Tlr13 (toll-like receptor 13) - Rat Genome Database

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Gene: Tlr13 (toll-like receptor 13) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Tlr13
Name: toll-like receptor 13
RGD ID: 1562655
Description: Predicted to enable transforming growth factor beta binding activity. Predicted to be involved in immune response and transforming growth factor beta receptor signaling pathway. Predicted to be located in membrane. Predicted to be active in extracellular space; INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: AABR07039446.2; LOC317227; RGD1562655; similar to toll-like receptor 13
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X75,285,832 - 75,307,935 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblX75,285,868 - 75,307,933 (+)EnsemblGRCr8
mRatBN7.2X71,220,288 - 71,241,899 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX71,220,367 - 71,242,376 (+)EnsemblmRatBN7.2
Rnor_6.0X77,216,312 - 77,234,046 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX77,212,458 - 77,234,046 (+)NCBIrn6Rnor6.0
Rnor_5.0X56,345,918 - 56,353,784 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4X94,289,915 - 94,293,710 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
CeleraX72,531,636 - 72,553,819 (+)NCBICelera
Cytogenetic MapXq22NCBI
JBrowse:




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

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Variants

.
Variants in Tlr13
79 total Variants

QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X14843113120568734Rat
61431Cia19Collagen induced arthritis QTL 194.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X65612192120568734Rat
738035Stresp1Stress response QTL 14.960.000011stress-related behavior trait (VT:0010451)defensive burying - copingX41304447112935181Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between duration of physical contact or close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X41052407146860749Rat

Markers in Region
AI666735  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X71,241,550 - 71,241,717 (+)MAPPERmRatBN7.2
Rnor_6.0X77,233,698 - 77,233,864NCBIRnor6.0
Rnor_5.0X56,353,436 - 56,353,602UniSTSRnor5.0
RGSC_v3.4X94,293,364 - 94,293,530UniSTSRGSC3.4
CeleraX72,553,471 - 72,553,637UniSTS
Cytogenetic MapXq31UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
hemolymphoid system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
sensory system
visual system
12 2 26 92 126 235 169 19 90 54 52 26 26

Sequence


Ensembl Acc Id: ENSRNOT00000077639   ⟹   ENSRNOP00000076738
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX75,285,938 - 75,307,933 (+)Ensembl
mRatBN7.2 EnsemblX71,220,377 - 71,242,376 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000085879   ⟹   ENSRNOP00000075884
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX75,285,868 - 75,307,933 (+)Ensembl
mRatBN7.2 EnsemblX71,220,367 - 71,242,376 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000100204   ⟹   ENSRNOP00000082125
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX75,293,833 - 75,307,933 (+)Ensembl
mRatBN7.2 EnsemblX71,220,377 - 71,242,376 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000104189   ⟹   ENSRNOP00000081297
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX75,285,958 - 75,307,927 (+)Ensembl
mRatBN7.2 EnsemblX71,234,617 - 71,242,376 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000105777   ⟹   ENSRNOP00000079197
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX75,297,564 - 75,307,933 (+)Ensembl
mRatBN7.2 EnsemblX71,231,899 - 71,242,375 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000122040   ⟹   ENSRNOP00000110900
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX75,298,662 - 75,307,441 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000136650   ⟹   ENSRNOP00000110989
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX75,285,900 - 75,307,933 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000156159   ⟹   ENSRNOP00000110894
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX75,302,449 - 75,307,642 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000166630   ⟹   ENSRNOP00000102494
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX75,296,948 - 75,307,642 (+)Ensembl
RefSeq Acc Id: NM_001408859   ⟹   NP_001395788
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X75,285,832 - 75,307,441 (+)NCBI
mRatBN7.2X71,220,288 - 71,241,899 (+)NCBI
RefSeq Acc Id: NM_001408860   ⟹   NP_001395789
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X75,297,384 - 75,307,441 (+)NCBI
mRatBN7.2X71,231,841 - 71,241,899 (+)NCBI
RefSeq Acc Id: NM_001408861   ⟹   NP_001395790
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X75,298,662 - 75,307,441 (+)NCBI
mRatBN7.2X71,233,119 - 71,241,899 (+)NCBI
RefSeq Acc Id: XM_063280024   ⟹   XP_063136094
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X75,285,943 - 75,307,935 (+)NCBI
Ensembl Acc Id: ENSRNOP00000081297   ⟸   ENSRNOT00000104189
Ensembl Acc Id: ENSRNOP00000079197   ⟸   ENSRNOT00000105777
Ensembl Acc Id: ENSRNOP00000075884   ⟸   ENSRNOT00000085879
Ensembl Acc Id: ENSRNOP00000082125   ⟸   ENSRNOT00000100204
Ensembl Acc Id: ENSRNOP00000076738   ⟸   ENSRNOT00000077639
RefSeq Acc Id: NP_001395788   ⟸   NM_001408859
- Peptide Label: precursor
- UniProtKB: A0A0U1RS05 (UniProtKB/TrEMBL),   A6IV42 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001395789   ⟸   NM_001408860
- Peptide Label: precursor
- UniProtKB: A0A0U1RS05 (UniProtKB/TrEMBL),   A6IV42 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001395790   ⟸   NM_001408861
- Peptide Label: precursor
- UniProtKB: A0A0U1RS05 (UniProtKB/TrEMBL),   A6IV42 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063136094   ⟸   XM_063280024
- Peptide Label: isoform X1
- UniProtKB: A0A0U1RS05 (UniProtKB/TrEMBL),   A6IV42 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000102494   ⟸   ENSRNOT00000166630
Ensembl Acc Id: ENSRNOP00000110900   ⟸   ENSRNOT00000122040
Ensembl Acc Id: ENSRNOP00000110989   ⟸   ENSRNOT00000136650
Ensembl Acc Id: ENSRNOP00000110894   ⟸   ENSRNOT00000156159
Protein Domains
TIR

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0U1RS05-F1-model_v2 AlphaFold A0A0U1RS05 1-986 view protein structure

Transcriptome

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

Promoters
RGD ID:13701904
Promoter ID:EPDNEW_R12425
Type:multiple initiation site
Name:Tlr13_1
Description:Toll-like receptor 13
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_6.0X77,212,469 - 77,212,529EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1562655 AgrOrtholog
BioCyc Gene G2FUF-1924 BioCyc
Ensembl Genes ENSRNOG00000061403 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000077639.2 UniProtKB/TrEMBL
  ENSRNOT00000085879 ENTREZGENE
  ENSRNOT00000085879.2 UniProtKB/TrEMBL
  ENSRNOT00000100204.1 UniProtKB/TrEMBL
  ENSRNOT00000104189.1 UniProtKB/TrEMBL
  ENSRNOT00000105777.1 UniProtKB/TrEMBL
  ENSRNOT00000122040 ENTREZGENE
  ENSRNOT00000136650 ENTREZGENE
  ENSRNOT00000166630 ENTREZGENE
Gene3D-CATH 3.40.50.10140 UniProtKB/TrEMBL
  3.80.10.10 UniProtKB/TrEMBL
InterPro Leu-rich_rpt UniProtKB/TrEMBL
  Leu-rich_rpt_typical-subtyp UniProtKB/TrEMBL
  LRR_dom_sf UniProtKB/TrEMBL
  TIR_dom UniProtKB/TrEMBL
  Toll_tir_struct_dom_sf UniProtKB/TrEMBL
NCBI Gene 317227 ENTREZGENE
PANTHER PTHR24365 UniProtKB/TrEMBL
  TOLL-LIKE RECEPTOR 13 UniProtKB/TrEMBL
Pfam LRR_1 UniProtKB/TrEMBL
  LRR_8 UniProtKB/TrEMBL
  TIR UniProtKB/TrEMBL
PhenoGen Tlr13 PhenoGen
PROSITE LRR UniProtKB/TrEMBL
  TIR UniProtKB/TrEMBL
RatGTEx ENSRNOG00000061403 RatGTEx
SMART LRR_SD22 UniProtKB/TrEMBL
  LRR_TYP UniProtKB/TrEMBL
  TIR UniProtKB/TrEMBL
Superfamily-SCOP L domain-like UniProtKB/TrEMBL
  SSF52200 UniProtKB/TrEMBL
UniProt A0A0U1RS05 ENTREZGENE, UniProtKB/TrEMBL
  A6IV42 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-06-02 Tlr13  toll-like receptor 13  AABR07039446.2    Data merged from RGD:15014059 737654 PROVISIONAL
2019-11-08 AABR07039446.2        Symbol and Name status set to provisional 45752 PROVISIONAL
2012-10-12 Tlr13  toll-like receptor 13  RGD1562655  similar to toll-like receptor 13  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1562655  similar to toll-like receptor 13   RGD1562655_predicted  similar to toll-like receptor 13 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1562655_predicted  similar to toll-like receptor 13 (predicted)  LOC317227  similar to toll-like receptor 13  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC317227  similar to toll-like receptor 13      Symbol and Name status set to provisional 70820 PROVISIONAL