Tlr9 toll-like receptor 9 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Tlr9provided by RGD
Official Full Name: toll-like receptor 9provided by RGD
Primary source: RGD:631352
See related: EnsemblRapid:ENSRNOG00000048161 AllianceGenome:RGD:631352
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Enables unmethylated CpG binding activity. Involved in several processes, including cellular response to lipopolysaccharide; microglial cell activation; and toll-like receptor signaling pathway. Predicted to be located in apical plasma membrane; basolateral plasma membrane; and cytoplasmic vesicle. Predicted to be active in early endosome membrane; endoplasmic reticulum; and plasma membrane. Biomarker of acute necrotizing pancreatitis; mastitis; and perinatal necrotizing enterocolitis. 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). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Spleen (RPKM 43.7), Thymus (RPKM 8.0) and 5 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 8q32

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	8	NC_086026.1 (115743407..115747523)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	8	NC_051343.1 (106864680..106868796)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	8	NC_005107.4 (114916122..114920171)

Chromosome 8 - NC_086026.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Expression of fibrinogen-like protein 2 (Fgl2) on Toll-like receptor 9 (TLR9) expression in autoimmune myelitis.
Title: Expression of fibrinogen-like protein 2 (Fgl2) on Toll-like receptor 9 (TLR9) expression in autoimmune myelitis.
Upregulation of TLR9 may contribute to activation of microglia and painful diabetic neuropathy via the p38 MAPK pathway in rats.
Title: Upregulation of TLR9 may contribute to activation of microglia and painful diabetic neuropathy via the p38 MAPK pathway in rats.
Expression of Toll-Like Receptors in the Animal Model of Bladder Outlet Obstruction.
Title: Expression of Toll-Like Receptors in the Animal Model of Bladder Outlet Obstruction.
TLR9 is involved in the pathogenesis of erosive autoimmune arthritis.
Title: The involvement of Toll-like receptor 9 in the pathogenesis of erosive autoimmune arthritis.
These data together suggest that extracellular histones activate plasma membrane TLR9 to trigger calcium oscillations in AR4-2J cells.
Title: Extracellular Histones Activate Plasma Membrane Toll-Like Receptor 9 to Trigger Calcium Oscillations in Rat Pancreatic Acinar Tumor Cell AR4-2J.
AMPKalpha phosphorylation after TLR9 activation in VSMCs appears to be an extension of traditional inflammatory signaling via TAK1
Title: Toll-Like Receptor 9-Dependent AMPKα Activation Occurs via TAK1 and Contributes to RhoA/ROCK Signaling and Actin Polymerization in Vascular Smooth Muscle Cells.
this study shows that FGL2 knockdown improves heart function through regulation of TLR9 signaling in the experimental autoimmune myocarditis rats
Title: FGL2 knockdown improves heart function through regulation of TLR9 signaling in the experimental autoimmune myocarditis rats.
TLR9 protein levels were upregulated after taurocholateinduced acute pancreatitis, and were higher at 6 h compared with at 3 h. Subsequently, the TLR9 protein levels were downregulated at 12 h, but remained higher than the control group.
Title: Effects of Toll‑like receptor 9 and CpG oligodeoxynucleotides 1826 on sodium taurocholate‑induced acute pancreatitis rats.
Sevoflurane intervention can activate TLR3 and TLR9 signaling pathway, upregulate TLR3 expression and downstream TRIF expression, decrease TLR9 expression, and downregulate downstream NF-kappaB expression in CPB rat models, thereby mitigating brain injury induced by inflammatory response during CPB.
Title: Effects of TLR3 and TLR9 Signaling Pathway on Brain Protection in Rats Undergoing Sevoflurane Pretreatment during Cardiopulmonary Bypass.
CpG-ODN, the TLR9 ligand, accelerates myocardial I/R injury. The mechanisms involve activation of the TLR9-p38 MAPK signaling pathway.
Title: Cpg-ODN, a TLR9 Agonist, Aggravates Myocardial Ischemia/Reperfusion Injury by Activation of TLR9-P38 MAPK Signaling.

Submit: New GeneRIF Correction See all GeneRIFs (25)

General gene information

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Markers

PMC133006P3 (e-PCR)
- UniSTS:270623

PMC55404P1 (e-PCR)
- UniSTS:273340

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables interleukin-1 receptor binding	ISO Inferred from Sequence Orthology more info
enables pattern recognition receptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables pattern recognition receptor activity	ISO Inferred from Sequence Orthology more info
enables siRNA binding	ISO Inferred from Sequence Orthology more info
enables unmethylated CpG binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in MyD88-dependent toll-like receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in activation of innate immune response	ISO Inferred from Sequence Orthology more info
involved_in canonical NF-kappaB signal transduction	IBA Inferred from Biological aspect of Ancestor more info
involved_in canonical NF-kappaB signal transduction	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cellular response to chloroquine	ISO Inferred from Sequence Orthology more info
involved_in cellular response to lipopolysaccharide	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to metal ion	IEP Inferred from Expression Pattern more info	PubMed
involved_in defense response to Gram-negative bacterium	IEA Inferred from Electronic Annotation more info
involved_in defense response to virus	IBA Inferred from Biological aspect of Ancestor more info
involved_in defense response to virus	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within defense response to virus	ISO Inferred from Sequence Orthology more info
involved_in detection of molecule of bacterial origin	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within immune response	ISO Inferred from Sequence Orthology more info
involved_in innate immune response	IEA Inferred from Electronic Annotation more info
involved_in maintenance of gastrointestinal epithelium	ISO Inferred from Sequence Orthology more info
involved_in male gonad development	IEP Inferred from Expression Pattern more info	PubMed
involved_in microglial cell activation	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of ATPase-coupled calcium transmembrane transporter activity	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of ERK1 and ERK2 cascade	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of B cell activation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of B cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of JNK cascade	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of MAPK cascade	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of autophagy	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of canonical NF-kappaB signal transduction	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of chemokine production	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cytokine production	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of granulocyte macrophage colony-stimulating factor production	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of immunoglobulin production	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of interferon-alpha production	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of interferon-beta production	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of interleukin-10 production	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of interleukin-12 production	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of interleukin-18 production	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of interleukin-6 production	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of interleukin-6 production	ISO Inferred from Sequence Orthology more info
acts_upstream_of positive regulation of interleukin-8 production	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of interleukin-8 production	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of intestinal epithelial cell development	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of non-canonical NF-kappaB signal transduction	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of toll-like receptor 9 signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of tumor necrosis factor production	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of type II interferon production	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of B cell activation	ISO Inferred from Sequence Orthology more info
involved_in regulation of B cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of dendritic cell cytokine production	ISO Inferred from Sequence Orthology more info
involved_in regulation of inflammatory response	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of protein phosphorylation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within response to virus	ISO Inferred from Sequence Orthology more info
involved_in toll-like receptor 9 signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in toll-like receptor signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in toll-like receptor signaling pathway	IDA Inferred from Direct Assay more info	PubMed
involved_in toll-like receptor signaling pathway	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in apical plasma membrane	ISO Inferred from Sequence Orthology more info
located_in basolateral plasma membrane	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
is_active_in early endosome membrane	ISO Inferred from Sequence Orthology more info
located_in early phagosome	ISO Inferred from Sequence Orthology more info
located_in endolysosome	ISO Inferred from Sequence Orthology more info
is_active_in endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum membrane	IEA Inferred from Electronic Annotation more info
located_in endosome	ISO Inferred from Sequence Orthology more info
located_in lysosome	ISO Inferred from Sequence Orthology more info
located_in phagocytic vesicle	ISO Inferred from Sequence Orthology more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: toll-like receptor 9

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_198131.1 → NP_937764.1 toll-like receptor 9 precursor

See identical proteins and their annotated locations for NP_937764.1

Status: PROVISIONAL

Source sequence(s)

AY191271

UniProtKB/TrEMBL

A6I2Q1, M0RAA8, Q6Y1S0

Related

ENSRNOP00000066453.1, ENSRNOT00000074194.3

Conserved Domains (4) summary

cd00116
Location:123 → 373

LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...

sd00033
Location:125 → 144

LRR_RI; leucine-rich repeat [structural motif]

pfam13855
Location:497 → 556

LRR_8; Leucine rich repeat

cl23749
Location:870 → 1013

TIR_2; TIR domain