TLR9 (toll like receptor 9) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: TLR9 (toll like receptor 9) Sus scrofa
Analyze
Symbol: TLR9
Name: toll like receptor 9
RGD ID: 13881595
Description: ENCODES a protein that exhibits pattern recognition receptor activity (ortholog); protein homodimerization activity (ortholog); siRNA binding (ortholog); INVOLVED IN cellular response to chloroquine (ortholog); cellular response to lipopolysaccharide (ortholog); cellular response to metal ion (ortholog); PARTICIPATES IN Toll-like receptor signaling pathway; ASSOCIATED WITH Achlorhydria (ortholog); acute kidney failure (ortholog); acute necrotizing pancreatitis (ortholog); FOUND IN early endosome membrane (ortholog); early phagosome (ortholog); endolysosome (ortholog)
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: toll-like receptor 9
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Dog
Alliance Orthologs
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
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
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
Achlorhydria  (ISO)
acute kidney failure  (ISO)
acute necrotizing pancreatitis  (ISO)
adult respiratory distress syndrome  (ISO)
alcoholic liver cirrhosis  (ISO)
allergic bronchopulmonary aspergillosis  (ISO)
allergic conjunctivitis  (ISO)
allergic rhinitis  (ISO)
anogenital venereal wart  (ISO)
asthma  (ISO)
bacterial pneumonia  (ISO)
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  (ISO)
chronic granulomatous disease  (ISO)
Chronic Hepatitis B  (ISO)
Chronic Hepatitis C  (ISO)
chronic kidney disease  (ISO)
Chronic Periodontitis  (ISO)
congenital disorder of glycosylation In  (ISO)
crescentic glomerulonephritis  (ISO)
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  (ISO)
Hypergammaglobulinemia  (ISO)
IgA glomerulonephritis  (ISO)
Inflammation  (ISO)
interstitial lung disease  (ISO)
Klebsiella Infections  (ISO)
Legionnaires' disease  (ISO)
Liver Injury  (ISO)
Lung Neoplasms  (ISO)
lung non-small cell carcinoma  (ISO)
lupus nephritis  (ISO)
Malarial Anemia  (ISO)
mastitis  (ISO)
membranoproliferative glomerulonephritis  (ISO)
metabolic dysfunction-associated steatohepatitis  (ISO)
metabolic dysfunction-associated steatotic liver disease  (ISO)
Oral Lichen Planus  (ISO)
papillomavirus infectious disease  (ISO)
perinatal necrotizing enterocolitis  (ISO)
Pneumococcal Infections  (ISO)
Pneumococcal Meningitis  (ISO)
primary biliary cholangitis  (ISO)
proteinuria  (ISO)
pulmonary fibrosis  (ISO)
pulmonary tuberculosis  (ISO)
renal cell carcinoma  (ISO)
Respiratory Sounds  (ISO)
Respiratory Tract Granuloma  (ISO)
Schistosomiasis Mansoni  (ISO)
sinusitis  (ISO)
squamous cell carcinoma  (ISO)
systemic lupus erythematosus  (ISO)
Tracheoesophageal Fistula  (ISO)
Transplant Rejection  (ISO)
Triple Negative Breast Neoplasms  (ISO)
trypanosomiasis  (ISO)
ureteral obstruction  (ISO)
viral pneumonia  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

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

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:12759192   PMID:14681463   PMID:15607737   PMID:16098606   PMID:17145712   PMID:21044185   PMID:22301074   PMID:24534144   PMID:25576141   PMID:25814121   PMID:28757040   PMID:29555549  
PMID:30032202   PMID:30548974   PMID:32173534   PMID:38636174  


Genomics

Comparative Map Data
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
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
(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
(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

Variants

.
Variants in TLR9
234 total Variants

Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
circulatory system
ectoderm
endocrine system
endoderm
hemolymphoid system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
10 4 23 3 1 5 11 9 23 2 6 2

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_213958 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_005669564 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AB061522 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB071394 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AEMK02000086 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK349013 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY289533 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY373817 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY859728 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CU915558 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ295831 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EU189699 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GFLN01117756 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GU138029 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JX232221 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JX307113 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KC860785 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KF155478 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSSSCT00000012516   ⟹   ENSSSCP00000012188
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1334,349,609 - 34,357,673 (-)Ensembl
RefSeq Acc Id: NM_213958   ⟹   NP_999123
RefSeq Status: VALIDATED
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11334,353,444 - 34,357,649 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005669564   ⟹   XP_005669621
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11334,353,445 - 34,370,990 (-)NCBI
Sequence:
RefSeq Acc Id: NP_999123   ⟸   NM_213958
- Peptide Label: precursor
- Sequence:
RefSeq Acc Id: XP_005669621   ⟸   XM_005669564
- Peptide Label: isoform X1
- Sequence:
Ensembl Acc Id: ENSSSCP00000012188   ⟸   ENSSSCT00000012516
Protein Domains
TIR


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000011436 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
  ENSSSCG00015079750 UniProtKB/Swiss-Prot
  ENSSSCG00025014654 UniProtKB/Swiss-Prot
  ENSSSCG00030029843 UniProtKB/Swiss-Prot
  ENSSSCG00035074286 UniProtKB/Swiss-Prot
  ENSSSCG00040034305 UniProtKB/Swiss-Prot
  ENSSSCG00055016203 UniProtKB/Swiss-Prot
  ENSSSCG00060025471 UniProtKB/Swiss-Prot
  ENSSSCG00065037626 UniProtKB/Swiss-Prot
  ENSSSCG00070025635 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000012516 ENTREZGENE
  ENSSSCT00000012516.5 UniProtKB/Swiss-Prot
  ENSSSCT00015108303.1 UniProtKB/Swiss-Prot
  ENSSSCT00025019535.1 UniProtKB/Swiss-Prot
  ENSSSCT00030041455.1 UniProtKB/Swiss-Prot
  ENSSSCT00035100877.1 UniProtKB/Swiss-Prot
  ENSSSCT00040046162.1 UniProtKB/Swiss-Prot
  ENSSSCT00055031924.1 UniProtKB/Swiss-Prot
  ENSSSCT00060034526.1 UniProtKB/Swiss-Prot
  ENSSSCT00065051391.1 UniProtKB/Swiss-Prot
  ENSSSCT00070051249.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.10140 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.80.10.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Leu-rich_rpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Leu-rich_rpt_typical-subtyp UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LRR_12 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LRR_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TIR_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Toll_tir_struct_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report ssc:397007 UniProtKB/TrEMBL
NCBI Gene TLR9 ENTREZGENE
PANTHER PTHR47410:SF3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TOLL-LIKE RECEPTOR 7-RELATED UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam LRR_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LRR_12 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LRR_8 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TIR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PRINTS LEURICHRPT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE LRR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TIR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART LRR_BAC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LRR_SD22 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LRR_TYP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TIR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP L domain-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RNI-like UniProtKB/TrEMBL
  SSF52200 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A4X1VQI5_PIG UniProtKB/TrEMBL
  A0S6W5_PIG UniProtKB/TrEMBL
  D3JEM4_PIG UniProtKB/TrEMBL
  I7CYU0_PIG UniProtKB/TrEMBL
  J7I1B0_PIG UniProtKB/TrEMBL
  Q5I2M3 ENTREZGENE
  Q7YSE0_PIG UniProtKB/TrEMBL
  Q865R8_PIG UniProtKB/TrEMBL
  Q865R9_PIG UniProtKB/TrEMBL
  TLR9_PIG UniProtKB/Swiss-Prot
  U3M9L7_PIG UniProtKB/TrEMBL
VGNC ID VGNC:111773 ENTREZGENE