Ccl11 (C-C motif chemokine ligand 11) - Rat Genome Database
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Gene: Ccl11 (C-C motif chemokine ligand 11) Rattus norvegicus
Analyze
Symbol: Ccl11
Name: C-C motif chemokine ligand 11
RGD ID: 3644
Description: Exhibits chemokine activity. Involved in several processes, including ERK1 and ERK2 cascade; leukocyte chemotaxis; and response to interleukin-13. Localizes to extracellular space. Used to study allergic rhinitis; asthma; pleurisy; and pneumonia. Biomarker of several diseases, including allergic conjunctivitis; asthma; prostatitis; rhinitis; and type 1 diabetes mellitus. Human ortholog(s) of this gene implicated in asthma; human immunodeficiency virus infectious disease; hyperglycemia; and multiple sclerosis. Orthologous to several human genes including CCL11 (C-C motif chemokine ligand 11); PARTICIPATES IN interleukin-4 signaling pathway; chemokine mediated signaling pathway; INTERACTS WITH 1-naphthyl isothiocyanate; 17alpha-ethynylestradiol; 17beta-estradiol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: C-C motif chemokine 11; chemokine (C-C motif) ligand 11; eosinophil chemotactic protein; eotaxin; Scya11; small inducible cytokine A11; small inducible cytokine subfamily A11; small-inducible cytokine A11
RGD Orthologs
Human
Mouse
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.01069,434,965 - 69,439,566 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1069,434,941 - 69,439,575 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01069,069,783 - 69,074,384 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41070,279,161 - 70,283,762 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11070,292,783 - 70,297,384 (+)NCBI
Celera1065,975,844 - 65,980,445 (+)NCBICelera
Cytogenetic Map10q26NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,4-benzoquinone  (ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4-D  (ISO)
3-chlorophenol  (ISO)
6-propyl-2-thiouracil  (EXP)
9,10-phenanthroquinone  (ISO)
actinomycin D  (ISO)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
apocynin  (ISO)
asbestos  (ISO)
barium sulfate  (EXP)
beclomethasone  (ISO)
benzalkonium chloride  (ISO)
benzene-1,2,4-triol  (ISO)
benzo[a]pyrene  (ISO)
bexarotene  (EXP)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
bleomycin A2  (ISO)
budesonide  (ISO)
cadmium dichloride  (ISO)
Calcimycin  (ISO)
calcium atom  (ISO)
calcium(0)  (ISO)
carbon nanotube  (ISO)
catechol  (ISO)
ceric oxide  (EXP,ISO)
chloroquine  (ISO)
choline  (ISO)
chromium(6+)  (ISO)
clopidogrel  (ISO)
copper atom  (EXP)
copper(0)  (EXP)
deoxynivalenol  (ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
dichlorine  (ISO)
diethylstilbestrol  (ISO)
diisononyl phthalate  (ISO)
dimethylarsinic acid  (ISO)
dioxygen  (ISO)
diuron  (EXP)
doxorubicin  (ISO)
Fexofenadine hydrochloride  (ISO)
flutamide  (ISO)
fluticasone  (ISO)
fumaric acid  (ISO)
furan  (EXP)
genistein  (ISO)
gentamycin  (EXP)
heparin  (ISO)
hydroquinone  (ISO)
indole-3-methanol  (EXP)
ionomycin  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
lipopolysaccharide  (ISO)
LY294002  (ISO)
mercury dichloride  (ISO)
metam  (ISO)
methimazole  (ISO)
methotrexate  (ISO)
methylmercury chloride  (EXP,ISO)
MK 571  (ISO)
mycotoxin  (ISO)
N-acetyl-L-cysteine  (EXP,ISO)
N-nitrosodiethylamine  (EXP)
neoechinulin A  (ISO)
nickel atom  (ISO)
nickel sulfate  (ISO)
nitrogen dioxide  (ISO)
ozone  (EXP,ISO)
paracetamol  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
phthalic anhydride  (ISO)
pioglitazone  (ISO)
pirinixic acid  (ISO)
poly(I:C)  (ISO)
polymyxin B2  (ISO)
prednisolone  (ISO)
prednisone  (ISO)
reactive oxygen species  (ISO)
resveratrol  (ISO)
rotenone  (ISO)
S-butyl-DL-homocysteine (S,R)-sulfoximine  (ISO)
Salmeterol xinafoate  (ISO)
SB 203580  (ISO)
serpentine asbestos  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (ISO)
sulforaphane  (ISO)
synephrine  (ISO)
tacrolimus hydrate  (ISO)
tamoxifen  (ISO)
tetraphene  (ISO)
titanium dioxide  (EXP,ISO)
toluene 2,4-diisocyanate  (EXP,ISO)
tremolite asbestos  (ISO)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
Triptolide  (ISO)
troglitazone  (ISO)
zileuton  (ISO)
zinc dichloride  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
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3. Chen J, etal., Am J Pathol. 1998 Jul;153(1):81-90.
4. Cherney DZ, etal., Diabetes Care. 2011 Jan;34(1):177-80. doi: 10.2337/dc10-1219. Epub 2010 Sep 14.
5. Cherney DZ, etal., Diabetologia. 2013 Jul 28.
6. Chiou YY, etal., Kidney Int. 2005 Feb;67(2):638-46.
7. Chiu BC, etal., Am J Respir Cell Mol Biol. 2003 Jul;29(1):106-16. Epub 2003 Jan 10.
8. D'Armiento JM, etal., Respir Res. 2009 Nov 19;10:113.
9. Emad A and Emad Y, J Clin Immunol. 2007 Nov;27(6):605-12. Epub 2007 Jul 10.
10. Firoved AM, etal., Am J Pathol. 2005 Nov;167(5):1309-20.
11. Forbes E, etal., Gastroenterology. 2004 Jul;127(1):105-18.
12. Fulkerson PC, etal., Proc Natl Acad Sci U S A. 2006 Oct 31;103(44):16418-23. Epub 2006 Oct 23.
13. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
14. GOA data from the GO Consortium
15. Guo RF, etal., Am J Pathol. 1999 Dec;155(6):2001-8.
16. Guo RF, etal., J Immunol. 2001 Apr 15;166(8):5208-18.
17. Haltia A, etal., Exp Nephrol. 1999 Jan-Feb;7(1):52-8.
18. Harris MT, etal., Prostate. 2000 Jun 15;44(1):19-25.
19. Hessner MJ, etal., J Immunol 2004 Dec 1;173(11):6993-7002.
20. Huaux F, etal., Am J Pathol. 2005 Dec;167(6):1485-96.
21. Im GJ, etal., Acta Otolaryngol. 2005 Apr;125(4):370-7.
22. Ishi Y, etal., Am J Physiol 1998 Jan;274(1 Pt 1):L171-6.
23. Jahnsen FL, etal., J Immunol. 1999 Aug 1;163(3):1545-51.
24. Katoh S, etal., J Clin Invest. 2003 May;111(10):1563-70.
25. Kim HH, etal., J Korean Med Sci. 2007 Feb;22(1):37-42.
26. Klein A, etal., Br J Pharmacol. 2002 Mar;135(5):1213-8.
27. Lamoury FM, etal., BMC Infect Dis. 2016 Jun 1;16:241. doi: 10.1186/s12879-016-1567-2.
28. Larbi KY, etal., Blood. 2000 Nov 15;96(10):3601-9.
29. Lines JL, etal., J Immunol. 2010 Sep 1;185(5):2980-8. Epub 2010 Jul 23.
30. Liu CT, etal., Zhonghua Jie He He Hu Xi Za Zhi. 2006 Aug;29(8):558-62.
31. Liu J, etal., J Immunoassay Immunochem. 2010 Oct;31(4):279-89.
32. Lu H, etal., Biol Trace Elem Res. 2012 Dec;150(1-3):314-21. doi: 10.1007/s12011-012-9493-7. Epub 2012 Aug 30.
33. Mansur A, etal., Nephron Clin Pract. 2011;119(4):c293-300. doi: 10.1159/000329671. Epub 2011 Sep 21.
34. Martell L, etal., Orphanet J Rare Dis. 2011 Dec 16;6:84. doi: 10.1186/1750-1172-6-84.
35. Matsuse H, etal., Microbes Infect. 2000 Jun;2(7):753-9.
36. Matthews SP, etal., J Virol. 2005 Feb;79(4):2050-7.
37. MGD data from the GO Consortium
38. Miller M, etal., J Allergy Clin Immunol. 2007 Nov;120(5):1118-25.
39. Min JW, etal., Chest. 2005 Nov;128(5):3127-32.
40. Miyake M, etal., Pediatr Res. 2004 Aug;56(2):205-11. Epub 2004 Jun 4.
41. Nagarkar DR, etal., J Immunol. 2010 Aug 15;185(4):2525-35. Epub 2010 Jul 19.
42. NCBI rat LocusLink and RefSeq merged data July 26, 2002
43. Ockinger J, etal., Genes Immun. 2010 Mar;11(2):142-54. Epub 2009 Oct 29.
44. OMIM Disease Annotation Pipeline
45. Orman MA, etal., Cytokine. 2011 Sep;55(3):362-71. doi: 10.1016/j.cyto.2011.05.010. Epub 2011 Jun 8.
46. Ozaki A, etal., Graefes Arch Clin Exp Ophthalmol. 2003 May;241(5):394-402. Epub 2003 Apr 4.
47. Pecinali NR, etal., Vet Parasitol. 2005 Nov 25;134(1-2):121-30. Epub 2005 Sep 15.
48. Pereira RL, etal., PLoS One. 2012;7(3):e32454. doi: 10.1371/journal.pone.0032454. Epub 2012 Mar 12.
49. Pipeline to import KEGG annotations from KEGG into RGD
50. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
51. RGD automated data pipeline
52. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
53. RGD automated import pipeline for gene-chemical interactions
54. RGD comprehensive gene curation
55. Rossi MI, et al., Int Immunopharmacol. 2005 Aug;5(9):1353-64. Epub 2005 Mar 19.
56. Rothenberg ME, etal., J Exp Med. 1997 Feb 17;185(4):785-90.
57. Rothenberg ME, etal., Proc Natl Acad Sci U S A 1995 Sep 12;92(19):8960-4.
58. Salib RJ, etal., Clin Exp Allergy. 2005 Aug;35(8):995-1002.
59. Sanz MJ, etal., J Immunol. 1998 Apr 1;160(7):3569-76.
60. Silva PM, etal., Br J Pharmacol. 2001 Sep;134(2):283-94.
61. Skinner ML, etal., Am J Rhinol. 2007 Sep-Oct;21(5):538-41.
62. Su YC, etal., J Immunol. 2008 Feb 15;180(4):2600-7.
63. Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
64. Tirgan N, etal., Exp Diabetes Res. 2012;2012:349320. doi: 10.1155/2012/349320. Epub 2012 Sep 20.
65. Umezawa M, etal., Cytokine. 2008 Aug;43(2):105-9. Epub 2008 Jul 1.
66. Wang TN, etal., Allergy. 2007 Oct;62(10):1125-30.
67. Williams CM, etal., Immunogenetics 1998;47(2):178-80.
68. Wohlleben G, etal., J Immunol. 2003 May 1;170(9):4601-11.
69. Woo CH, etal., Biochem Biophys Res Commun. 2002 Nov 1;298(3):392-7.
70. Xie QM, etal., J Ethnopharmacol. 2006 Oct 11;107(3):424-30. Epub 2006 Apr 18.
71. Xu YY, etal., J Chin Med Assoc. 2012 Oct;75(10):524-9. doi: 10.1016/j.jcma.2012.07.003. Epub 2012 Oct 2.
72. Yao T, etal., Laryngoscope. 2009 Jun;119(6):1053-9.
73. Yasuda K, etal., Am J Physiol Renal Physiol. 2012 Mar 15;302(6):F713-21. doi: 10.1152/ajprenal.00541.2011. Epub 2011 Dec 7.
74. Zietkowski Z, etal., Respir Res. 2010 Aug 12;11:110.
75. Zweifel M, etal., Transplant Proc. 2010 Sep;42(7):2763-6.
Additional References at PubMed
PMID:9712872   PMID:10072545   PMID:10804170   PMID:11425309   PMID:12949249   PMID:16722399   PMID:16838745   PMID:19525930   PMID:19631640   PMID:20041150   PMID:20359111   PMID:21886162  
PMID:22387551   PMID:22815714   PMID:23272499   PMID:24646746   PMID:28279120  


Genomics

Candidate Gene Status
Ccl11 is a candidate Gene for QTL Eae18b
Ccl11 is a candidate Gene for QTL Eau9
Comparative Map Data
Ccl11
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.01069,434,965 - 69,439,566 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1069,434,941 - 69,439,575 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01069,069,783 - 69,074,384 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41070,279,161 - 70,283,762 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11070,292,783 - 70,297,384 (+)NCBI
Celera1065,975,844 - 65,980,445 (+)NCBICelera
Cytogenetic Map10q26NCBI
CCL11
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1734,285,742 - 34,288,334 (+)EnsemblGRCh38hg38GRCh38
GRCh381734,285,742 - 34,288,334 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371732,612,687 - 32,615,199 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361729,636,800 - 29,639,312 (+)NCBINCBI36hg18NCBI36
Build 341729,636,799 - 29,639,312NCBI
Celera1729,522,500 - 29,525,011 (+)NCBI
Cytogenetic Map17q12NCBI
HuRef1728,797,991 - 28,800,502 (+)NCBIHuRef
CHM1_11732,676,549 - 32,679,061 (+)NCBICHM1_1
Ccl11
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391181,948,658 - 81,953,781 (+)NCBIGRCm39mm39
GRCm381182,057,832 - 82,062,955 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1182,057,823 - 82,062,955 (+)EnsemblGRCm38mm10GRCm38
MGSCv371181,871,334 - 81,876,457 (+)NCBIGRCm37mm9NCBIm37
MGSCv361181,874,117 - 81,879,148 (+)NCBImm8
Celera1191,671,281 - 91,676,404 (+)NCBICelera
Cytogenetic Map11CNCBI
cM Map1149.84NCBI
Ccl11
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_004936538835,436 - 848,907 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CCL11
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1240,779,173 - 40,782,893 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11240,779,906 - 40,782,862 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21242,424,321 - 42,427,185 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CCL11
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11627,792,699 - 27,796,437 (+)NCBI
ChlSab1.1 Ensembl1627,794,033 - 27,796,460 (+)Ensembl

Position Markers
Scya11  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01069,438,401 - 69,438,502NCBIRnor6.0
Rnor_5.01069,073,219 - 69,073,320UniSTSRnor5.0
RGSC_v3.41070,282,597 - 70,282,698UniSTSRGSC3.4
Celera1065,979,280 - 65,979,381UniSTS
Cytogenetic Map10q26UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10622909575983805Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10642907599492409Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109841807108540162Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101482789492423564Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014827894107857673Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014827894110992275Rat
1554317Bmd4Bone mineral density QTL 49.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)1020170031102897474Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102152390683549467Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)12152390690312401Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)12152390690312401Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)12152390690312401Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)12152390690312401Rat
70198BpQTLcluster9Blood pressure QTL cluster 92.94arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102152390690312401Rat
724556Pur2Proteinuria QTL 25.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)102290149793886300Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)1023861015112626471Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1024483076107857673Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1024483076107857673Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1024483076107857673Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)1027237530101482600Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1027237530102427718Rat
2300171Bmd58Bone mineral density QTL 584.90.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)102878928073789280Rat
2292441Bp308Blood pressure QTL 308arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)103009990975099909Rat
10402859Bp381Blood pressure QTL 3810.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)103009990975099909Rat
724527Bp148Blood pressure QTL 1480.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)103098380575983805Rat
1576311Pia26Pristane induced arthritis QTL 26joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103191939778343192Rat
1578779Tcas10Tongue tumor susceptibility QTL 103.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)103317903078179030Rat
631557Bp136Blood pressure QTL 1360.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)103334319278343192Rat
1576319Cia29Collagen induced arthritis QTL 29joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103513942480139424Rat
6893342Cm78Cardiac mass QTL 780.10.88heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)103618592982675365Rat
631552Vetf2Vascular elastic tissue fragility QTL 24.50.0002aorta elastic tissue integrity trait (VT:0010556)artery internal elastic lamina non-tumorous lesion count (CMO:0001913)103618592995845311Rat
2317042Aia20Adjuvant induced arthritis QTL 203.38joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)104051404485514044Rat
2317043Aia7Adjuvant induced arthritis QTL 73.82joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)104051404485514044Rat
1576308Schws1Schwannoma susceptibility QTL 10.0041nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)1041260363106105607Rat
631269Cia22Collagen induced arthritis QTL 228.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1041260363107857673Rat
631270Cia23Collagen induced arthritis QTL 233.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1041260363107857673Rat
8552805Bw145Body weight QTL 1452.2body mass (VT:0001259)change in body weight to body weight ratio (CMO:0002216)104318865981042642Rat
1298078Stresp5Stress response QTL 52.990.00025blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1043289657108540162Rat
61463Bp12Blood pressure QTL 126.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)104370495588704955Rat
2300218Hpcl2Hepatic cholesterol level QTL 2liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)104659302198939209Rat
9589030Epfw9Epididymal fat weight QTL 919.240.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)104684834691848346Rat
7411614Foco18Food consumption QTL 180.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)104684834691848346Rat
8694173Bw149Body weight QTL 1494.380.001body mass (VT:0001259)body weight gain (CMO:0000420)104684834691848346Rat
631547Bp87Blood pressure QTL 874.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)105063833795638337Rat
2293652Bmd22Bone mineral density QTL 224.90.0001femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)105128920384596393Rat
2293669Bmd33Bone mineral density QTL 334.50.0001femur strength trait (VT:0010010)femoral neck polar moment of inertia (CMO:0001670)105128920384596393Rat
2293679Bmd30Bone mineral density QTL 303.50.0001femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)105128920384596393Rat
2293705Bmd25Bone mineral density QTL 257.10.0001femur mineral mass (VT:0010011)cortical volumetric bone mineral density (CMO:0001730)105128920384596393Rat
7207811Bmd90Bone mineral density QTL 905.2femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)105128920384596393Rat
1549846Scl47Serum cholesterol level QTL 473.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)105310471898104718Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1053621375112626471Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1053621375112626471Rat
631530Tls3T-lymphoma susceptibility QTL 300.0001thymus integrity trait (VT:0010555)percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)105362581598939209Rat
631535Cm51Cardiac mass QTL 513heart mass (VT:0007028)calculated heart weight (CMO:0000073)105363748594807701Rat
1359017Hrtrt21Heart rate QTL 212.4heart pumping trait (VT:2000009)heart rate (CMO:0000002)1055224855100224855Rat
70171Cari1Carrageenan-induced inflammation QTL 14.90.0005hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)1055678976112626471Rat
70164Bw21Body weight QTL 214.360.00005body mass (VT:0001259)body weight (CMO:0000012)1055679084102427604Rat
1354608Cm33Cardiac mass QTL 332.8heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1056698730101698730Rat
1549831Bss6Bone structure and strength QTL 64lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)1060450007105450007Rat
2312662Slep8Serum leptin concentration QTL 80.05blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1060875260105875260Rat
2312668Scl65Serum cholesterol level QTL 650.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1060875260105875260Rat
2312672Insul15Insulin level QTL 150.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1060875260105875260Rat
2293698Bss43Bone structure and strength QTL 435.330.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra cross-sectional area (CMO:0001689)1062096293107096293Rat
1331839Eae18bExperimental allergic encephalomyelitis QTL 18b5.80.03nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)106455091270202084Rat
70363Bp71Blood pressure QTL 710.04arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)106464817584601269Rat
2306970Anxrr22Anxiety related response QTL 225.95fear/anxiety-related behavior trait (VT:1000241)number of periods of voluntary immobility (CMO:0001045)1064648175101691360Rat
1558643Cm44Cardiac mass QTL 444.80.0000368heart mass (VT:0007028)heart wet weight (CMO:0000069)1064648175102149713Rat
6893336Cm75Cardiac mass QTL 750.10.87heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)1064648175102149713Rat
61402Niddm3Non-insulin dependent diabetes mellitus QTL 34.58blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)106464831185513822Rat
61449Ciaa2CIA Autoantibody QTL 27.1blood autoantibody amount (VT:0003725)calculated serum anti-type 2 collagen antibody titer (CMO:0001279)1065590122110590122Rat
2313103Bss80Bone structure and strength QTL 8020.0001tibia strength trait (VT:1000284)tibia midshaft endosteal cross-sectional area (CMO:0001716)1065992275110992275Rat
2313105Bss79Bone structure and strength QTL 791.80.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)1065992275110992275Rat
7387312Bw125Body weight QTL 12530.0047retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight (CMO:0000356)1067880046112626471Rat
1581559Eae18Experimental allergic encephalomyelitis QTL 180.00002nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)1067988218110992091Rat
2298481Eau9Experimental allergic uveoretinitis QTL 90.0169uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)106830503785514044Rat
2301405Cm69Cardiac mass QTL 690.031heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)106869792870167191Rat
11565453Kidm58Kidney mass QTL 580.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)106869792870167191Rat
12903252Cm113Cardiac mass QTL 1130.047heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)106869792870167191Rat
12903266Cm114Cardiac mass QTL 1140.02heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)106869792870167191Rat
12903269Am15Aortic mass QTL 150.042aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)106869792870167191Rat
12880370Cm105Cardiac mass QTL 1050.008heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)106869792870581793Rat
12880371Cm106Cardiac mass QTL 1060.007heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)106869792870581793Rat
12880372Am12Aortic mass QTL 120.003aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)106869792870581793Rat
12880375Kidm66Kidney mass QTL 660.009kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)106869792870581793Rat
1357344Bp249Blood pressure QTL 2490.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1069123603101482600Rat
631565Hcuc4Hepatic copper content QTL 44.15hepatic copper amount (VT:0003065)liver copper weight to liver dry weight ratio (CMO:0001512)106934845975983662Rat
8657410Bp374Blood pressure QTL 374heart left ventricle size trait (VT:0002753)heart left ventricular end-diastolic diameter (CMO:0000982)106938559570167191Rat
2317029Aia19Adjuvant induced arthritis QTL 192.98joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)1069385595112626471Rat
2317039Aia6Adjuvant induced arthritis QTL 64.31joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)1069385595112626471Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:263
Count of miRNA genes:176
Interacting mature miRNAs:207
Transcripts:ENSRNOT00000009756
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 2 2 6 3
Low 6 16 2 14 2 7 10 1 1 26 8 7
Below cutoff 29 25 25 3 25 1 1 21 21 7 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000009756   ⟹   ENSRNOP00000009756
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1069,434,941 - 69,439,575 (+)Ensembl
RefSeq Acc Id: NM_019205   ⟹   NP_062078
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01069,434,965 - 69,439,566 (+)NCBI
Rnor_5.01069,069,783 - 69,074,384 (+)NCBI
RGSC_v3.41070,279,161 - 70,283,762 (+)RGD
Celera1065,975,844 - 65,980,445 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_062078 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAB65775 (Get FASTA)   NCBI Sequence Viewer  
  CAA69645 (Get FASTA)   NCBI Sequence Viewer  
  EDM05439 (Get FASTA)   NCBI Sequence Viewer  
  P97545 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_062078   ⟸   NM_019205
- Peptide Label: precursor
- UniProtKB: P97545 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000009756   ⟸   ENSRNOT00000009756

Transcriptome

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

Promoters
RGD ID:13697509
Promoter ID:EPDNEW_R8034
Type:single initiation site
Name:Ccl11_1
Description:C-C motif chemokine ligand 11
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_6.01069,434,954 - 69,435,014EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
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 (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/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 (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)
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
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
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/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
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 (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
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
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
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
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
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)
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
MR/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
SBH/Ygl (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: SBH/Ygl sequenced by MCW
SBH/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
SBN/Ygl (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: 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)
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
SHRSP/Gcrc (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
SR/JrHsd (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: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (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
SS/Jr (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
SS/JrHsdMcwi (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)
SS/JrHsdMcwi (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
WAG/Rij (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
WKY/Gcrc (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
WKY/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
WKY/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
WKY/NHsd (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
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:3644 AgrOrtholog
Ensembl Genes ENSRNOG00000007335 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000009756 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000009756 ENTREZGENE, UniProtKB/Swiss-Prot
InterPro Chemokine_b/g/d UniProtKB/Swiss-Prot
  Chemokine_CC_CS UniProtKB/Swiss-Prot
  Chemokine_IL8-like_dom UniProtKB/Swiss-Prot
  Interleukin_8-like_sf UniProtKB/Swiss-Prot
KEGG Report rno:29397 UniProtKB/Swiss-Prot
NCBI Gene 29397 ENTREZGENE
PANTHER PTHR12015 UniProtKB/Swiss-Prot
Pfam IL8 UniProtKB/Swiss-Prot
PhenoGen Ccl11 PhenoGen
PROSITE SMALL_CYTOKINES_CC UniProtKB/Swiss-Prot
SMART SCY UniProtKB/Swiss-Prot
Superfamily-SCOP SSF54117 UniProtKB/Swiss-Prot
TIGR TC212586
UniGene Rn.10632 ENTREZGENE
UniProt CCL11_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary O08780 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-08 Ccl11  C-C motif chemokine ligand 11  Ccl11  chemokine (C-C motif) ligand 11  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-11-17 Ccl11  chemokine (C-C motif) ligand 11  Scya11  small inducible cytokine subfamily A11  Symbol and Name updated 1299863 APPROVED
2002-06-10 Scya11  small inducible cytokine subfamily A11      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference