Tlr9 (toll-like receptor 9) - Rat Genome Database

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Gene: Tlr9 (toll-like receptor 9) Mus musculus
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Symbol: Tlr9
Name: toll-like receptor 9
RGD ID: 1549988
MGI Page MGI
Description: Predicted to enable several functions, including interleukin-1 receptor binding activity; nucleic acid binding activity; and protein homodimerization activity. Involved in several processes, including positive regulation of intestinal epithelial cell development; positive regulation of macromolecule biosynthetic process; and regulation of defense response. Acts upstream of or within several processes, including cellular response to chloroquine; negative regulation of ERK1 and ERK2 cascade; and regulation of dendritic cell cytokine production. Located in cytoplasmic vesicle; endoplasmic reticulum; and plasma membrane. Is expressed in brain and intestine. Used to study systemic lupus erythematosus. Human ortholog(s) of this gene implicated in several diseases, including allergic bronchopulmonary aspergillosis; cystic fibrosis; glomerulonephritis (multiple); hepatitis B; and lung disease (multiple). Orthologous to human TLR9 (toll like receptor 9).
Type: protein-coding
RefSeq Status: VALIDATED
RGD Orthologs
Human
Rat
Chinchilla
Dog
Pig
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399106,099,797 - 106,104,075 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl9106,099,797 - 106,104,082 (+)EnsemblGRCm39 Ensembl
GRCm389106,222,598 - 106,226,876 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9106,222,598 - 106,226,883 (+)EnsemblGRCm38mm10GRCm38
MGSCv379106,124,929 - 106,129,207 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv369106,080,699 - 106,084,977 (+)NCBIMGSCv36mm8
Celera9105,848,890 - 105,853,167 (+)NCBICelera
Cytogenetic Map9F1NCBI
cM Map957.46NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
Achlorhydria  (ISO)
acute kidney failure  (IMP)
acute necrotizing pancreatitis  (ISO)
adult respiratory distress syndrome  (IMP)
alcoholic liver cirrhosis  (ISO)
allergic bronchopulmonary aspergillosis  (IMP,ISO)
allergic conjunctivitis  (ISO)
allergic rhinitis  (ISO)
anogenital venereal wart  (ISO)
asthma  (IMP,ISO)
bacterial pneumonia  (IMP)
Brain Injuries  (ISO)
breast cancer  (ISO)
bronchiolitis obliterans  (ISO)
cardiovascular system disease  (ISO)
cervix uteri carcinoma in situ  (ISO)
Chemical and Drug Induced Liver Injury  (IMP,ISO)
chronic granulomatous disease  (ISO)
Chronic Hepatitis B  (ISO)
Chronic Hepatitis C  (ISO)
chronic kidney disease  (ISS)
Chronic Periodontitis  (ISO)
congenital disorder of glycosylation In  (ISO)
crescentic glomerulonephritis  (IMP)
Crohn's disease  (ISO)
cutaneous leishmaniasis  (ISO)
cystic fibrosis  (ISO)
dermatomyositis  (ISO)
Experimental Autoimmune Neuritis  (ISO)
Granuloma, Foreign-Body  (ISO)
Hearing Loss  (ISO)
hepatitis B  (ISO)
hepatitis C  (ISO)
hepatocellular carcinoma  (ISO)
Herpes Simplex Encephalitis  (ISO)
herpes simplex virus keratitis  (IMP)
Hypergammaglobulinemia  (IMP)
IgA glomerulonephritis  (IAGP,IDA,IEP,ISO)
Inflammation  (ISO)
interstitial lung disease  (ISO)
Klebsiella Infections  (IMP)
Legionnaires' disease  (IMP)
Liver Injury  (IMP)
Lung Neoplasms  (ISO)
lung non-small cell carcinoma  (ISO)
lupus nephritis  (IDA,IEP,IMP,ISO)
Malarial Anemia  (ISO)
mastitis  (ISO)
membranoproliferative glomerulonephritis  (IEP)
metabolic dysfunction-associated steatohepatitis  (IEP)
metabolic dysfunction-associated steatotic liver disease  (IEP)
Oral Lichen Planus  (ISO)
papillomavirus infectious disease  (ISO)
perinatal necrotizing enterocolitis  (ISO)
Pneumococcal Infections  (IMP)
Pneumococcal Meningitis  (IEP)
primary biliary cholangitis  (ISO)
proteinuria  (IMP,ISO)
pulmonary fibrosis  (ISO)
pulmonary tuberculosis  (ISO)
renal cell carcinoma  (ISO)
Respiratory Sounds  (ISO)
Respiratory Tract Granuloma  (IMP,ISO)
Schistosomiasis Mansoni  (ISO)
sinusitis  (ISO)
squamous cell carcinoma  (ISO)
systemic lupus erythematosus  (IEP,IMP,ISO)
Tracheoesophageal Fistula  (ISO)
Transplant Rejection  (ISO)
Triple Negative Breast Neoplasms  (ISO)
trypanosomiasis  (IEP)
ureteral obstruction  (IEP)
viral pneumonia  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
activation of innate immune response  (IDA)
canonical NF-kappaB signal transduction  (IBA,IDA)
cellular response to chloroquine  (IDA)
cellular response to lipopolysaccharide  (IEA,ISO)
cellular response to metal ion  (IEA,ISO)
defense response to Gram-negative bacterium  (IEA,ISO)
defense response to virus  (IBA,IGI,ISO)
detection of molecule of bacterial origin  (IEA,ISO)
immune response  (IMP)
innate immune response  (TAS)
maintenance of gastrointestinal epithelium  (IMP)
male gonad development  (IEA,ISO)
microglial cell activation  (IEA,ISO)
MyD88-dependent toll-like receptor signaling pathway  (IPI)
negative regulation of ATPase-coupled calcium transmembrane transporter activity  (ISO)
negative regulation of ERK1 and ERK2 cascade  (IGI)
positive regulation of autophagy  (IEA,ISO)
positive regulation of B cell activation  (ISO,ISS)
positive regulation of B cell proliferation  (ISO,ISS)
positive regulation of canonical NF-kappaB signal transduction  (IEA,ISO)
positive regulation of chemokine production  (IEA,ISO)
positive regulation of cytokine production  (IDA)
positive regulation of gene expression  (ISO)
positive regulation of granulocyte macrophage colony-stimulating factor production  (IEA,ISO)
positive regulation of immunoglobulin production  (ISO,ISS)
positive regulation of interferon-alpha production  (ISO,ISS)
positive regulation of interferon-beta production  (IDA,ISO,ISS)
positive regulation of interleukin-10 production  (IDA)
positive regulation of interleukin-12 production  (IDA)
positive regulation of interleukin-18 production  (IDA)
positive regulation of interleukin-6 production  (IBA,IDA,ISO)
positive regulation of interleukin-8 production  (IEA,ISO)
positive regulation of intestinal epithelial cell development  (IMP)
positive regulation of JNK cascade  (IEA,ISO)
positive regulation of MAPK cascade  (ISO,ISS)
positive regulation of non-canonical NF-kappaB signal transduction  (IEA,ISO)
positive regulation of toll-like receptor 9 signaling pathway  (IMP)
positive regulation of transcription by RNA polymerase II  (IDA)
positive regulation of tumor necrosis factor production  (IDA,IMP)
positive regulation of type II interferon production  (ISO,ISS)
regulation of B cell activation  (IGI)
regulation of B cell differentiation  (ISO,ISS)
regulation of dendritic cell cytokine production  (IDA)
regulation of inflammatory response  (IMP)
regulation of protein phosphorylation  (IDA)
regulation of toll-like receptor 9 signaling pathway  (ISO)
response to molecule of bacterial origin  (TAS)
response to virus  (IMP)
toll-like receptor 9 signaling pathway  (IEA,ISO)
toll-like receptor signaling pathway  (IBA,ISO)

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
abnormal B cell activation  (IAGP)
abnormal B cell physiology  (IAGP)
abnormal cytokine secretion  (IAGP)
abnormal dendritic cell physiology  (IAGP)
abnormal immune system physiology  (IAGP)
abnormal leukocyte migration  (IAGP)
abnormal macrophage physiology  (IAGP)
abnormal NK cell physiology  (IAGP)
abnormal NK T cell physiology  (IAGP)
abnormal plasmacytoid dendritic cell physiology  (IAGP)
abnormal renal glomerulus morphology  (IAGP)
abnormal response to infection  (IAGP)
abnormal T-helper 1 physiology  (IAGP)
autoimmune response  (IAGP)
decreased autoantibody level  (IAGP)
decreased B cell proliferation  (IEA)
decreased IgM level  (IAGP)
decreased inflammatory response  (IAGP)
decreased interferon-alpha secretion  (IAGP)
decreased interferon-beta secretion  (IAGP)
decreased interferon-gamma secretion  (IEA)
decreased interleukin-12b secretion  (IAGP)
decreased mature B cell number  (IAGP)
decreased susceptibility to experimental autoimmune encephalomyelitis  (IAGP)
decreased susceptibility to parasitic infection  (IAGP)
decreased tumor necrosis factor secretion  (IAGP)
enlarged lymph nodes  (IAGP)
enlarged spleen  (IAGP)
glomerulonephritis  (IAGP)
impaired natural killer cell mediated cytotoxicity  (IAGP)
increased autoantibody level  (IAGP)
increased B-1 B cell number  (IAGP)
increased CD4-positive, alpha-beta T cell number  (IAGP)
increased circulating interferon-alpha level  (IAGP)
increased double-negative T cell number  (IAGP)
increased IgG level  (IAGP)
increased IgG2a level  (IAGP)
increased IgG3 level  (IAGP)
increased susceptibility to Herpesvirales infection  (IAGP)
increased susceptibility to Herpesvirales infection induced morbidity/mortality  (IAGP)
increased susceptibility to induced colitis  (IEA)
increased susceptibility to systemic lupus erythematosus  (IAGP)
increased urine protein level  (IAGP)
kidney inflammation  (IAGP)
premature death  (IAGP)
renal glomerular immunoglobulin deposits  (IAGP)
thrombocytopenia  (IAGP)
References

References - curated
# Reference Title Reference Citation
1. Toll-like receptor 9 acts at an early stage in host defence against pneumococcal infection. Albiger B, etal., Cell Microbiol. 2007 Mar;9(3):633-44. Epub 2006 Sep 27.
2. TLR9 Mediates Remote Liver Injury following Severe Renal Ischemia Reperfusion. Bakker PJ, etal., PLoS One. 2015 Sep 11;10(9):e0137511. doi: 10.1371/journal.pone.0137511. eCollection 2015.
3. TLR4 links podocytes with the innate immune system to mediate glomerular injury. Banas MC, etal., J Am Soc Nephrol. 2008 Apr;19(4):704-13. doi: 10.1681/ASN.2007040395. Epub 2008 Feb 6.
4. Hepatic expression of toll-like receptors 3, 4, and 9 in primary biliary cirrhosis and chronic hepatitis C. Benias PC, etal., Clin Res Hepatol Gastroenterol. 2012 Oct;36(5):448-54. doi: 10.1016/j.clinre.2012.07.001. Epub 2012 Sep 29.
5. Involvement of renal tubular Toll-like receptor 9 in the development of tubulointerstitial injury in systemic lupus. Benigni A, etal., Arthritis Rheum. 2007 May;56(5):1569-78.
6. Influence of perineurial cells and Toll-like receptors 2 and 9 on Herpes simplex type 1 entry to the central nervous system in rat encephalitis. Bereczky-Veress B, etal., PLoS One. 2010 Aug 27;5(8):e12350.
7. Toll-like receptor 9 regulates the lung macrophage phenotype and host immunity in murine pneumonia caused by Legionella pneumophila. Bhan U, etal., Infect Immun. 2008 Jul;76(7):2895-904. Epub 2008 Apr 21.
8. TLR9 is required for protective innate immunity in Gram-negative bacterial pneumonia: role of dendritic cells. Bhan U, etal., J Immunol. 2007 Sep 15;179(6):3937-46.
9. Cooperative interactions between TLR4 and TLR9 regulate interleukin 23 and 17 production in a murine model of gram negative bacterial pneumonia. Bhan U, etal., PLoS One. 2010 Mar 26;5(3):e9896.
10. A TLR2 polymorphism is associated with type 1 diabetes and allergic asthma. Bjornvold M, etal., Genes Immun. 2009 Mar;10(2):181-7. Epub 2009 Jan 15.
11. Expression of Toll-like receptors in healthy and allergic conjunctiva. Bonini S, etal., Ophthalmology. 2005 Sep;112(9):1528; discussion 1548-9.
12. Differential regulation of Toll-like receptor mRNAs in experimental murine central nervous system infections. Bottcher T, etal., Neurosci Lett. 2003 Jun 19;344(1):17-20.
13. TLR2, TLR4 and TLR9 are differentially modulated in liver lethally injured from BALB/c and C57BL/6 mice during Trypanosoma cruzi acute infection. Carrera-Silva EA, etal., Mol Immunol. 2008 Aug;45(13):3580-8. doi: 10.1016/j.molimm.2008.05.004. Epub 2008 Jun 18.
14. Polymorphisms in Toll-like receptor genes and susceptibility to infections in allogeneic stem cell transplantation. Carvalho A, etal., Exp Hematol. 2009 Sep;37(9):1022-9. Epub 2009 Jun 17.
15. Polymorphisms in toll-like receptor genes and susceptibility to pulmonary aspergillosis. Carvalho A, etal., J Infect Dis. 2008 Feb 15;197(4):618-21.
16. Blockade of TLR9 signaling in B cells impaired anti-dsDNA antibody production in mice induced by activated syngenic lymphocyte-derived DNA immunization. Chen M, etal., Mol Immunol. 2011 Jul;48(12-13):1532-9. doi: 10.1016/j.molimm.2011.04.016. Epub 2011 May 18.
17. Toll-like receptor 9 polymorphisms and Hepatitis B virus clearance in Moroccan chronic carriers. Chihab H, etal., Gene. 2019 Mar 1;687:212-218. doi: 10.1016/j.gene.2018.11.041. Epub 2018 Nov 16.
18. Toll-like receptor 7 and TLR9 dictate autoantibody specificity and have opposing inflammatory and regulatory roles in a murine model of lupus. Christensen SR, etal., Immunity. 2006 Sep;25(3):417-28.
19. Toll-like receptor expression on peripheral blood mononuclear cells in asthmatics; implications for asthma management. Chun E, etal., J Clin Immunol. 2010 May;30(3):459-64. Epub 2010 Jan 14.
20. Hepatitis C may enhance key amplifiers of psoriasis. Chun K, etal., J Eur Acad Dermatol Venereol. 2017 Apr;31(4):672-678. doi: 10.1111/jdv.13578. Epub 2016 May 17.
21. Direct evidence that toll-like receptor 9 (TLR9) functionally binds plasmid DNA by specific cytosine-phosphate-guanine motif recognition. Cornelie S, etal., J Biol Chem 2004 Apr 9;279(15):15124-9. Epub 2004 Jan 20.
22. Both bone marrow-derived and non-bone marrow-derived cells contribute to AIM2 and NLRP3 inflammasome activation in a MyD88-dependent manner in dietary steatohepatitis. Csak T, etal., Liver Int. 2014 Oct;34(9):1402-13. doi: 10.1111/liv.12537. Epub 2014 Apr 17.
23. Association between toll-like receptor expression and human papillomavirus type 16 persistence. Daud II, etal., Int J Cancer. 2011 Feb 15;128(4):879-86. doi: 10.1002/ijc.25400.
24. Expression of TLR4 and TLR9 mRNA in Lewis rats with experimental allergic neuritis. Deng YN and Zhou WB, Neuroimmunomodulation. 2007;14(6):337-43. Epub 2008 Apr 23.
25. Human lung cancer cells express functionally active Toll-like receptor 9. Droemann D, etal., Respir Res. 2005 Jan 4;6:1.
26. Evaluation of neonatal Toll-like receptors 3 (c.1377C/T) and 9 (G2848A) gene polymorphisms in HBV intrauterine transmission susceptibility. Gao Y, etal., Epidemiol Infect. 2015 Jul;143(9):1868-75. doi: 10.1017/S0950268814002921. Epub 2014 Nov 12.
27. A multi-centre study of candidate genes for wheeze and allergy: the International Study of Asthma and Allergies in Childhood Phase 2. Genuneit J, etal., Clin Exp Allergy. 2009 Dec;39(12):1875-88.
28. Systemic inflammation and liver injury following hemorrhagic shock and peripheral tissue trauma involve functional TLR9 signaling on bone marrow-derived cells and parenchymal cells. Gill R, etal., Shock. 2011 Feb;35(2):164-70. doi: 10.1097/SHK.0b013e3181eddcab.
29. Combinations of TLR and NOD2 ligands stimulate rat microglial P2X4R expression. Guo LH, etal., Biochem Biophys Res Commun. 2006 Oct 27;349(3):1156-62. Epub 2006 Sep 1.
30. Dysregulation of innate immune receptors on neutrophils in chronic granulomatous disease. Hartl D, etal., J Allergy Clin Immunol. 2008 Feb;121(2):375-382.e9. Epub 2007 Dec 26.
31. Effects of oligodeoxynucleotide with CCT repeats on chronic graft versus host disease induced experimental lupus nephritis in mice. He C, etal., Clin Immunol. 2011 Sep;140(3):300-6. doi: 10.1016/j.clim.2011.04.016. Epub 2011 May 4.
32. Therapeutic effect of leflunomide on the development of experimental lupus nephritis in mice. He C, etal., Rheumatol Int. 2012 Mar;32(3):633-8. doi: 10.1007/s00296-010-1630-z. Epub 2010 Dec 3.
33. A novel small-molecule enantiomeric analogue of traditional (-)-morphinans has specific TLR9 antagonist properties and reduces sterile inflammation-induced organ damage. Hoque R, etal., J Immunol. 2013 Apr 15;190(8):4297-304. doi: 10.4049/jimmunol.1202184. Epub 2013 Mar 15.
34. Reduced toll-like receptor 9 expression on peripheral CD14+ monocytes of chronic hepatitis B patients and its restoration by effective therapy. Huang YW, etal., Antivir Ther. 2014;19(7):637-43. doi: 10.3851/IMP2762. Epub 2014 Mar 12.
35. Toll-like receptor 9 mediates CpG oligonucleotide-induced cellular invasion. Ilvesaro JM, etal., Mol Cancer Res. 2008 Oct;6(10):1534-43. doi: 10.1158/1541-7786.MCR-07-2005.
36. Acetaminophen-induced hepatotoxicity in mice is dependent on Tlr9 and the Nalp3 inflammasome. Imaeda AB, etal., J Clin Invest. 2009 Feb;119(2):305-14. doi: 10.1172/JCI35958. Epub 2009 Jan 26.
37. TLR9 activation is a key event for the maintenance of a mycobacterial antigen-elicited pulmonary granulomatous response. Ito T, etal., Eur J Immunol. 2007 Oct;37(10):2847-55.
38. Polymorphisms in innate immunity genes associated with development of bronchiolitis obliterans after lung transplantation. Kastelijn EA, etal., J Heart Lung Transplant. 2010 Jun;29(6):665-71. Epub 2010 Mar 15.
39. Expression of TLR2, TLR4, and TLR9 in dermatomyositis and polymyositis. Kim GT, etal., Clin Rheumatol. 2010 Mar;29(3):273-9. doi: 10.1007/s10067-009-1316-7. Epub 2009 Dec 2.
40. CpG oligonucleotide activates Toll-like receptor 9 and causes lung inflammation in vivo. Knuefermann P, etal., Respir Res. 2007 Oct 9;8:72.
41. A comprehensive genotype-phenotype interaction of different Toll-like receptor variations in a renal transplant cohort. Kruger B, etal., Clin Sci (Lond). 2010 Dec;119(12):535-44. doi: 10.1042/CS20100190.
42. Pathogen recognition by the innate immune system. Kumar H, etal., Int Rev Immunol. 2011 Feb;30(1):16-34.
43. Toll-like receptors and CD14 genes polymorphisms and susceptibility to asthma in Tunisian children. Lachheb J, etal., Tissue Antigens. 2008 May;71(5):417-25. Epub 2008 Feb 28.
44. Comprehensive genetic assessment of a functional TLR9 promoter polymorphism: no replicable association with asthma or asthma-related phenotypes. Lange NE, etal., BMC Med Genet. 2011 Feb 15;12:26.
45. TLR4 and TLR9 Expression in Different Phenotypes of Rhinitis. Lauriello M, etal., Int J Otolaryngol. 2012;2012:925164. doi: 10.1155/2012/925164. Epub 2012 Apr 10.
46. Increased toll-like receptor 9 expression in cervical neoplasia. Lee JW, etal., Mol Carcinog. 2007 Nov;46(11):941-7.
47. Small interfering RNA targeting Toll-like receptor 9 protects mice against polymicrobial septic acute kidney injury. Liu L, etal., Nephron Exp Nephrol. 2012;122(1-2):51-61. doi: 10.1159/000346953. Epub 2013 Mar 15.
48. Changes in intestinal Toll-like receptors and cytokines precede histological injury in a rat model of necrotizing enterocolitis. Liu Y, etal., Am J Physiol Gastrointest Liver Physiol. 2009 Sep;297(3):G442-50. Epub 2009 Jul 16.
49. The T-1237C polymorphism of the Toll-like receptor-9 gene is associated with chronic kidney disease in a Han Chinese population. Lu KC, etal., Tohoku J Exp Med. 2011;225(2):109-16.
50. Neutrophil Toll-Like Receptor 9 Expression and the Systemic Inflammatory Response in Acetaminophen-Induced Acute Liver Failure. Manakkat Vijay GK, etal., Crit Care Med. 2016 Jan;44(1):43-53. doi: 10.1097/CCM.0000000000001309.
51. [TLR9 expression is positively correlated with the levels of CD38, HLA-DR and CD95 on peripheral blood mononuclear cells in chronic HBV infected patients]. Mao X, etal., Xi Bao Yu Fen Zi Mian Yi Xue Za Zhi. 2016 May;32(5):660-5.
52. TLR9 is expressed in idiopathic interstitial pneumonia and its activation promotes in vitro myofibroblast differentiation. Meneghin A, etal., Histochem Cell Biol. 2008 Nov;130(5):979-92. Epub 2008 Jul 17.
53. MGDs mouse GO annotations MGD data from the GO Consortium
54. MGD IEA MGD IEA
55. TLR9 is up-regulated in human and murine NASH: pivotal role in inflammatory recruitment and cell survival. Mridha AR, etal., Clin Sci (Lond). 2017 Jul 24;131(16):2145-2159. doi: 10.1042/CS20160838. Print 2017 Aug 15.
56. Polymorphisms in the Fc gamma receptor IIIA and Toll-like receptor 9 are associated with protection against severe malarial anemia and changes in circulating gamma interferon levels. Munde EO, etal., Infect Immun. 2012 Dec;80(12):4435-43. doi: 10.1128/IAI.00945-12. Epub 2012 Oct 8.
57. Increase in NF-kappaB binding affinity of the variant C allele of the toll-like receptor 9 -1237T/C polymorphism is associated with Helicobacter pylori-induced gastric disease. Ng MT, etal., Infect Immun. 2010 Mar;78(3):1345-52. Epub 2009 Dec 28.
58. Exacerbated autoimmunity in the absence of TLR9 in MRL.Fas(lpr) mice depends on Ifnar1. Nickerson KM, etal., J Immunol. 2013 Apr 15;190(8):3889-94. doi: 10.4049/jimmunol.1203525. Epub 2013 Mar 6.
59. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
60. Glomerular expression of toll-like receptor-9 in lupus nephritis but not in normal kidneys: implications for the amplification of the inflammatory response. Papadimitraki ED, etal., Lupus. 2009 Aug;18(9):831-5. doi: 10.1177/0961203309103054.
61. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
62. Association between -1486 T>C and +1174 G>A single nucleotide polymorphisms in TLR9 gene and severity of lupus nephritis. Ramachandran R, etal., Indian J Nephrol. 2012 Mar;22(2):125-9. doi: 10.4103/0971-4065.97133.
63. Sinonasal epithelial cell expression of toll-like receptor 9 is decreased in chronic rhinosinusitis with polyps. Ramanathan M Jr, etal., Am J Rhinol. 2007 Jan-Feb;21(1):110-6.
64. Th2 cytokines associated with chronic rhinosinusitis with polyps down-regulate the antimicrobial immune function of human sinonasal epithelial cells. Ramanathan M Jr, etal., Am J Rhinol. 2008 Mar-Apr;22(2):115-21.
65. Intranasal CpG therapy attenuated experimental fungal asthma in a TLR9-dependent and -independent manner. Ramaprakash H and Hogaboam CM, Int Arch Allergy Immunol. 2010;152(2):98-112. Epub 2009 Dec 16.
66. Toll-like receptor 9 modulates immune responses to Aspergillus fumigatus conidia in immunodeficient and allergic mice. Ramaprakash H, etal., Infect Immun. 2009 Jan;77(1):108-19. Epub 2008 Oct 20.
67. Mouse MP Annotation Import Pipeline RGD automated import pipeline
68. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
69. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
70. Expression of toll-like receptors 2, 4 and 9 is increased in gingival tissue from patients with type 2 diabetes and chronic periodontitis. 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.
71. Absent Toll-like receptor-9 expression predicts poor prognosis in renal cell carcinoma. Ronkainen H, etal., J Exp Clin Cancer Res. 2011 Sep 19;30:84. doi: 10.1186/1756-9966-30-84.
72. Innate recognition network driving herpes simplex virus-induced corneal immunopathology: role of the toll pathway in early inflammatory events in stromal keratitis. Sarangi PP, etal., J Virol. 2007 Oct;81(20):11128-38. Epub 2007 Aug 8.
73. Mechanistic investigation of immunosuppression in patients with condyloma acuminata. Shi YJ, etal., Mol Med Rep. 2013 Aug;8(2):480-6. doi: 10.3892/mmr.2013.1511. Epub 2013 Jun 6.
74. TLR4 and TLR9 are induced in oral lichen planus. Siponen M, etal., J Oral Pathol Med. 2012 Nov;41(10):741-7. doi: 10.1111/j.1600-0714.2012.01169.x. Epub 2012 Jun 5.
75. Toll-like receptor signaling and SIGIRR in renal fibrosis upon unilateral ureteral obstruction. Skuginna V, etal., PLoS One. 2011 Apr 22;6(4):e19204. doi: 10.1371/journal.pone.0019204.
76. Association studies of Toll-like receptor gene polymorphisms with allograft survival in renal transplant recipients of North India. Srivastava P, etal., Clin Transplant. 2012 Jul-Aug;26(4):581-8. doi: 10.1111/j.1399-0012.2011.01577.x. Epub 2012 Jan 17.
77. Effect of probiotic treatment on deranged neutrophil function and cytokine responses in patients with compensated alcoholic cirrhosis. Stadlbauer V, etal., J Hepatol. 2008 Jun;48(6):945-51. Epub 2008 Mar 25.
78. Genes that determine immunology and inflammation modify the basic defect of impaired ion conductance in cystic fibrosis epithelia. Stanke F, etal., J Med Genet. 2011 Jan;48(1):24-31. Epub 2010 Sep 12.
79. Toll-like receptor 9 enhances nephritogenic immunity and glomerular leukocyte recruitment, exacerbating experimental crescentic glomerulonephritis. Summers SA, etal., Am J Pathol. 2010 Nov;177(5):2234-44. doi: 10.2353/ajpath.2010.100153. Epub 2010 Sep 16.
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PMID:36194127   PMID:36226943   PMID:36278484   PMID:36674451   PMID:36674855   PMID:36740514   PMID:37283745   PMID:37414396   PMID:37528226   PMID:37532523   PMID:37555846   PMID:37606042  
PMID:37625569   PMID:37720210   PMID:37733587   PMID:37773045   PMID:37850718   PMID:37958808   PMID:38053332   PMID:38305333   PMID:38354086   PMID:38520880   PMID:38538785   PMID:38641710  
PMID:38724001   PMID:38731877   PMID:38749335   PMID:38762479   PMID:38827745   PMID:38875319   PMID:38880789   PMID:38892317   PMID:39098224  


Genomics

Comparative Map Data
Tlr9
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399106,099,797 - 106,104,075 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl9106,099,797 - 106,104,082 (+)EnsemblGRCm39 Ensembl
GRCm389106,222,598 - 106,226,876 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9106,222,598 - 106,226,883 (+)EnsemblGRCm38mm10GRCm38
MGSCv379106,124,929 - 106,129,207 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv369106,080,699 - 106,084,977 (+)NCBIMGSCv36mm8
Celera9105,848,890 - 105,853,167 (+)NCBICelera
Cytogenetic Map9F1NCBI
cM Map957.46NCBI
TLR9
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38352,221,080 - 52,225,645 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl352,221,080 - 52,225,645 (-)EnsemblGRCh38hg38GRCh38
GRCh37352,255,096 - 52,259,661 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36352,230,138 - 52,235,219 (-)NCBINCBI36Build 36hg18NCBI36
Build 34352,230,137 - 52,233,247NCBI
Celera352,234,410 - 52,239,491 (-)NCBICelera
Cytogenetic Map3p21.2NCBI
HuRef352,317,258 - 52,322,341 (-)NCBIHuRef
CHM1_1352,207,624 - 52,212,707 (-)NCBICHM1_1
T2T-CHM13v2.0352,253,966 - 52,258,531 (-)NCBIT2T-CHM13v2.0
Tlr9
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88115,743,407 - 115,747,523 (+)NCBIGRCr8
mRatBN7.28106,864,680 - 106,868,796 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8106,864,680 - 106,868,796 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx8112,489,116 - 112,493,226 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.08110,688,285 - 110,692,395 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.08108,531,077 - 108,535,188 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.08114,916,122 - 114,920,171 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8114,916,122 - 114,920,171 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08114,279,020 - 114,283,069 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera8106,185,754 - 106,189,869 (+)NCBICelera
Cytogenetic Map8q32NCBI
Tlr9
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555323,828,775 - 3,832,582 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555323,828,645 - 3,832,699 (-)NCBIChiLan1.0ChiLan1.0
TLR9
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12037,529,322 - 37,547,117 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2037,529,401 - 37,539,957 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2037,542,340 - 37,547,114 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2037,510,887 - 37,521,504 (+)NCBIDog10K_Boxer_Tasha
Dog10K_Boxer_Tasha2037,523,889 - 37,528,666 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02037,879,856 - 37,897,682 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2037,892,901 - 37,897,671 (+)EnsemblROS_Cfam_1.0 Ensembl
ROS_Cfam_1.0 Ensembl2037,879,518 - 37,890,512 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12037,243,558 - 37,254,192 (+)NCBIUMICH_Zoey_3.1
UMICH_Zoey_3.12037,256,577 - 37,261,354 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02037,665,125 - 37,669,902 (+)NCBIUNSW_CanFamBas_1.0
UNSW_CanFamBas_1.02037,652,111 - 37,662,740 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02037,950,172 - 37,954,949 (+)NCBIUU_Cfam_GSD_1.0
UU_Cfam_GSD_1.02037,936,949 - 37,947,576 (+)NCBIUU_Cfam_GSD_1.0
TLR9
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1334,349,609 - 34,357,673 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11334,353,444 - 34,370,990 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21337,634,343 - 37,652,036 (+)NCBISscrofa10.2Sscrofa10.2susScr3

Variants

.
Variants in Tlr9
184 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:129
Count of miRNA genes:117
Interacting mature miRNAs:123
Transcripts:ENSMUST00000062241
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1357461Idd2_minsulin dependent diabetes susceptibility 2 (mouse)Not determined982792386116792481Mouse
18182932Metl3_mmetabolite locus 3, N-acetylglutamate (mouse)989440541123440541Mouse
1301649Psl1_mpromotion susceptibility QTL 1 (mouse)Not determined989289476123289595Mouse
1300884Sluc11_msusceptibility to lung cancer 11 (mouse)Not determined982792386116792481Mouse
10412180Msam3_mmuscle, skeletal, activity measure 3 (mouse)Not determined985779563108518385Mouse
1301407Rapop2_mradiation-induced apoptosis 2 (mouse)Not determined976417989110418183Mouse
1301789Pbwg4_mpostnatal body weight growth 4 (mouse)Not determined9103118511124359700Mouse
14746992Manh67_mmandible shape 67 (mouse)993865836124359700Mouse
10412290Pvacm1l_mplasma vascular cell adhesion molecule 1 levels (mouse)Not determined9103118511124359700Mouse
1302065El1_mepilepsy 1 (mouse)Not determined975682646114303447Mouse
1301297Lcho1_mliver cholesterol 1 (mouse)Not determined9100889929124359700Mouse
10054068El8_mepilepsy 8 (mouse)Not determined972859058106859205Mouse
12904937Edlmmq9_mextensor digitorum longus muscle mass QTL 9 (mouse)991560372124359700Mouse
1357627Tgq2_mtriglyceride QTL 2 (mouse)Not determined9101829255124359700Mouse
11251716Siim2_mstress induced immobility 2 (mouse)986625682120625682Mouse
4141833W10q13_mweight 10 weeks QTL 13 (mouse)Not determined63239711120191934Mouse
12904947Tammq7_mtibialis anterior muscle mass QTL 7 (mouse)991560372124359700Mouse
10401247Bglu14_mblood glucose level 14 (mouse)Not determined979279863113279941Mouse
1302103Dob2_mdietary obesity 2 (mouse)Not determined986121898120118690Mouse
1357648Obq18_mobesity QTL 18 (mouse)Not determined9101829255124359700Mouse
10054492El7_mepilepsy 7 (mouse)Not determined975682646114303447Mouse
12904961Gmmq7_mgastrocnemius muscle mass QTL 7 (mouse)991560372124359700Mouse
10412242Alpq8_malcohol preference QTL 8 (mouse)Not determined989162124123162124Mouse
1357657Pymr_mPlasmodium yoelli malaria resistance (mouse)Not determined989859058118767089Mouse
1301725Lifespan1_mlife span 1 (mouse)Not determined974250230108250378Mouse
10766454Char10_mP. chabaudi malaria resistance QTL 10 (mouse)982792386116792481Mouse
1301573Etohcta8_methanol conditioned taste aversion 8 (mouse)Not determined972859058106859205Mouse
4141545Tailaq2_mtail length adjusted QTL 2 (mouse)Not determined63239711120191934Mouse
1300549Bbaa17_mB. burgdorferi-associated arthritis 17 (mouse)Not determined986107600120107729Mouse
1357635Splq4_mspleen weight QTL 4 (mouse)Not determined963239711120191934Mouse
13207569Tcq13_mtotal cholesterol QTL 13 (mouse)959897283109089068Mouse
1301192Skts6_mskin tumor susceptibility 6 (mouse)Not determined978522698112522808Mouse
12879896Berr3_mberghei resistance locus 3 (mouse)9103118511124359700Mouse
1302001Bdln5_mbody length 5 (mouse)Not determined993591658124359700Mouse
12880422V25Dq6_mvitamin D inactive form serum level QTL 6 (mouse)987677199121677199Mouse
11537364Cnes5_mC. neoformans susceptibility locus 5 (mouse)996746658124359700Mouse
11081166Psl5_mpromotion susceptibility QTL 5 (mouse)994863354112701997Mouse
12910773Splic3_mspleen iron content 3 (mouse)991291078124359700Mouse
12910772Lvic6_mliver iron content 6 (mouse)991291078124359700Mouse
13463480Mchcq2_mmean corpuscular hemoglobin concentration QTL 2 (mouse)991518283124359700Mouse
1301732Char1_mP. chabaudi malaria resistance QTL 1 (mouse)Not determined981680321115680445Mouse
12910770Splic1_mspleen iron content 1 (mouse)991291078124359700Mouse
1558767Skmw11_mskeletal muscle weight 11 (mouse)Not determined991518283124359700Mouse
13463477Rbc9_mred blood cell count 9 (mouse)991518283124359700Mouse
13463478Mchq18_mmean corpuscular hemoglobin QTL 18 (mouse)991518283124359700Mouse
1301487Nociq1_mnociceptive sensitivity inflammatory QTL 1 (mouse)Not determined984406017118406120Mouse
13463475Hctq7_mhematocrit QTL 7 (mouse)991518283124359700Mouse
1301484Bwq6_mbody weight (mouse)Not determined993591658124359700Mouse
13463474Hbbcq5_mhemoglobin concentration QTL 5 (mouse)991518283124359700Mouse

Markers in Region
PMC133006P3  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm389106,226,259 - 106,226,577UniSTSGRCm38
MGSCv379106,128,590 - 106,128,908UniSTSGRCm37
Celera9105,852,550 - 105,852,868UniSTS
Cytogenetic Map9F1UniSTS
Tlr9  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm389106,223,733 - 106,223,897UniSTSGRCm38
Celera9105,850,024 - 105,850,188UniSTS
Cytogenetic Map9F1UniSTS
cM Map957.46UniSTS
PMC212800P2  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm389106,225,043 - 106,225,138UniSTSGRCm38
MGSCv379106,127,374 - 106,127,469UniSTSGRCm37
Celera9105,851,334 - 105,851,429UniSTS
Cytogenetic Map9F1UniSTS
PMC55404P1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm389106,226,301 - 106,226,560UniSTSGRCm38
MGSCv379106,128,632 - 106,128,891UniSTSGRCm37
Celera9105,852,592 - 105,852,851UniSTS
Cytogenetic Map9F1UniSTS


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000062241   ⟹   ENSMUSP00000082207
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl9106,099,797 - 106,104,082 (+)Ensembl
GRCm38.p6 Ensembl9106,222,598 - 106,226,883 (+)Ensembl
RefSeq Acc Id: NM_031178   ⟹   NP_112455
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm399106,099,797 - 106,104,075 (+)NCBI
GRCm389106,222,598 - 106,226,876 (+)ENTREZGENE
MGSCv379106,124,929 - 106,129,207 (+)RGD
Celera9105,848,890 - 105,853,167 (+)RGD
cM Map9 ENTREZGENE
Sequence:
RefSeq Acc Id: NP_112455   ⟸   NM_031178
- Peptide Label: precursor
- UniProtKB: Q99MF2 (UniProtKB/Swiss-Prot),   Q4L0K4 (UniProtKB/Swiss-Prot),   Q4L0K3 (UniProtKB/Swiss-Prot),   F8VPN5 (UniProtKB/Swiss-Prot),   Q99MQ8 (UniProtKB/Swiss-Prot),   Q9EQU3 (UniProtKB/Swiss-Prot)
- Sequence:
Ensembl Acc Id: ENSMUSP00000082207   ⟸   ENSMUST00000062241
Protein Domains
TIR

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9EQU3-F1-model_v2 AlphaFold Q9EQU3 1-1032 view protein structure

Promoters
RGD ID:6845246
Promoter ID:MM_KWN:58654
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Lung,   Spleen
Transcripts:NM_031178
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv369106,124,839 - 106,125,339 (+)MPROMDB
RGD ID:8670714
Promoter ID:EPDNEW_M13387
Type:initiation region
Name:Tlr9_1
Description:Mus musculus toll-like receptor 9 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm389106,222,616 - 106,222,676EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1932389 AgrOrtholog
Ensembl Genes ENSMUSG00000045322 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000062241 ENTREZGENE
  ENSMUST00000062241.11 UniProtKB/Swiss-Prot
Gene3D-CATH 3.40.50.10140 UniProtKB/Swiss-Prot
  3.80.10.10 UniProtKB/Swiss-Prot
InterPro Leu-rich_rpt UniProtKB/Swiss-Prot
  Leu-rich_rpt_typical-subtyp UniProtKB/Swiss-Prot
  LRR_12 UniProtKB/Swiss-Prot
  LRR_dom_sf UniProtKB/Swiss-Prot
  TIR_dom UniProtKB/Swiss-Prot
  Toll_tir_struct_dom_sf UniProtKB/Swiss-Prot
KEGG Report mmu:81897 UniProtKB/Swiss-Prot
MGD MGI:1932389 ENTREZGENE
NCBI Gene 81897 ENTREZGENE
PANTHER PTHR47410:SF3 UniProtKB/Swiss-Prot
  TOLL-LIKE RECEPTOR 7-RELATED UniProtKB/Swiss-Prot
Pfam LRR_12 UniProtKB/Swiss-Prot
  LRR_8 UniProtKB/Swiss-Prot
  TIR UniProtKB/Swiss-Prot
PhenoGen Tlr9 PhenoGen
PRINTS LEURICHRPT UniProtKB/Swiss-Prot
PROSITE LRR UniProtKB/Swiss-Prot
  TIR UniProtKB/Swiss-Prot
SMART LRR_SD22 UniProtKB/Swiss-Prot
  LRR_TYP UniProtKB/Swiss-Prot
  TIR UniProtKB/Swiss-Prot
Superfamily-SCOP L domain-like UniProtKB/Swiss-Prot
  RNI-like UniProtKB/Swiss-Prot
  SSF52200 UniProtKB/Swiss-Prot
UniProt F8VPN5 ENTREZGENE
  Q4L0K3 ENTREZGENE
  Q4L0K4 ENTREZGENE
  Q99MF2 ENTREZGENE
  Q99MQ8 ENTREZGENE
  Q9EQU3 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary F8VPN5 UniProtKB/Swiss-Prot
  Q4L0K3 UniProtKB/Swiss-Prot
  Q4L0K4 UniProtKB/Swiss-Prot
  Q99MF2 UniProtKB/Swiss-Prot
  Q99MQ8 UniProtKB/Swiss-Prot