Tlr2 (toll-like receptor 2) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Tlr2 (toll-like receptor 2) Rattus norvegicus
Analyze
Symbol: Tlr2
Name: toll-like receptor 2
RGD ID: 735138
Description: Enables lipopeptide binding activity. Involved in several processes, including neurogenesis; positive regulation of interleukin-10 production; and response to molecule of bacterial origin. Located in cell body; cell projection; and cell surface. Used to study carotid stenosis; ileitis; keratitis; lung disease (multiple); and renal fibrosis. Biomarker of kidney failure; lung disease; pancreatitis; and perinatal necrotizing enterocolitis. Human ortholog(s) of this gene implicated in several diseases, including autoimmune disease (multiple); dermatitis (multiple); gastrointestinal system cancer (multiple); lung disease (multiple); and rhinitis (multiple). Orthologous to human TLR2 (toll like receptor 2); PARTICIPATES IN Toll-like receptor signaling pathway; Chagas disease pathway; Entamoebiasis pathway; INTERACTS WITH 17alpha-ethynylestradiol; 2,4,6-trinitrobenzenesulfonic acid; 4,4'-diaminodiphenylmethane.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: toll-like receptor 2 variant 1; toll-like receptor 2 variant 2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22169,200,620 - 169,206,819 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl2169,197,419 - 169,206,630 (-)Ensembl
Rnor_6.02182,840,171 - 182,846,061 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2182,840,727 - 182,846,061 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02202,252,701 - 202,258,962 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42175,607,990 - 175,613,992 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12175,558,096 - 175,564,098 (-)NCBI
Celera2163,202,040 - 163,207,399 (-)NCBICelera
Cytogenetic Map2q34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
abdominal obesity-metabolic syndrome 1  (ISO)
acne  (ISO)
acute kidney failure  (ISO)
acute necrotizing pancreatitis  (IEP)
Acute Tubulointerstitial Nephritis  (ISO)
allergic conjunctivitis  (ISO)
allergic rhinitis  (ISO)
alveolar echinococcosis  (ISO)
anogenital venereal wart  (ISO)
anterior uveitis  (ISO)
Anti-Neutrophil Cytoplasmic Antibody-Associated Vasculitis  (ISO)
aspergillosis  (ISO)
asthma  (ISO)
atherosclerosis  (ISO)
atopic dermatitis  (ISO)
atrial fibrillation  (ISO)
Bacterial Eye Infections  (ISO)
Bacterial Keratitis  (ISO)
bacterial pneumonia  (IDA,ISO)
Behcet's disease  (ISO)
Brain Abscess  (ISO)
Brain Injuries  (IEP,ISO)
breast cancer  (ISO)
cardiomyopathy  (ISO)
Cardiotoxicity  (ISO)
carotid artery thrombosis  (ISO)
carotid stenosis  (IDA)
cholangitis  (ISO)
cholestasis  (ISO)
cholesteatoma  (ISO)
cholesteatoma of middle ear  (ISO)
Choroidal Neovascularization  (ISO)
Chronic Hepatitis B  (ISO)
Chronic Pain  (ISO)
Chronic Periodontitis  (ISO)
clonorchiasis  (ISO)
colorectal cancer  (ISO)
Colorectal Neoplasms  (ISO)
congestive heart failure  (ISO)
Cough  (ISO)
cutaneous leishmaniasis  (ISO)
cystic echinococcosis  (ISO)
dermatomyositis  (ISO)
Diabetic Nephropathies  (ISO)
diffuse scleroderma  (ISO)
Drug-Related Side Effects and Adverse Reactions  (ISO)
dry eye syndrome  (ISO)
Dyslipidemias  (IGI)
end stage renal disease  (ISO)
endophthalmitis  (ISO)
Endotoxemia  (IDA)
Eosinophilia  (ISO)
eumycotic mycetoma  (ISO)
Experimental Arthritis  (IEP,ISO)
Experimental Autoimmune Encephalomyelitis  (IEP)
Experimental Autoimmune Neuritis  (IEP)
Experimental Diabetes Mellitus  (IEP,ISO)
Experimental Liver Cirrhosis  (IDA,ISO)
eye disease  (ISO)
Fever  (ISO)
Fungal Eye Infections  (IEP)
gastroesophageal reflux disease  (ISO)
glomerulonephritis  (ISO)
Gram-Positive Bacterial Infections  (ISO)
Hearing Loss  (ISO)
hepatitis B  (ISO)
hepatocellular carcinoma  (ISO)
Herpes Simplex Encephalitis  (IEP,ISO)
herpes simplex virus keratitis  (ISO)
Human Influenza  (ISO)
Hyperalgesia  (IDA,ISO)
Hypoxia-Ischemia, Brain  (ISO)
ileitis  (IMP)
Inflammation  (IDA,ISO)
invasive aspergillosis  (ISO)
keratitis  (IMP,ISO)
keratoconjunctivitis  (ISO)
kidney failure  (IEP)
Kidney Reperfusion Injury  (IDA,ISO)
Kuhnt-Junius degeneration  (ISO)
leprosy  (ISO)
leptospirosis  (ISO)
liver cirrhosis  (ISO)
Liver Reperfusion Injury  (IEP,ISO)
lung disease  (IDA,IEP,ISO)
mastoiditis  (ISO)
membranoproliferative glomerulonephritis  (ISO)
Meningitis, Escherichia Coli  (ISO)
meningococcal meningitis  (ISO)
mite infestation  (ISO)
molluscum contagiosum  (ISO)
myelodysplastic syndrome  (ISO)
Myocardial Reperfusion Injury  (IEP)
Nasal Polyps  (ISO)
non-alcoholic steatohepatitis  (ISO)
obesity  (ISO)
obstructive jaundice  (ISO)
Oral Lichen Planus  (ISO)
otitis media  (ISO)
Otitis Media with Effusion  (ISO)
Pain  (IDA)
pancreatitis  (IEP)
perinatal necrotizing enterocolitis  (IEP)
Plaque, Atherosclerotic  (ISO)
Pneumococcal Meningitis  (ISO)
Pneumococcal Pneumonia  (ISO)
pneumocystosis  (ISO)
pneumonia  (ISO)
prostate cancer  (ISO)
Pseudomonas Aeruginosa Keratitis  (ISO)
psoriasis  (ISO)
pulmonary emphysema  (ISO)
pulmonary fibrosis  (ISO)
pulmonary sarcoidosis  (ISO)
pulmonary tuberculosis  (ISO)
renal fibrosis  (IMP)
Reperfusion Injury  (IEP,ISO)
respiratory syncytial virus infectious disease  (ISO)
rheumatoid arthritis  (ISO)
rhinitis  (ISO)
Rhinosinusitis  (ISO)
sciatic neuropathy  (ISO)
seborrheic dermatitis  (ISO)
Sepsis  (IEP)
severe acute respiratory syndrome  (ISO)
sinusitis  (ISO)
skin papilloma  (ISO)
Staphylococcal Infections  (ISO)
Streptococcal Infections  (ISO)
suppurative otitis media  (ISO)
Transplant Rejection  (IEP,ISO)
tuberculosis  (ISO)
type 1 diabetes mellitus  (ISO)
typhoid fever  (ISO)
urinary bladder cancer  (ISO)
urinary tract infection  (ISO)
visceral leishmaniasis  (ISO)
vitiligo  (ISO)
Wallerian Degeneration  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-pilocarpine  (ISO)
(-)-citrinin  (ISO)
(-)-epigallocatechin 3-gallate  (ISO)
1,1-dichloroethene  (ISO)
1,2-dimethylhydrazine  (ISO)
1-chloro-2,4,6-trinitrobenzene  (ISO)
15-deoxy-Delta(12,14)-prostaglandin J2  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4,6-trinitrobenzenesulfonic acid  (EXP)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3-mercaptopropanoic acid  (ISO)
4,4'-diaminodiphenylmethane  (EXP)
4-hydroxyphenyl retinamide  (ISO)
6-propyl-2-thiouracil  (EXP)
6alpha-methylprednisolone  (ISO)
acetamide  (EXP)
adapalene  (ISO)
afimoxifene  (ISO)
aflatoxin B1  (ISO)
aflatoxin B2  (ISO)
Aflatoxin G1  (ISO)
aldehydo-D-glucose  (ISO)
alfacalcidol  (ISO)
all-trans-retinol  (ISO)
ammonium hexachloroplatinate  (ISO)
amphetamine  (EXP)
antirheumatic drug  (ISO)
arsenous acid  (ISO)
astemizole  (EXP)
atorvastatin calcium  (ISO)
azathioprine  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
beta-naphthoflavone  (EXP)
bis(2-chloroethyl) sulfide  (ISO)
bisdemethoxycurcumin  (ISO)
bisphenol A  (EXP,ISO)
Bisphenol A diglycidyl ether  (EXP)
bortezomib  (ISO)
butanal  (ISO)
cadmium dichloride  (EXP,ISO)
carbon atom  (ISO)
carbon nanotube  (ISO)
cefaloridine  (EXP)
cerium trichloride  (ISO)
chitosan  (ISO)
chlorpyrifos  (EXP)
ciguatoxin CTX1B  (ISO)
cisplatin  (ISO)
cobalt atom  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
cortisol  (ISO)
crocidolite asbestos  (ISO)
curcumin  (EXP,ISO)
cyclophosphamide  (ISO)
cyclosporin A  (ISO)
cyproconazole  (ISO)
D-glucose  (ISO)
deoxynivalenol  (ISO)
diarsenic trioxide  (ISO)
dichloroacetic acid  (ISO)
diclofenac  (EXP,ISO)
dioxygen  (ISO)
disodium selenite  (ISO)
dopamine  (EXP)
doxorubicin  (EXP,ISO)
elemental carbon  (ISO)
endosulfan  (EXP)
epoxiconazole  (ISO)
fenoldopam  (EXP)
ferric oxide  (ISO)
ferulic acid  (ISO)
folic acid  (ISO)
fonofos  (ISO)
furan  (EXP)
genistein  (ISO)
glucose  (ISO)
glutathione  (ISO)
gold atom  (ISO)
gold(0)  (ISO)
graphene oxide  (ISO)
hexamethylene diisocyanate  (ISO)
histamine  (ISO)
hyaluronic acid  (ISO)
hydroxycitronellal  (ISO)
icosanoid  (ISO)
indometacin  (EXP,ISO)
iron(2+) sulfate (anhydrous)  (ISO)
isoeugenol  (ISO)
ivermectin  (ISO)
kaempferol 3-O-beta-D-glucosyl-(1->2)-beta-D-glucoside  (ISO)
L-ascorbic acid  (ISO)
levamisole  (ISO)
lipophosphoglycan  (ISO)
lipopolysaccharide  (EXP,ISO)
lipoteichoic acid  (ISO)
lycopene  (ISO)
metformin  (ISO)
methamphetamine  (EXP,ISO)
methotrexate  (EXP,ISO)
methylseleninic acid  (ISO)
muramyl dipeptide  (ISO)
N-acetyl-L-cysteine  (ISO)
N-nitrosodiethylamine  (EXP)
nickel atom  (ISO)
nitrites  (ISO)
nitroprusside  (ISO)
o-anisidine  (ISO)
oxaliplatin  (EXP)
ozone  (EXP,ISO)
paclitaxel  (ISO)
paracetamol  (ISO)
paraquat  (ISO)
parathion  (ISO)
pentachlorophenol  (ISO)
pentanal  (ISO)
pentane-2,3-dione  (EXP)
peptidoglycan  (ISO)
phenobarbital  (ISO)
phenytoin  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
pirinixic acid  (ISO)
piroxicam  (ISO)
poly(I:C)  (ISO)
prednisolone  (ISO)
progesterone  (ISO)
propanal  (ISO)
propiconazole  (ISO)
prostaglandin E2  (ISO)
quercetin  (ISO)
reactive oxygen species  (ISO)
resveratrol  (EXP,ISO)
S-butyl-DL-homocysteine (S,R)-sulfoximine  (ISO)
SB 203580  (ISO)
SCH 23390  (EXP)
silicon dioxide  (EXP,ISO)
simvastatin  (ISO)
sodium aurothiomalate  (ISO)
sodium dichromate  (EXP)
sodium dodecyl sulfate  (ISO)
sulfasalazine  (ISO)
sulfur dioxide  (ISO)
sulindac  (EXP)
tacrolimus hydrate  (ISO)
terbufos  (ISO)
tetrachloromethane  (EXP,ISO)
titanium atom  (EXP)
titanium dioxide  (EXP,ISO)
topotecan  (EXP)
trans-isoeugenol  (ISO)
tributyrin  (EXP)
trimellitic anhydride  (ISO)
Tungsten carbide  (ISO)
vinclozolin  (EXP)
vitamin D  (ISO)
vorinostat  (ISO)
zinc oxide  (ISO)
zinc protoporphyrin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
cell activation  (ISO)
cell surface pattern recognition receptor signaling pathway  (ISO)
cellular response to bacterial lipopeptide  (ISO)
cellular response to diacyl bacterial lipopeptide  (ISO)
cellular response to interferon-gamma  (ISO)
cellular response to lipoteichoic acid  (ISO)
cellular response to peptidoglycan  (ISO)
cellular response to triacyl bacterial lipopeptide  (ISO)
central nervous system myelin formation  (IDA)
defense response  (ISO)
defense response to Gram-positive bacterium  (ISO)
defense response to virus  (ISO)
detection of diacyl bacterial lipopeptide  (ISO)
detection of triacyl bacterial lipopeptide  (ISO)
I-kappaB phosphorylation  (ISO)
immune response  (NAS)
inflammatory response  (IBA,IDA)
learning  (ISO)
leukotriene metabolic process  (IDA)
microglia development  (ISO)
microglial cell activation  (IDA)
MyD88-dependent toll-like receptor signaling pathway  (ISO)
negative regulation of actin filament polymerization  (ISO)
negative regulation of cell population proliferation  (IDA)
negative regulation of interleukin-12 production  (ISO)
negative regulation of interleukin-17 production  (ISO)
negative regulation of phagocytosis  (ISO)
negative regulation of synapse assembly  (ISO)
nitric oxide metabolic process  (IDA)
positive regulation of cellular response to macrophage colony-stimulating factor stimulus  (ISO)
positive regulation of chemokine production  (ISO)
positive regulation of cytokine production  (ISO)
positive regulation of ERK1 and ERK2 cascade  (ISO)
positive regulation of gene expression  (ISO)
positive regulation of inflammatory response  (ISO)
positive regulation of interferon-beta production  (ISO)
positive regulation of interleukin-1 beta production  (ISO)
positive regulation of interleukin-10 production  (IDA)
positive regulation of interleukin-12 production  (ISO)
positive regulation of interleukin-18 production  (ISO)
positive regulation of interleukin-6 production  (ISO)
positive regulation of interleukin-8 production  (ISO)
positive regulation of leukocyte migration  (ISO)
positive regulation of macrophage cytokine production  (ISO)
positive regulation of matrix metallopeptidase secretion  (ISO)
positive regulation of NF-kappaB transcription factor activity  (ISO)
positive regulation of NIK/NF-kappaB signaling  (ISO)
positive regulation of nitric oxide biosynthetic process  (ISO)
positive regulation of nitric-oxide synthase biosynthetic process  (ISO)
positive regulation of oligodendrocyte differentiation  (IDA)
positive regulation of toll-like receptor signaling pathway  (ISO)
positive regulation of transcription by RNA polymerase II  (ISO)
positive regulation of tumor necrosis factor production  (ISO)
positive regulation of Wnt signaling pathway  (ISO)
positive regulation of xenophagy  (ISO)
regulation of dendritic cell cytokine production  (ISO)
response to bacterial lipoprotein  (IDA)
response to bacterium  (ISO)
response to fatty acid  (IDA)
response to hypoxia  (IEP)
response to insulin  (IEP)
response to lipopolysaccharide  (IEP)
response to molecule of fungal origin  (ISO)
response to peptidoglycan  (ISO)
response to progesterone  (IEP)
response to toxic substance  (IEP)
toll-like receptor 2 signaling pathway  (IEA)
toll-like receptor signaling pathway  (IBA,IDA,IMP)

References

References - curated
1. Abudusalamu A, etal., Zhongguo Ji Sheng Chong Xue Yu Ji Sheng Chong Bing Za Zhi. 2016 Dec;34(6):542-6.
2. Akbal E, etal., Viral Immunol. 2017 May;30(4):278-282. doi: 10.1089/vim.2016.0131. Epub 2017 Apr 17.
3. Amura CR, etal., Mol Immunol. 2012 Oct;52(3-4):249-57. doi: 10.1016/j.molimm.2012.05.020. Epub 2012 Jun 27.
4. Andersson A, etal., J Leukoc Biol. 2008 Nov;84(5):1248-55. Epub 2008 Jul 21.
5. Bakry OA, etal., Anal Quant Cytol Histol. 2013 Dec;35(6):316-23.
6. Balloy V, etal., Infect Immun. 2005 Sep;73(9):5420-5.
7. Banas MC, etal., J Am Soc Nephrol. 2008 Apr;19(4):704-13. doi: 10.1681/ASN.2007040395. Epub 2008 Feb 6.
8. Ben Dhifallah I, etal., Clin Exp Rheumatol. 2009 Mar-Apr;27(2 Suppl 53):S58-62.
9. Bereczky-Veress B, etal., PLoS One. 2010 Aug 27;5(8):e12350.
10. Bjornvold M, etal., Genes Immun. 2009 Mar;10(2):181-7. Epub 2009 Jan 15.
11. Bochud PY, etal., J Infect Dis. 2008 Jan 15;197(2):253-61. doi: 10.1086/524688.
12. Boivin A, etal., J Neurosci. 2007 Nov 14;27(46):12565-76.
13. Bottcher T, etal., Neurosci Lett. 2003 Jun 19;344(1):17-20.
14. Braga TT, etal., Mol Med. 2012 Oct 24;18:1231-9. doi: 10.2119/molmed.2012.00131.
15. Broen JC, etal., Arthritis Rheum. 2012 Jan;64(1):264-71. doi: 10.1002/art.33325.
16. Brown HJ, etal., J Immunol. 2006 Aug 1;177(3):1925-31.
17. Brown RA, etal., Transplantation. 2010 Apr 15;89(7):811-5. doi: 10.1097/TP.0b013e3181cbac18.
18. Bsibsi M, etal., J Neurosci Res. 2012 Feb;90(2):388-98. doi: 10.1002/jnr.22767. Epub 2011 Oct 4.
19. Buckland KF, etal., Inflamm Res. 2008 Aug;57(8):379-87.
20. Caricilli AM, etal., J Endocrinol. 2008 Dec;199(3):399-406. Epub 2008 Sep 11.
21. Castoldi A, etal., PLoS One. 2012;7(5):e37584. doi: 10.1371/journal.pone.0037584. Epub 2012 May 24.
22. Chang JH, etal., Invest Ophthalmol Vis Sci. 2007 Apr;48(4):1711-7.
23. Chassin C, etal., J Immunol. 2009 Aug 15;183(4):2669-77. doi: 10.4049/jimmunol.0900506. Epub 2009 Jul 27.
24. Chen G, etal., Ann Clin Lab Sci. 2008 Winter;38(1):65-74.
25. Chen X, etal., J Infect Dis. 2009 Aug 1;200(3):399-408.
26. Chen YC, etal., BMC Med Genet. 2010 Jan 30;11:17.
27. Chung SH, etal., Clin Immunol. 2009 Apr;131(1):170-7.
28. Claeys S, etal., Clin Exp Allergy. 2005 Apr;35(4):467-72.
29. Cook EB, etal., Ann Allergy Asthma Immunol. 2005 Apr;94(4):486-97.
30. Correa-Costa M, etal., PLoS One. 2011;6(12):e29004. doi: 10.1371/journal.pone.0029004. Epub 2011 Dec 14.
31. De Re V, etal., Oncotarget. 2016 Jun 21;7(25):37487-37497. doi: 10.18632/oncotarget.9303.
32. Dessing MC, etal., PLoS One. 2009 Nov 24;4(11):e7993.
33. Devaraj S, etal., Arterioscler Thromb Vasc Biol. 2011 Aug;31(8):1796-804. doi: 10.1161/ATVBAHA.111.228924. Epub 2011 May 26.
34. Devaraj S, etal., J Clin Endocrinol Metab. 2008 Feb;93(2):578-83. Epub 2007 Nov 20.
35. Ekman AK, etal., Int Arch Allergy Immunol. 2012;159(1):6-14. doi: 10.1159/000335196. Epub 2012 Apr 27.
36. Fang J, etal., Invest Ophthalmol Vis Sci. 2013 Dec 30;54(13):8384-92. doi: 10.1167/iovs.13-12878.
37. Farrar CA, etal., FASEB J. 2012 Feb;26(2):799-807. doi: 10.1096/fj.11-195396. Epub 2011 Oct 31.
38. Fathy A, etal., Egypt J Immunol. 2009;16(1):127-34.
39. Forte A, etal., Cardiovasc Drugs Ther. 2012 Feb;26(1):9-21. doi: 10.1007/s10557-011-6359-8.
40. Fransson M, etal., Respir Res. 2005 Sep 7;6:100.
41. Froy O, etal., Mol Immunol. 2007 Feb;44(5):796-802. Epub 2006 Jun 5.
42. Fuchs B, etal., Int Arch Allergy Immunol. 2010;152(2):131-9. Epub 2009 Dec 16.
43. Fujimoto T, etal., Invest Ophthalmol Vis Sci. 2010 Sep;51(9):4694-702. doi: 10.1167/iovs.09-4464. Epub 2010 Apr 14.
44. Gabrilovich MI, etal., Clin Exp Immunol. 2013 Sep;173(3):512-22. doi: 10.1111/cei.12138.
45. Gao HK, etal., Inflamm Res. 2009 Mar 10.
46. Garcia-Rodriguez S, etal., J Eur Acad Dermatol Venereol. 2013 Feb;27(2):242-50.
47. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
48. Gillette-Ferguson I, etal., Infect Immun. 2007 Dec;75(12):5908-15. Epub 2007 Sep 17.
49. Guo H, etal., Immunol Cell Biol. 2012 Mar;90(3):352-7. doi: 10.1038/icb.2011.49. Epub 2011 Jun 7.
50. Guo LH, etal., Biochem Biophys Res Commun. 2006 Oct 27;349(3):1156-62. Epub 2006 Sep 1.
51. Hajishengallis G, etal., J Immunol. 2008 Sep 15;181(6):4141-9.
52. Han F, etal., Infect Immun. 2009 Jul;77(7):3100-8. doi: 10.1128/IAI.00204-09. Epub 2009 May 4.
53. Hasannejad H, etal., J Allergy Clin Immunol. 2007 Jul;120(1):69-75. Epub 2007 May 25.
54. He C, etal., Mol Vis. 2011;17:2605-11. Epub 2011 Oct 5.
55. Himes RW and Smith CW, FASEB J. 2010 Mar;24(3):731-9. doi: 10.1096/fj.09-141929. Epub 2009 Oct 19.
56. Hirai H, etal., Int J Pediatr Otorhinolaryngol. 2013 May;77(5):674-6. doi: 10.1016/j.ijporl.2013.01.010. Epub 2013 Feb 4.
57. Hoffmann U, etal., Nephrol Dial Transplant. 2011 Mar;26(3):1080-7. doi: 10.1093/ndt/gfq420. Epub 2010 Jul 13.
58. Huang Z, etal., Antiviral Res. 2015 Jun;118:10-9. doi: 10.1016/j.antiviral.2015.03.004. Epub 2015 Mar 12.
59. Hubschle T, etal., Am J Physiol Regul Integr Comp Physiol. 2006 Jan;290(1):R180-7. Epub 2005 Sep 8.
60. Hunger RE, etal., Br J Dermatol. 2008 Apr;158(4):691-7. doi: 10.1111/j.1365-2133.2007.08425.x. Epub 2008 Jan 30.
61. Hussein YM, etal., Cell Immunol. 2012;274(1-2):34-8. doi: 10.1016/j.cellimm.2012.02.006. Epub 2012 Feb 17.
62. Ichiki H, etal., J Cardiol. 2009 Feb;53(1):127-35. doi: 10.1016/j.jjcc.2008.09.008. Epub 2008 Nov 25.
63. Ionescu MA, etal., G Ital Dermatol Venereol. 2011 Jun;146(3):185-9.
64. Jesic S, etal., Ann Otol Rhinol Laryngol. 2014 Apr 1.
65. Ji L, etal., FEBS Lett. 2014 Jun 5;588(12):2095-100. doi: 10.1016/j.febslet.2014.04.042. Epub 2014 May 8.
66. Jie Zhao, etal., Innate Immun. 2009 Jun;15(3):155-68.
67. Jin X, etal., Curr Eye Res. 2008 Apr;33(4):319-24. doi: 10.1080/02713680802008238.
68. Jin X, etal., Eur J Clin Microbiol Infect Dis. 2010 Feb;29(2):231-8. doi: 10.1007/s10096-009-0844-z. Epub 2009 Dec 13.
69. Jing K and Sun M, Zhongguo Dang Dai Er Ke Za Zhi. 2011 Dec;13(12):985-8.
70. J├Ąckel S, etal., Blood. 2017 Jul 27;130(4):542-553. doi: 10.1182/blood-2016-11-754416. Epub 2017 Jun 1.
71. Kajiya T, etal., J Infect. 2008 Sep;57(3):249-59. Epub 2008 Jul 26.
72. Kang I, etal., Eur Arch Otorhinolaryngol. 2010 Mar;267(3):385-9. Epub 2009 Sep 18.
73. Karaca N, etal., J Eur Acad Dermatol Venereol. 2013 Jan;27(1):e85-90. doi: 10.1111/j.1468-3083.2012.04514.x. Epub 2012 Mar 16.
74. Kerber-Momot T, etal., Inflammation. 2010 Feb;33(1):58-64.
75. Kerkhof M, etal., Thorax. 2010 Aug;65(8):690-7.
76. Khan AM, etal., Peptides. 2012 Dec;38(2):395-403. doi: 10.1016/j.peptides.2012.09.023. Epub 2012 Sep 28.
77. Kielian T, etal., Infect Immun. 2005 Nov;73(11):7428-35.
78. Kim BS, etal., Transplantation. 2005 May 27;79(10):1370-7.
79. Kim D, etal., J Biol Chem. 2007 May 18;282(20):14975-83. Epub 2007 Mar 13.
80. Kim GT, etal., Clin Rheumatol. 2010 Mar;29(3):273-9. doi: 10.1007/s10067-009-1316-7. Epub 2009 Dec 2.
81. Kim HS, etal., Immunity. 2007 Aug;27(2):321-33. Epub 2007 Aug 16.
82. Knorr C, etal., Brain Res. 2008 Apr 18;1205:36-46. Epub 2008 Feb 21.
83. Koc M, etal., Nephrol Dial Transplant. 2011 Mar;26(3):955-63. doi: 10.1093/ndt/gfq500. Epub 2010 Aug 20.
84. Kong SL, etal., Virus Res. 2009 Nov;145(2):260-9. Epub 2009 Jul 25.
85. Kumar A, etal., J Infect Dis. 2010 Jan 15;201(2):255-63. doi: 10.1086/649589.
86. Kumar H, etal., Int Rev Immunol. 2011 Feb;30(1):16-34.
87. Kurt-Jones EA, etal., Proc Natl Acad Sci U S A. 2004 Feb 3;101(5):1315-20. Epub 2004 Jan 22.
88. Kwok YH, etal., PLoS One. 2013 Oct 30;8(10):e77799. doi: 10.1371/journal.pone.0077799. eCollection 2013.
89. Leemans JC, etal., PLoS One. 2009 May 27;4(5):e5704. doi: 10.1371/journal.pone.0005704.
90. Leendertse M, etal., J Immunol. 2008 Apr 1;180(7):4865-74.
91. Leichtle A, etal., Innate Immun. 2009 Aug;15(4):205-15. doi: 10.1177/1753425909103170. Epub 2009 Jul 8.
92. Li HY, etal., Zhongguo Wei Zhong Bing Ji Jiu Yi Xue 2003 Mar;15(3):139-42.
93. Li SL, etal., Zhonghua Er Bi Yan Hou Tou Jing Wai Ke Za Zhi. 2011 Dec;46(12):1009-18.
94. Li X, etal., Toxicol Lett. 2016 Nov 2;261:1-12. doi: 10.1016/j.toxlet.2016.09.002. Epub 2016 Sep 4.
95. Lim SW, etal., Transplantation. 2005 Sep 15;80(5):691-9.
96. Lin H, etal., Hepatology. 2013 Jan;57(1):171-82. doi: 10.1002/hep.25991.
97. Lin Y, etal., Front Immunol. 2018 Jun 29;9:1495. doi: 10.3389/fimmu.2018.01495. eCollection 2018.
98. Lin YC, etal., Biochem Biophys Res Commun. 2018 Feb 12;496(3):880-886. doi: 10.1016/j.bbrc.2018.01.132. Epub 2018 Jan 31.
99. Liu QS, etal., Transplant Proc. 2015 Mar;47(2):283-9. doi: 10.1016/j.transproceed.2014.10.045.
100. Liu S, etal., Shock. 2000 Sep;14(3):361-5.
101. Liu X, etal., Atherosclerosis. 2008 Jan;196(1):146-54. Epub 2007 Apr 26.
102. Liu X, etal., Invest Ophthalmol Vis Sci. 2013 Sep 5;54(9):6012-7. doi: 10.1167/iovs.13-12159.
103. Liu Y, etal., Am J Physiol Gastrointest Liver Physiol. 2009 Sep;297(3):G442-50. Epub 2009 Jul 16.
104. Lu X, etal., Int J Clin Exp Pathol. 2014 Aug 15;7(9):6048-55. eCollection 2014.
105. Lu ZQ, etal., Zhonghua Yi Xue Za Zhi. 2009 Jan 13;89(2):138-41.
106. Ma HD, etal., J Autoimmun. 2018 Dec;95:47-57. doi: 10.1016/j.jaut.2018.09.010. Epub 2018 Oct 17.
107. Mandal RK, etal., Mol Biol Rep. 2012 Jul;39(7):7263-9. doi: 10.1007/s11033-012-1556-5. Epub 2012 Feb 6.
108. Maslinska D, etal., Folia Neuropathol. 2004;42(3):125-32.
109. Matsui T, etal., Intensive Care Med. 2012 Aug;38(8):1392-9. doi: 10.1007/s00134-012-2591-3. Epub 2012 Jun 1.
110. MGD data from the GO Consortium
111. Milanski M, etal., J Neurosci. 2009 Jan 14;29(2):359-70.
112. Millan-Chiu BE, etal., FEMS Immunol Med Microbiol. 2011 Apr;61(3):278-87. doi: 10.1111/j.1574-695X.2010.00775.x. Epub 2011 Jan 31.
113. Mohamed IN, etal., Acta Histochem. 2018 Apr;120(3):242-254. doi: 10.1016/j.acthis.2018.02.006. Epub 2018 Feb 23.
114. Moradkhani MA, etal., Comp Immunol Microbiol Infect Dis. 2019 Oct;66:101336. doi: 10.1016/j.cimid.2019.101336. Epub 2019 Jul 24.
115. Mottahedin A, etal., J Cereb Blood Flow Metab. 2017 Apr;37(4):1192-1198. doi: 10.1177/0271678X17691292. Epub 2017 Jan 1.
116. Murawski MR, etal., J Virol. 2009 Feb;83(3):1492-500. Epub 2008 Nov 19.
117. Murray HW, etal., Infect Immun. 2013 Jul;81(7):2318-26. doi: 10.1128/IAI.01468-12. Epub 2013 Apr 15.
118. Nara K, etal., Clin Exp Immunol. 2008 May;152(2):245-51. doi: 10.1111/j.1365-2249.2008.03626.x. Epub 2008 Mar 10.
119. Nischalke HD, etal., Int J Cancer. 2012 Mar 15;130(6):1470-5. doi: 10.1002/ijc.26143. Epub 2011 Jun 18.
120. Novosad BD, etal., PLoS One. 2011;6(12):e28619. doi: 10.1371/journal.pone.0028619. Epub 2011 Dec 6.
121. Oh DY, etal., Allergy. 2009 Nov;64(11):1608-15. doi: 10.1111/j.1398-9995.2009.02066.x. Epub 2009 Jul 21.
122. Ohno S, etal., J Dermatol. 2011 Apr;38(4):335-44.
123. OMIM Disease Annotation Pipeline
124. Park CS, etal., Otolaryngol Head Neck Surg. 2011 Jan;144(1):96-100. doi: 10.1177/0194599810390881.
125. Park Y, etal., Ann N Y Acad Sci. 2004 Dec;1037:170-4.
126. Paul-Clark MJ, etal., Am J Respir Crit Care Med. 2009 Feb 15;179(4):299-306. Epub 2008 Nov 14.
127. Paun A, etal., Int J Radiat Oncol Biol Phys. 2010 Jul 15;77(4):1198-205.
128. Pietrzak A, etal., Mediators Inflamm. 2011;2011:427473. doi: 10.1155/2011/427473. Epub 2011 May 2.
129. Pipeline to import KEGG annotations from KEGG into RGD
130. Puliti M, etal., Infect Immun. 2009 Apr;77(4):1524-31. doi: 10.1128/IAI.00965-08. Epub 2009 Jan 29.
131. Qian FH, etal., J Investig Allergol Clin Immunol. 2010;20(4):340-6.
132. Redfern RL, etal., Invest Ophthalmol Vis Sci. 2013 Feb 28;54(2):1554-63. doi: 10.1167/iovs.12-10739.
133. RGD automated data pipeline
134. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
135. RGD automated import pipeline for gene-chemical interactions
136. Rojo-Botello NR, etal., J Periodontal Res. 2012 Feb;47(1):62-73. doi: 10.1111/j.1600-0765.2011.01405.x. Epub 2011 Aug 17.
137. Rosenzweig HL, etal., Arthritis Rheum. 2010 Apr;62(4):1051-9. doi: 10.1002/art.27335.
138. Rusai K, etal., Pediatr Nephrol. 2010 May;25(5):853-60. doi: 10.1007/s00467-009-1422-4. Epub 2010 Feb 4.
139. Salpietro C, etal., Int J Immunopathol Pharmacol. 2011 Oct;24(4 Suppl):33-40.
140. Santin I, etal., Ann N Y Acad Sci. 2006 Oct;1079:268-72.
141. Sarangi PP, etal., J Virol. 2007 Oct;81(20):11128-38. Epub 2007 Aug 8.
142. Sawa H, etal., Hepatogastroenterology. 2008 Nov-Dec;55(88):2247-51.
143. Shan JY, etal., Parasite Immunol. 2011 Dec;33(12):692-6. doi: 10.1111/j.1365-3024.2011.01335.x.
144. Shi XQ, etal., Glia. 2011 Feb;59(2):231-41. doi: 10.1002/glia.21093.
145. Shi YJ, etal., Mol Med Rep. 2013 Aug;8(2):480-6. doi: 10.3892/mmr.2013.1511. Epub 2013 Jun 6.
146. Si Y, etal., Zhonghua Er Bi Yan Hou Tou Jing Wai Ke Za Zhi. 2012 May;47(5):388-93.
147. Silva MA, etal., Inflamm Bowel Dis. 2008 May;14(5):632-44.
148. Singh V, etal., Arch Med Res. 2013 Jan;44(1):54-61. doi: 10.1016/j.arcmed.2012.10.008. Epub 2012 Nov 6.
149. Smit LA, etal., Am J Respir Crit Care Med. 2009 Mar 1;179(5):363-8. Epub 2008 Dec 18.
150. Summers SA, etal., Arthritis Rheum. 2011 Apr;63(4):1124-35. doi: 10.1002/art.30208.
151. Sun Y, etal., Am J Rhinol Allergy. 2012 Mar-Apr;26(2):104-9. doi: 10.2500/ajra.2012.26.3718. Epub 2011 Dec 16.
152. Sun Y, etal., Infect Immun. 2006 Sep;74(9):5325-32.
153. Tabel Y, etal., Int J Immunogenet. 2007 Dec;34(6):399-405.
154. Tang CW, etal., Zhonghua Jie He He Hu Xi Za Zhi. 2011 Feb;34(2):123-7.
155. Tewfik MA, etal., J Otolaryngol Head Neck Surg. 2008 Aug;37(4):552-8.
156. Theodoropoulos GE, etal., Breast. 2012 Aug;21(4):534-8. doi: 10.1016/j.breast.2012.04.001. Epub 2012 May 2.
157. Tian LM, etal., Dermatology. 2010;221(3):276-84. doi: 10.1159/000319851.
158. Tokairin Y, etal., Respirology. 2008 May;13(3):324-32.
159. Tomofuji T, etal., Lipids Health Dis. 2013 Jan 8;12(1):1.
160. Tu CT, etal., Food Chem Toxicol. 2012 Sep;50(9):3343-51. doi: 10.1016/j.fct.2012.05.050. Epub 2012 Jun 7.
161. Tullos NA, etal., Curr Eye Res. 2013 Oct;38(10):1036-48. doi: 10.3109/02713683.2013.804094. Epub 2013 Jul 10.
162. Tuon FF, etal., J Dermatol Sci. 2010 Jul;59(1):55-7. doi: 10.1016/j.jdermsci.2010.04.009. Epub 2010 May 20.
163. van Well GT, etal., PLoS One. 2012;7(5):e35837. doi: 10.1371/journal.pone.0035837. Epub 2012 May 25.
164. van Well GT, etal., PLoS One. 2013 May 14;8(5):e64252. doi: 10.1371/journal.pone.0064252. Print 2013.
165. Vanhinsbergh LJ, etal., Ann Allergy Asthma Immunol. 2007 Dec;99(6):509-16. doi: 10.1016/S1081-1206(10)60379-1.
166. Velez DR, etal., Int J Tuberc Lung Dis. 2009 Sep;13(9):1068-76.
167. Wang CS and Dong Z, Zhonghua Er Bi Yan Hou Ke Za Zhi. 2003 Aug;38(4):243-6.
168. Wang S, etal., Dis Model Mech. 2010 Jan-Feb;3(1-2):92-103. doi: 10.1242/dmm.003533. Epub 2009 Dec 28.
169. Wang SH, etal., Microbes Infect. 2008 Apr;10(4):334-41. Epub 2007 Dec 28.
170. Welsch J, etal., Innate Immun. 2012 Jun;18(3):541-59. doi: 10.1177/1753425911426892. Epub 2011 Oct 31.
171. Wiken M, etal., Respir Res. 2010 Sep 2;11:121.
172. Wolfs TG, etal., J Immunol. 2002 Feb 1;168(3):1286-93.
173. Wu HS, etal., Hepatobiliary Pancreat Dis Int. 2005 Nov;4(4):609-13.
174. Wu Q, etal., Am J Respir Crit Care Med. 2008 Apr 1;177(7):720-9. Epub 2008 Jan 17.
175. Xue Y, etal., Clin Chem Lab Med. 2010 Jun;48(6):785-9.
176. Yang HZ, etal., J Immunol. 2009 Jan 1;182(1):692-702.
177. Yang JX, etal., Chin Med J (Engl). 2009 Sep 5;122(17):2017-21.
178. Yang QL, etal., Parasit Vectors. 2017 Aug 7;10(1):379. doi: 10.1186/s13071-017-2318-y.
179. Yao YM, etal., Zhongguo Wei Zhong Bing Ji Jiu Yi Xue. 2003 Nov;15(11):646-50.
180. Yim JJ, etal., Hum Immunol. 2008 Sep;69(9):572-6. Epub 2008 Jul 3.
181. Zhan R, etal., Infect Immun. 2015 Apr;83(4):1641-9. doi: 10.1128/IAI.02870-14. Epub 2015 Feb 9.
182. Zhang JX, etal., World J Gastroenterol. 2005 Jul 28;11(28):4423-6. doi: 10.3748/wjg.v11.i28.4423.
183. Zhang L, etal., Zhongguo Wei Zhong Bing Ji Jiu Yi Xue. 2006 Mar;18(3):161-4.
184. Zhang ZY, etal., Neuroscience. 2009 Mar 3;159(1):136-42. Epub 2009 Jan 1.
185. Zheng XY, etal., Chin J Integr Med. 2012 Dec;18(12):918-24. doi: 10.1007/s11655-012-1295-1. Epub 2012 Dec 13.
186. Zhou C, etal., J Zhejiang Univ Sci B. 2008 Apr;9(4):279-85. doi: 10.1631/jzus.B0730029.
187. Zhu W, etal., Mol Biol Rep. 2012 Apr;39(4):3667-73. doi: 10.1007/s11033-011-1141-3. Epub 2011 Jul 3.
188. Zhu Y, etal., Mol Vis. 2013 Aug 6;19:1826-33. eCollection 2013.
189. Zuo WQ, etal., Zhonghua Er Ke Za Zhi. 2010 Jan;48(1):19-23.
Additional References at PubMed
PMID:10384090   PMID:10549626   PMID:11067888   PMID:11274165   PMID:11521063   PMID:11672593   PMID:11986301   PMID:12091878   PMID:12443841   PMID:12594207   PMID:12719478   PMID:15220916  
PMID:15294986   PMID:15356140   PMID:15690042   PMID:16177377   PMID:16489656   PMID:16601243   PMID:16879708   PMID:16880211   PMID:16949315   PMID:16954392   PMID:17027917   PMID:17053043  
PMID:17114491   PMID:17128265   PMID:17417665   PMID:17460566   PMID:17600044   PMID:17889651   PMID:17971865   PMID:18204298   PMID:18261938   PMID:18319620   PMID:18592153   PMID:19047410  
PMID:19115402   PMID:19139201   PMID:19326394   PMID:19454685   PMID:19509287   PMID:19527807   PMID:19740627   PMID:19770268   PMID:19861264   PMID:19930876   PMID:19931471   PMID:20020500  
PMID:20023008   PMID:20113783   PMID:20421349   PMID:20441518   PMID:20534434   PMID:20628242   PMID:20665543   PMID:20717659   PMID:20945380   PMID:21109260   PMID:21343866   PMID:21618349  
PMID:21870333   PMID:21875662   PMID:22033934   PMID:22067617   PMID:22099754   PMID:22198949   PMID:22242189   PMID:22402367   PMID:22523073   PMID:23155421   PMID:23447644   PMID:23656243  
PMID:23817958   PMID:23826189   PMID:24082081   PMID:24091496   PMID:24423688   PMID:24660535   PMID:24846408   PMID:24871424   PMID:24966901   PMID:25224460   PMID:25465639   PMID:25530127  
PMID:25534427   PMID:25780291   PMID:25800037   PMID:25931256   PMID:25990971   PMID:26436391   PMID:26475712   PMID:26477714   PMID:26649771   PMID:26744383   PMID:26898123   PMID:26962463  
PMID:27107801   PMID:27108485   PMID:27312383   PMID:27391866   PMID:28078022   PMID:28243080   PMID:28257481   PMID:28293064   PMID:28432060   PMID:28822965   PMID:28889066   PMID:29536648  
PMID:30031930   PMID:30107238   PMID:30222725   PMID:30480410   PMID:31002842   PMID:31678237   PMID:32377693   PMID:32879625   PMID:33652137   PMID:34015428  


Genomics

Candidate Gene Status
Tlr2 is a candidate Gene for QTL Iddm54
Comparative Map Data
Tlr2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22169,200,620 - 169,206,819 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl2169,197,419 - 169,206,630 (-)Ensembl
Rnor_6.02182,840,171 - 182,846,061 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2182,840,727 - 182,846,061 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02202,252,701 - 202,258,962 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42175,607,990 - 175,613,992 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12175,558,096 - 175,564,098 (-)NCBI
Celera2163,202,040 - 163,207,399 (-)NCBICelera
Cytogenetic Map2q34NCBI
TLR2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl4153,684,070 - 153,706,260 (+)EnsemblGRCh38hg38GRCh38
GRCh384153,684,080 - 153,710,643 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh374154,605,432 - 154,627,412 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 364154,824,891 - 154,846,693 (+)NCBINCBI36hg18NCBI36
Build 344154,966,670 - 154,984,135NCBI
Celera4151,929,928 - 151,951,730 (+)NCBI
Cytogenetic Map4q31.3NCBI
HuRef4150,336,457 - 150,358,268 (+)NCBIHuRef
CHM1_14154,583,811 - 154,605,614 (+)NCBICHM1_1
Tlr2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39383,743,579 - 83,749,045 (-)NCBIGRCm39mm39
GRCm39 Ensembl383,743,579 - 83,749,074 (-)Ensembl
GRCm38383,836,272 - 83,841,824 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl383,836,272 - 83,841,767 (-)EnsemblGRCm38mm10GRCm38
MGSCv37383,640,194 - 83,645,530 (-)NCBIGRCm37mm9NCBIm37
MGSCv36383,922,199 - 83,927,694 (-)NCBImm8
Celera383,852,064 - 83,857,400 (-)NCBICelera
Cytogenetic Map3E3NCBI
Tlr2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554718,014,910 - 8,017,258 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554718,011,710 - 8,019,063 (+)NCBIChiLan1.0ChiLan1.0
TLR2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.14157,848,058 - 157,870,324 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl4157,866,977 - 157,869,331 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v04146,024,653 - 146,091,388 (+)NCBIMhudiblu_PPA_v0panPan3
TLR2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11551,454,557 - 51,465,429 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1551,454,695 - 51,465,241 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1551,808,717 - 51,811,083 (+)NCBI
ROS_Cfam_1.01552,140,775 - 52,151,566 (+)NCBI
UMICH_Zoey_3.11551,404,786 - 51,407,152 (+)NCBI
UNSW_CanFamBas_1.01551,510,608 - 51,512,974 (+)NCBI
UU_Cfam_GSD_1.01551,821,784 - 51,824,151 (+)NCBI
Tlr2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530139,016,995 - 39,024,812 (-)NCBI
SpeTri2.0NW_004936576522,234 - 531,660 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TLR2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl875,411,991 - 75,446,850 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1875,416,257 - 75,428,370 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2879,823,867 - 79,834,881 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TLR2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.17100,239,533 - 100,565,955 (+)NCBI
ChlSab1.1 Ensembl7100,258,441 - 100,260,795 (+)Ensembl
Vero_WHO_p1.0NW_02366603779,891,761 - 79,956,832 (+)NCBI
Tlr2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248584,931,820 - 4,984,175 (+)NCBI

Position Markers
RH144365  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22169,201,531 - 169,201,724 (+)MAPPERmRatBN7.2
Rnor_6.02182,841,083 - 182,841,275NCBIRnor6.0
Rnor_5.02202,253,613 - 202,253,805UniSTSRnor5.0
RGSC_v3.42175,608,347 - 175,608,539UniSTSRGSC3.4
Celera2163,202,397 - 163,202,589UniSTS
RH 3.4 Map21105.2UniSTS
Cytogenetic Map2q34UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2293843Kiddil6Kidney dilation QTL 63.1kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)242804607182042367Rat
1598805Memor8Memory QTL 83exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)2150341585189039377Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2135552573202446871Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2135552573202446871Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2135552573202446871Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)2135552573202446871Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)2135552573202446871Rat
71113Cari2Carrageenan-induced inflammation QTL 22.70.009hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)2141596551202447032Rat
631266Bp132Blood pressure QTL 1320.0005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)246123260202447032Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)243154682202446871Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)243154682202446871Rat
724534Uae6Urinary albumin excretion QTL 610urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)278665619249053267Rat
724568Uae13Urinary albumin excretion QTL 134.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)2143157029210020885Rat
1331734Bp204Blood pressure QTL 2043.61192arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2168358098223265385Rat
1331760Bp206Blood pressure QTL 2063.62454arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)256043031202447032Rat
1298074Bp164Blood pressure QTL 1640.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242804607202447032Rat
1298076Bp166Blood pressure QTL 1660.0009arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2136445150202447032Rat
1298080Bp163Blood pressure QTL 1630.02arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118275202447032Rat
1298085Bp165Blood pressure QTL 1650.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242804607202447032Rat
1331794Bp202Blood pressure QTL 2023.66819arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2141194931223265385Rat
1331805Cm29Cardiac mass QTL 293.50746heart mass (VT:0007028)heart wet weight (CMO:0000069)2141194931223265385Rat
2307174Activ3Activity QTL 34.830.000058locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)2168594495213594495Rat
1581502Esta3Estrogen-induced thymic atrophy QTL 3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)2136916935189599348Rat
631501Bp101Blood pressure QTL 1012.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2150341684202446871Rat
631507Bp105Blood pressure QTL 1050.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2112456140212696837Rat
1302793Bw16Body weight QTL 1650.0001body mass (VT:0001259)body weight (CMO:0000012)2157142209202446871Rat
1641891Alcrsp17Alcohol response QTL 17response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2149559561249053267Rat
1641925Alcrsp2Alcohol response QTL 2response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2149559561221167075Rat
1581569Uae32Urinary albumin excretion QTL 320.0001urine protein amount (VT:0005160)urine albumin excretion rate (CMO:0000757)278665619219826953Rat
1598833Bp295Blood pressure QTL 2953.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2147798556192798556Rat
1598838Bp290Blood pressure QTL 2901.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2166539266211539266Rat
2301415Cm67Cardiac mass QTL 670.003heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)2152413072175950118Rat
634308Sach6Saccharin preference QTL 64.9taste sensitivity trait (VT:0001986)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)2112456140212696837Rat
1358356Srcrt1Stress Responsive Cort QTL13.66blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)2161699179222436696Rat
1578648Bss11Bone structure and strength QTL 114.7femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)2114837527211674221Rat
1300165Rf9Renal function QTL 93.28kidney glomerulus integrity trait (VT:0010546)index of glomerular damage (CMO:0001135)2133914684202447032Rat
1354601Slep1Serum leptin concentration QTL 15.39blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)243171017184114403Rat
1354605Rf48Renal function QTL 482.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)274786664206665859Rat
1354609Niddm62Non-insulin dependent diabetes mellitus QTL 624.720.000006insulin secretion trait (VT:0003564)plasma insulin level (CMO:0000342)2150540301202447032Rat
1354622Kidm16Kidney mass QTL 163kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)281754530222436696Rat
1354648Bp239Blood pressure QTL 2390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118463226797303Rat
1354649Kidm17Kidney mass QTL 172.9kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)281754530227146641Rat
2301966Bp322Blood pressure QTL 3223.58arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2150540301202447032Rat
1359022Ppulsi1Prepulse inhibition QTL 13.63prepulse inhibition trait (VT:0003088)acoustic startle response measurement (CMO:0001519)2136916935213594495Rat
1549833Bp257Blood pressure QTL 2570.003arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2168354880185122374Rat
1554319Bmd2Bone mineral density QTL 213.40.0001lumbar vertebra area (VT:0010570)lumbar vertebra cross-sectional area (CMO:0001689)2114837675212549332Rat
2306901Bp337Blood pressure QTL 3370.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2164073756227146641Rat
1358900Bw48Body weight QTL 484.88body mass (VT:0001259)body weight (CMO:0000012)2157142078211086598Rat
1358913Cm41Cardiac mass QTL 412.73heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
1358917Cm42Cardiac mass QTL 422.82heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
1359030Bp277Blood pressure QTL 277arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2114837527185876470Rat
1359030Bp277Blood pressure QTL 277arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2114837527185876470Rat
1359032Hrtrt18Heart rate QTL 18heart pumping trait (VT:2000009)heart rate (CMO:0000002)2157142078192625452Rat
61374Edpm2Estrogen-dependent pituitary mass QTL 24.420.86pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)276539322202447032Rat
61401Niddm2Non-insulin dependent diabetes mellitus QTL 24.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2144599348189599348Rat
6903312Bw112Body weight QTL 1123.20.0013body mass (VT:0001259)body weight (CMO:0000012)2143657569184114274Rat
6907363Bp357Blood pressure QTL 3574.10.002arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2129540907174540907Rat
7488925Bp364Blood pressure QTL 3640.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2160564068205564068Rat
7488927Bp365Blood pressure QTL 3650.008arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2162765032207765032Rat
8662843Vetf9Vascular elastic tissue fragility QTL 92.05thoracic aorta molecular composition trait (VT:0010568)aorta wall extracellular elastin dry weight to aorta wall extracellular collagen weight ratio (CMO:0002003)2157142078226277316Rat
8662832Vetf7Vascular elastic tissue fragility QTL 73.5aorta elastin amount (VT:0003905)aorta wall extracellular elastin dry weight to aorta wall dry weight ratio (CMO:0002002)281689826221035911Rat
10043136Iddm54Insulin dependent diabetes mellitus QTL 543.40.0001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2143657411190602963Rat
10043136Iddm54Insulin dependent diabetes mellitus QTL 543.40.0001blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)2143657411190602963Rat
12879846Cm90Cardiac mass QTL 900.011heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)2152413072175950118Rat
12879836Kidm61Kidney mass QTL 610.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)2152413072185122374Rat
12879839Cm85Cardiac mass QTL 850.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)2152413072185122374Rat
11565181Bw176Body weight QTL 1760.002body mass (VT:0001259)body weight (CMO:0000012)2152413072175950118Rat
12879838Cm86Cardiac mass QTL 860.002heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)2152413072185122374Rat
12879840Bw179Body weight QTL 1790.005body mass (VT:0001259)body weight (CMO:0000012)2152413072185122374Rat
12879845Cm89Cardiac mass QTL 890.008heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)2152413072175950118Rat
11565180Kidm56Kidney mass QTL 560.003kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)2152413072175950118Rat
12879837Am2Aortic mass QTL 20.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)2152413072185122374Rat
12879847Am4Aortic mass QTL 40.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)2152413072175950118Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:121
Count of miRNA genes:103
Interacting mature miRNAs:108
Transcripts:ENSRNOT00000013025
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 8 19 3 5
Low 3 43 45 37 37 8 10 74 35 34 6 8
Below cutoff 4 4 4 1 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000013025   ⟹   ENSRNOP00000013025
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2169,198,149 - 169,206,630 (-)Ensembl
Rnor_6.0 Ensembl2182,840,727 - 182,846,061 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000097289   ⟹   ENSRNOP00000095767
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2169,197,419 - 169,206,630 (-)Ensembl
RefSeq Acc Id: NM_198769   ⟹   NP_942064
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22169,201,175 - 169,206,545 (-)NCBI
Rnor_6.02182,840,726 - 182,846,061 (-)NCBI
Rnor_5.02202,252,701 - 202,258,962 (-)NCBI
RGSC_v3.42175,607,990 - 175,613,992 (-)RGD
Celera2163,202,040 - 163,207,399 (-)RGD
Sequence:
RefSeq Acc Id: XM_008761102   ⟹   XP_008759324
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22169,200,620 - 169,206,819 (-)NCBI
Rnor_6.02182,840,171 - 182,846,006 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_942064   ⟸   NM_198769
- Peptide Label: precursor
- UniProtKB: Q6YGU2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008759324   ⟸   XM_008761102
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000013025   ⟸   ENSRNOT00000013025
RefSeq Acc Id: ENSRNOP00000095767   ⟸   ENSRNOT00000097289
Protein Domains
TIR

Transcriptome

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

Promoters
RGD ID:13691399
Promoter ID:EPDNEW_R1924
Type:initiation region
Name:Tlr2_1
Description:toll-like receptor 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_6.02182,846,087 - 182,846,147EPDNEW

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)
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 (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
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
MWF/Hsd (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
PVG/Seac (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
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
SHR/OlalpcvMcwi (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
SHRSP/A3NCrl (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
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 (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: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (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
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
WAG/RijCrl (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: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (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
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 (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
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 (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
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:735138 AgrOrtholog
Ensembl Genes ENSRNOG00000009822 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000013025 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000013025 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.10140 UniProtKB/TrEMBL
  3.80.10.10 UniProtKB/TrEMBL
InterPro Cys-rich_flank_reg_C UniProtKB/TrEMBL
  L_dom-like UniProtKB/TrEMBL
  Leu-rich_rpt UniProtKB/TrEMBL
  Leu-rich_rpt_typical-subtyp UniProtKB/TrEMBL
  TLR2 UniProtKB/TrEMBL
  Toll-Interleukin_rcpt UniProtKB/TrEMBL
  Toll-like_receptor UniProtKB/TrEMBL
  Toll_tir_struct_dom_sf UniProtKB/TrEMBL
KEGG Report rno:310553 UniProtKB/TrEMBL
NCBI Gene 310553 ENTREZGENE
PANTHER PTHR24365 UniProtKB/TrEMBL
  PTHR24365:SF17 UniProtKB/TrEMBL
Pfam LRR_8 UniProtKB/TrEMBL
  TIR UniProtKB/TrEMBL
PhenoGen Tlr2 PhenoGen
PIRSF Toll-like_receptor UniProtKB/TrEMBL
PROSITE LRR UniProtKB/TrEMBL
  TIR UniProtKB/TrEMBL
SMART LRR_TYP UniProtKB/TrEMBL
  LRRCT UniProtKB/TrEMBL
  TIR UniProtKB/TrEMBL
Superfamily-SCOP TIR UniProtKB/TrEMBL
UniProt E9PTD9_RAT UniProtKB/TrEMBL
  Q6YGU2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-10 Tlr2  toll-like receptor 2    toll-like receptor 2 variant 1  Name updated 1299863 APPROVED