EXP)
thapsigargin  (ISO)
thioacetamide  (ISO)
Tiron  (ISO)
titanium dioxide  (EXP,ISO)
toluene 2,4-diisocyanate  (ISO)
topotecan  (EXP)
trans-caffeic acid  (ISO)
trans-isoeugenol  (ISO)
trichostatin A  (ISO)
triclosan  (ISO)
trimellitic anhydride  (ISO)
Triptolide  (ISO)
troglitazone  (EXP,ISO)
tropisetron  (EXP)
trovafloxacin  (ISO)
tungsten  (EXP)
tunicamycin  (ISO)
UDP  (ISO)
undecane  (EXP)
ursodeoxycholic acid  (ISO)
ursolic acid  (ISO)
valproic acid  (ISO)
vanadium atom  (EXP)
vanadium(0)  (EXP)
vanadyl sulfate  (ISO)
vinclozolin  (EXP)
vitamin D  (ISO)
vitamin E  (EXP)
wortmannin  (EXP,ISO)
XL147  (ISO)
zaragozic acid A  (EXP,ISO)
zinc atom  (EXP,ISO)
zinc protoporphyrin  (EXP)
zinc sulfate  (EXP,ISO)
zinc(0)  (EXP,ISO)
zoledronic acid  (ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Amano H, etal., Cytokine. 2000 Nov;12(11):1662-8.
2. Asarias JR, etal., J Invest Surg. 2011;24(2):87-98.
3. Bauer CM, etal., PLoS One. 2010 Oct 12;5(10):e13251.
4. Blanco-Melo D, etal., Cell. 2020 May 28;181(5):1036-1045.e9. doi: 10.1016/j.cell.2020.04.026. Epub 2020 May 15.
5. Chandrasekar B, etal., Circulation. 2001 May 8;103(18):2296-302.
6. Chiang CH, etal., Intensive Care Med. 2011 May 27.
7. Colletti LM and Green M, Shock. 2001 Oct;16(4):312-9.
8. Colletti LM, etal., Hepatology. 2000 Feb;31(2):435-45.
9. De Paola M, etal., Neuroimmunomodulation. 2007;14(6):310-6. Epub 2008 Apr 3.
10. Ding Y, etal., Zhonghua Gan Zang Bing Za Zhi. 2008 Mar;16(3):215-9.
11. Driscoll KE, etal., J Leukoc Biol 1995 Sep;58(3):359-64.
12. Fine JS, etal., Inflammation. 2003 Aug;27(4):161-74.
13. Fujita T, etal., Biochem Pharmacol. 2010 May 15;79(10):1496-505. Epub 2010 Jan 22.
14. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
15. Gauglitz GG, etal., Shock. 2008 Nov;30(5):503-7.
16. GOA data from the GO Consortium
17. Hahn PY and Limper AH, J Eukaryot Microbiol 2001;Suppl:157S.
18. Hayashi T, etal., Virology. 2011 Mar 30;412(1):9-18. Epub 2011 Jan 19.
19. Hsu JT, etal., Am J Physiol Regul Integr Comp Physiol. 2008 Jun;294(6):R1825-31. Epub 2008 Apr 23.
20. Hsu KY, etal., J Surg Res. 2011 May 15;167(2):e255-62. Epub 2010 Apr 24.
21. James ML, etal., Pediatr Res. 2010 Jun;67(6):591-7.
22. Jeyaseelan S, etal., Infect Immun. 2004 Dec;72(12):7247-56.
23. Kilpatrick LE, etal., J Leukoc Biol. 2011 Jan;89(1):3-10. Epub 2010 Aug 19.
24. Knudsen E, etal., Eur J Haematol 2002 Nov-Dec;69(5-6):284-96.
25. KuoLee R, etal., Microbes Infect. 2011 May;13(5):447-56. Epub 2011 Jan 26.
26. Lee BH, etal., J Korean Med Sci. 2009 Oct;24(5):775-81. Epub 2009 Sep 23.
27. Lee CW, etal., World J Surg. 2006 Dec;30(12):2217-26. doi: 10.1007/s00268-006-0143-0.
28. Li ZP, etal., Eur J Pharmacol. 2011 Jul 1;661(1-3):118-23. Epub 2011 Apr 27.
29. Liu Y and Quinn MR, Immunol Lett 2002 Jan 1;80(1):27-32.
30. Lyadova IV, etal., PLoS One. 2010 May 4;5(5):e10469.
31. Mafra de Lima F, etal., J Photochem Photobiol B. 2010 Dec 2;101(3):271-8. Epub 2010 Jul 27.
32. Malik IA, etal., Am J Pathol. 2010 Apr;176(4):1801-15. Epub 2010 Feb 25.
33. Manzer R, etal., Am J Respir Cell Mol Biol. 2006 Feb;34(2):158-66. Epub 2005 Oct 20.
34. Marcos V, etal., Nat Med. 2010 Sep;16(9):1018-23. Epub 2010 Sep 5.
35. MGD Curation, June 12, 2002
36. Miura TA, etal., Virology. 2007 Dec 20;369(2):288-98. Epub 2007 Sep 5.
37. Moser C, etal., APMIS. 2009 Feb;117(2):95-107.
38. Nanji AA, etal., Hepatology. 1999 Oct;30(4):934-43.
39. NCBI rat LocusLink and RefSeq merged data July 26, 2002
40. Neumann B, etal., Int Immunol. 1999 Feb;11(2):217-27.
41. Pipeline to import KEGG annotations from KEGG into RGD
42. Pucheu-Haston CM, etal., Toxicol Appl Pharmacol. 2010 Apr 15;244(2):144-55. Epub 2010 Jan 4.
43. Raghavendran K, etal., J Surg Res. 2009 Aug;155(2):273-82. Epub 2008 Sep 16.
44. Renois F, etal., Microbes Infect. 2011 Jun 30.
45. RGD automated data pipeline
46. RGD automated import pipeline for gene-chemical interactions
47. Rhodes JK, etal., J Neurotrauma. 2009 Apr;26(4):507-25.
48. Rosenthal LA, etal., Virol J. 2009 Aug 11;6:122.
49. Rouse RL, etal., Am J Respir Cell Mol Biol. 2008 Aug;39(2):198-207. Epub 2008 Mar 26.
50. Rovai LE, etal., J Leukoc Biol. 1998 Oct;64(4):494-502.
51. Sharma AK, etal., Respir Res. 2009 Jun 26;10:58.
52. Shibata F, etal., Cytokine. 2000 Sep;12(9):1368-73.
53. Su X, etal., Inflamm Res. 2011 Jul;60(7):619-32. Epub 2011 Feb 8.
54. Tateda K, etal., Infect Immun. 2001 Apr;69(4):2017-24.
55. Thomas M, etal., Synapse. 2009 Oct;63(10):881-94.
56. Uchida Y, etal., Transplantation. 2010 May 15;89(9):1050-6.
57. van den Berg E, etal., Am J Physiol Lung Cell Mol Physiol. 2011 Jul 8.
58. Walley KR, etal., Infect Immun. 1997 Sep;65(9):3847-51.
59. Walpen S, etal., FASEB J 2001 Mar;15(3):571-3.
60. Wu CL, etal., Shock. 2009 Sep;32(3):276-85.
61. Wu H, etal., Int J Clin Exp Pathol. 2009;2(1):83-90. Epub 2008 Jun 2.
62. Xu CF, etal., Zhonghua Yi Xue Za Zhi. 2008 Mar 11;88(10):711-5.
63. Yang SJ, etal., Injury. 2011 Jul;42(7):638-42. Epub 2010 Aug 14.
64. Zavitz CC, etal., J Immunol. 2010 Feb 15;184(4):2001-13. Epub 2010 Jan 11.
65. Zhang P, etal., Shock 2002 Feb;17(2):104-8.
66. Zhao X, etal., J Surg Res. 2010 Aug;162(2):264-73. Epub 2009 Jun 6.
Additional References at PubMed
PMID:1415488   PMID:7883948   PMID:8043001   PMID:8471066   PMID:8607872   PMID:12055258   PMID:12661899   PMID:12829448   PMID:12949249   PMID:14617513   PMID:14624457   PMID:15045510  
PMID:15319184   PMID:15935092   PMID:16132691   PMID:16239543   PMID:16522746   PMID:16618742   PMID:16818791   PMID:18622025   PMID:19912257   PMID:20034917   PMID:20186460   PMID:21148126  
PMID:22379036   PMID:22871113   PMID:24280128   PMID:25084278   PMID:26502930   PMID:27525872   PMID:27967265   PMID:28820395   PMID:30707086   PMID:31422522  


Genomics

Comparative Map Data
Cxcl2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21417,181,030 - 17,183,075 (-)NCBImRatBN7.2
Rnor_6.0 Ensembl1418,731,378 - 18,733,391 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01418,731,346 - 18,733,391 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01418,640,312 - 18,642,357 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41418,677,129 - 18,679,175 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11418,677,128 - 18,679,175 (-)NCBI
Celera1416,558,112 - 16,560,157 (-)NCBICelera
Cytogenetic Map14p22NCBI
CXCL2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl474,097,040 - 74,099,196 (-)EnsemblGRCh38hg38GRCh38
GRCh38474,097,040 - 74,099,195 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37474,962,757 - 74,964,912 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36475,181,616 - 75,183,861 (-)NCBINCBI36hg18NCBI36
Build 34475,327,790 - 75,329,927NCBI
Celera472,322,837 - 72,325,084 (-)NCBI
Cytogenetic Map4q13.3NCBI
HuRef470,773,657 - 70,775,906 (-)NCBIHuRef
CHM1_1474,998,593 - 75,000,838 (-)NCBICHM1_1
Cxcl2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39591,051,758 - 91,053,797 (+)NCBIGRCm39mm39
GRCm39 Ensembl591,051,730 - 91,053,797 (+)Ensembl
GRCm38590,903,899 - 90,905,938 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl590,903,871 - 90,905,938 (+)EnsemblGRCm38mm10GRCm38
MGSCv37591,332,925 - 91,334,964 (+)NCBIGRCm37mm9NCBIm37
MGSCv36591,979,099 - 91,981,138 (+)NCBImm8
Celera589,048,217 - 89,050,256 (+)NCBICelera
Cytogenetic Map5E1NCBI
cM Map544.78NCBI
CXCL2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1455,925,562 - 55,927,809 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl455,925,562 - 55,986,555 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0450,092,989 - 50,095,541 (+)NCBIMhudiblu_PPA_v0panPan3
CXCL2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl870,054,888 - 70,159,145 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1870,157,253 - 70,159,145 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2874,310,094 - 74,311,988 (+)NCBISscrofa10.2Sscrofa10.2susScr3

Position Markers
X53798  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21417,181,661 - 17,181,770 (+)MAPPERmRatBN7.2
Rnor_6.01418,731,978 - 18,732,086NCBIRnor6.0
Rnor_5.01418,640,944 - 18,641,052UniSTSRnor5.0
RGSC_v3.41418,677,762 - 18,677,870UniSTSRGSC3.4
Celera1416,558,744 - 16,558,852UniSTS
Cytogenetic Map14p22UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70195Mcs8Mammary carcinoma susceptibility QTL 84.28mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)14381307424531477Rat
619619Rf4Renal disease susceptibility QTL 44.10.002total urine protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)14132754612Rat
631212Bw5Body weight QTL55.43retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)141103081230320092Rat
2302045Pia39Pristane induced arthritis QTL 394.90.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G2a level (CMO:0002116)14826709053267090Rat
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
731183Pia20Pristane induced arthritis QTL 203.55joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)14908897839057237Rat
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
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141103062295876975Rat
634352Apr6Acute phase response QTL 63.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)14141131407Rat
1300114Srn2Serum renin concentration QTL 23.27blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)14381307421217635Rat
1300140Srn3Serum renin concentration QTL 33.19blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)141487516830883947Rat
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
2302277Gluco38Glucose level QTL 385.8blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141103062228035204Rat
1358296Ael3Aortic elastin QTL 33.70.00051aorta elastin amount (VT:0003905)aortic elastin14826709053267090Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:86
Count of miRNA genes:68
Interacting mature miRNAs:78
Transcripts:ENSRNOT00000003745
Prediction methods: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 appendage
High
Medium
Low 5 5 1 2 10
Below cutoff 2 15 20 13 10 13 2 2 14 13 22 1 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000003745   ⟹   ENSRNOP00000003745
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1418,731,378 - 18,733,391 (-)Ensembl
RefSeq Acc Id: NM_053647   ⟹   NP_446099
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21417,181,030 - 17,183,075 (-)NCBI
Rnor_6.01418,731,346 - 18,733,391 (-)NCBI
Rnor_5.01418,640,312 - 18,642,357 (-)NCBI
RGSC_v3.41418,677,129 - 18,679,175 (-)RGD
Celera1416,558,112 - 16,560,157 (-)RGD
Sequence:
Reference Sequences
RefSeq Acc Id: NP_446099   ⟸   NM_053647
- Peptide Label: precursor
- UniProtKB: P30348 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000003745   ⟸   ENSRNOT00000003745

Transcriptome

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

Promoters
RGD ID:13699225
Promoter ID:EPDNEW_R9749
Type:single initiation site
Name:Cxcl2_1
Description:C-X-C motif chemokine ligand 2
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_6.01418,733,393 - 18,733,453EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BUF/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
DA/OlaHsd (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
F344/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FXLE16/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/FarMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MWF/Hsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/OlalpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/RijCrl (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:70069 AgrOrtholog
Ensembl Genes ENSRNOG00000002792 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000003745 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000003745 ENTREZGENE, UniProtKB/Swiss-Prot
InterPro Chemokine_CXC UniProtKB/Swiss-Prot
  Chemokine_CXC_CS UniProtKB/Swiss-Prot
  Chemokine_IL8-like_dom UniProtKB/Swiss-Prot
  CXC_Chemokine_domain UniProtKB/Swiss-Prot
  Interleukin_8-like_sf UniProtKB/Swiss-Prot
KEGG Report rno:114105 UniProtKB/Swiss-Prot
NCBI Gene 114105 ENTREZGENE
PANTHER PTHR10179 UniProtKB/Swiss-Prot
Pfam IL8 UniProtKB/Swiss-Prot
PhenoGen Cxcl2 PhenoGen
PRINTS SMALLCYTKCXC UniProtKB/Swiss-Prot
PROSITE SMALL_CYTOKINES_CXC UniProtKB/Swiss-Prot
SMART SCY UniProtKB/Swiss-Prot
Superfamily-SCOP SSF54117 UniProtKB/Swiss-Prot
UniProt CXCL2_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary Q5WA60 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-08 Cxcl2  C-X-C motif chemokine ligand 2  Cxcl2  chemokine (C-X-C motif) ligand 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2003-04-09 Cxcl2  chemokine (C-X-C motif) ligand 2  Scyb2  small inducible cytokine subfamily, member 2  Symbol and Name updated 629477 APPROVED
2002-06-10 Scyb2  small inducible cytokine subfamily, member 2      Symbol and Name status set to approved 70586 APPROVED
2002-02-27 Scyb2  small inducible cytokine subfamily, member 2      Name updated to reflect Human and Mouse nomenclature 70292 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_function C-X-C chemokine 70649
gene_process triggers the attraction of polymorphonuclear leukocytes 70649
gene_regulation increased localization to bronchoalveolar lavage (BAL) fluid induced by intratracheal lipopolysaccharide 727566