Tlr7 (toll-like receptor 7) - Rat Genome Database

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Gene: Tlr7 (toll-like receptor 7) Rattus norvegicus
Analyze
Symbol: Tlr7
Name: toll-like receptor 7
RGD ID: 1563357
Description: Predicted to have RNA binding activity and pattern recognition receptor activity. Predicted to be involved in several processes, including I-kappaB phosphorylation; cellular response to mechanical stimulus; and positive regulation of cytokine production. Predicted to localize to several cellular components, including cytoplasmic vesicle; endoplasmic reticulum; and lysosome. Biomarker of perinatal necrotizing enterocolitis. Human ortholog(s) of this gene implicated in X-Linked immunodeficiency 74. Orthologous to human TLR7 (toll like receptor 7); PARTICIPATES IN Toll-like receptor signaling pathway; influenza A pathway; measles pathway; INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LOC317468; RGD1563357; similar to toll-like receptor 7
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2X27,027,380 - 27,054,309 (+)NCBI
Rnor_6.0 EnsemblX28,486,869 - 28,512,957 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0X28,486,836 - 28,513,004 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X28,882,968 - 28,908,584 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X47,330,737 - 47,356,841 (+)NCBIRGSC3.4rn4RGSC3.4
CeleraX27,439,445 - 27,465,491 (+)NCBICelera
Cytogenetic MapXq13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:14976261   PMID:14976262   PMID:15723075   PMID:16111635   PMID:16188996   PMID:16286015   PMID:18261938   PMID:18305481   PMID:19593445   PMID:19740627   PMID:21364926   PMID:21753151  
PMID:22765640   PMID:23382219   PMID:24091496   PMID:24740015   PMID:25384124   PMID:26363072   PMID:26434622   PMID:28665028   PMID:31647818  


Genomics

Comparative Map Data
Tlr7
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2X27,027,380 - 27,054,309 (+)NCBI
Rnor_6.0 EnsemblX28,486,869 - 28,512,957 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0X28,486,836 - 28,513,004 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X28,882,968 - 28,908,584 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X47,330,737 - 47,356,841 (+)NCBIRGSC3.4rn4RGSC3.4
CeleraX27,439,445 - 27,465,491 (+)NCBICelera
Cytogenetic MapXq13NCBI
TLR7
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 EnsemblX12,867,072 - 12,890,361 (+)EnsemblGRCh38hg38GRCh38
GRCh38X12,867,072 - 12,890,361 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37X12,885,191 - 12,908,480 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X12,795,123 - 12,818,401 (+)NCBINCBI36hg18NCBI36
Build 34X12,644,862 - 12,666,567NCBI
CeleraX16,999,208 - 17,022,486 (+)NCBI
Cytogenetic MapXp22.2NCBI
HuRefX10,651,692 - 10,675,129 (+)NCBIHuRef
CHM1_1X12,915,641 - 12,938,921 (+)NCBICHM1_1
Tlr7
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X166,086,376 - 166,113,570 (-)NCBIGRCm39mm39
GRCm39 EnsemblX166,087,925 - 166,113,554 (-)Ensembl
GRCm38X167,303,380 - 167,330,574 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX167,304,929 - 167,330,558 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X163,742,863 - 163,768,460 (-)NCBIGRCm37mm9NCBIm37
MGSCv36X162,649,036 - 162,674,633 (-)NCBImm8
CeleraX150,452,330 - 150,504,044 (-)NCBICelera
Cytogenetic MapXF5NCBI
Tlr7
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955544424,850 - 443,564 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955544424,897 - 443,562 (-)NCBIChiLan1.0ChiLan1.0
TLR7
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1X12,768,698 - 12,790,517 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX12,767,981 - 12,790,517 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0X5,479,247 - 5,504,810 (+)NCBIMhudiblu_PPA_v0panPan3
TLR7
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X9,331,243 - 9,360,461 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX9,314,815 - 9,359,603 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX9,290,888 - 9,316,297 (+)NCBI
ROS_Cfam_1.0X9,283,446 - 9,312,699 (+)NCBI
UMICH_Zoey_3.1X9,270,957 - 9,296,384 (+)NCBI
UNSW_CanFamBas_1.0X9,310,224 - 9,335,853 (+)NCBI
UU_Cfam_GSD_1.0X9,302,542 - 9,328,038 (+)NCBI
Tlr7
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X2,593,498 - 2,611,939 (+)NCBI
SpeTri2.0NW_0049364702,593,544 - 2,610,972 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TLR7
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X11,348,520 - 11,372,132 (+)NCBI
Tlr7
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248821,375,216 - 1,379,705 (-)NCBI

Position Markers
RH135007  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X27,053,516 - 27,053,729 (+)MAPPER
Rnor_6.0X28,512,137 - 28,512,349NCBIRnor6.0
Rnor_5.0X28,908,249 - 28,908,461UniSTSRnor5.0
RGSC_v3.4X47,356,777 - 47,356,989UniSTSRGSC3.4
CeleraX27,465,427 - 27,465,639UniSTS
RH 3.4 MapX345.5UniSTS
Cytogenetic MapXq21UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
731181Uae27Urinary albumin excretion QTL 272.70.0059urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)X144092703Rat
70165Bp64Blood pressure QTL 645.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)X166260933443848Rat
1298071Edpm12Estrogen-dependent pituitary mass QTL 123.2pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)X428214049282140Rat
631666Iddm5Insulin dependent diabetes mellitus QTL 5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X595407850954078Rat
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X15688119127888215Rat
71116Niddm16Non-insulin dependent diabetes mellitus QTL 167.81blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X1815335263153352Rat
1598873Memor2Memory QTL 22.5exploratory behavior trait (VT:0010471)average horizontal distance in proximity to the target during voluntary locomotion in an experimental apparatus (CMO:0002674)X2159262344320739Rat
2290375Gluco34Glucose level QTL 342.75blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)X2159262344468300Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:71
Count of miRNA genes:60
Interacting mature miRNAs:63
Transcripts:ENSRNOT00000005620
Prediction methods:Microtar, Miranda, Pita, 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 4 15 2 2
Low 3 31 43 31 4 31 8 8 66 35 31 9 8
Below cutoff 8 10 10 10 3 8 6

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000005620   ⟹   ENSRNOP00000005620
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX28,486,869 - 28,512,957 (+)Ensembl
RefSeq Acc Id: NM_001097582   ⟹   NP_001091051
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X27,027,483 - 27,053,581 (+)NCBI
Rnor_6.0X28,486,929 - 28,512,201 (+)NCBI
Rnor_5.0X28,882,968 - 28,908,584 (+)NCBI
RGSC_v3.4X47,330,737 - 47,356,841 (+)RGD
CeleraX27,439,445 - 27,465,491 (+)RGD
Sequence:
RefSeq Acc Id: XM_006256842   ⟹   XP_006256904
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0X28,505,303 - 28,513,004 (+)NCBI
Rnor_5.0X28,882,968 - 28,908,584 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006256843   ⟹   XP_006256905
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0X28,486,836 - 28,513,004 (+)NCBI
Rnor_5.0X28,882,968 - 28,908,584 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017602079   ⟹   XP_017457568
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X27,027,380 - 27,054,309 (+)NCBI
Rnor_6.0X28,486,836 - 28,513,004 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017602080   ⟹   XP_017457569
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X27,027,420 - 27,054,309 (+)NCBI
Rnor_6.0X28,486,836 - 28,513,004 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017602081   ⟹   XP_017457570
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0X28,508,149 - 28,513,004 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017602082   ⟹   XP_017457571
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0X28,508,004 - 28,513,004 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039099833   ⟹   XP_038955761
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X27,027,421 - 27,054,309 (+)NCBI
RefSeq Acc Id: XM_039099834   ⟹   XP_038955762
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X27,027,380 - 27,054,309 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001091051   ⟸   NM_001097582
- UniProtKB: A5H2Z9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006256905   ⟸   XM_006256843
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006256904   ⟸   XM_006256842
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017457569   ⟸   XM_017602080
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017457568   ⟸   XM_017602079
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017457571   ⟸   XM_017602082
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017457570   ⟸   XM_017602081
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000005620   ⟸   ENSRNOT00000005620
RefSeq Acc Id: XP_038955762   ⟸   XM_039099834
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038955761   ⟸   XM_039099833
- Peptide Label: isoform X2
Protein Domains
TIR

Transcriptome

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

Promoters
RGD ID:13701784
Promoter ID:EPDNEW_R12307
Type:single initiation site
Name:Tlr7_1
Description:toll-like receptor 7
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_6.0X28,486,864 - 28,486,924EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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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)
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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)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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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)
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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)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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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)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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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:1563357 AgrOrtholog
Ensembl Genes ENSRNOG00000004249 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000005620 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000005620 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
  LRR_12 UniProtKB/TrEMBL
  TLR7 UniProtKB/TrEMBL
  Toll-Interleukin_rcpt UniProtKB/TrEMBL
  Toll_tir_struct_dom_sf UniProtKB/TrEMBL
KEGG Report rno:317468 UniProtKB/TrEMBL
NCBI Gene 317468 ENTREZGENE
PANTHER PTHR47410:SF2 UniProtKB/TrEMBL
Pfam LRR_1 UniProtKB/TrEMBL
  LRR_12 UniProtKB/TrEMBL
  LRR_8 UniProtKB/TrEMBL
  TIR UniProtKB/TrEMBL
PhenoGen Tlr7 PhenoGen
PROSITE LRR UniProtKB/TrEMBL
  TIR UniProtKB/TrEMBL
SMART LRR_TYP UniProtKB/TrEMBL
  LRRCT UniProtKB/TrEMBL
  TIR UniProtKB/TrEMBL
Superfamily-SCOP TIR UniProtKB/TrEMBL
UniProt A5H2Z9 ENTREZGENE, UniProtKB/TrEMBL
  U5LJA3_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Tlr7  toll-like receptor 7   Tlr7_predicted  toll-like receptor 7 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Tlr7_predicted  toll-like receptor 7 (predicted)  RGD1563357_predicted  similar to toll-like receptor 7 (predicted)  Symbol and Name updated 1299863 APPROVED
2006-03-07 RGD1563357_predicted  similar to toll-like receptor 7 (predicted)  LOC317468  similar to toll-like receptor 7  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC317468  similar to toll-like receptor 7      Symbol and Name status set to provisional 70820 PROVISIONAL