Tnfrsf18 (TNF receptor superfamily member 18) - Rat Genome Database

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Gene: Tnfrsf18 (TNF receptor superfamily member 18) Rattus norvegicus
Analyze
Symbol: Tnfrsf18
Name: TNF receptor superfamily member 18
RGD ID: 1565872
Description: Predicted to enable tumor necrosis factor receptor activity. Predicted to be involved in positive regulation of cell adhesion and positive regulation of leukocyte migration. Predicted to be located in plasma membrane. Predicted to be active in external side of plasma membrane. Orthologous to human TNFRSF18 (TNF receptor superfamily member 18); PARTICIPATES IN cytokine mediated signaling pathway; INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC500598; similar to tumor necrosis factor receptor superfamily, member 18; tumor necrosis factor receptor superfamily member 18; tumor necrosis factor receptor superfamily, member 18
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85171,901,734 - 171,904,578 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl5171,901,717 - 171,904,576 (+)EnsemblGRCr8
mRatBN7.25166,618,461 - 166,622,353 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5166,618,969 - 166,622,353 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx5169,323,289 - 169,325,887 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05171,144,711 - 171,147,309 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05171,107,243 - 171,109,841 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.05173,459,371 - 173,463,980 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5173,460,354 - 173,463,140 (+)Ensemblrn6Rnor6.0
Rnor_5.05176,933,400 - 176,938,350 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.45172,869,196 - 172,871,795 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera5164,820,612 - 164,823,210 (+)NCBICelera
Cytogenetic Map5q36NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
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. Evaluation of T Regulatory Lymphocytes Transcription Factors in HTLV-1-Associated Myelopathy/Tropical Spastic Paraparesis (HAM/TSP) Patients. Ghezeldasht SA, etal., Appl Biochem Biotechnol. 2017 Aug;182(4):1403-1414. doi: 10.1007/s12010-017-2406-7. Epub 2017 Jan 18.
3. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
4. In vivo fluctuation of Tax, Foxp3, CTLA-4, and GITR mRNA expression in CD4(+)CD25(+) T cells of patients with human T-lymphotropic virus type 1-associated myelopathy. Ramirez E, etal., Braz J Med Biol Res. 2010 Nov;43(11):1109-15. doi: 10.1590/s0100-879x2010007500107. Epub 2010 Oct 8.
5. GOA pipeline RGD automated data pipeline
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
7. 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.
8. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:16227984   PMID:16769892   PMID:23892569  


Genomics

Comparative Map Data
Tnfrsf18
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85171,901,734 - 171,904,578 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl5171,901,717 - 171,904,576 (+)EnsemblGRCr8
mRatBN7.25166,618,461 - 166,622,353 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5166,618,969 - 166,622,353 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx5169,323,289 - 169,325,887 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05171,144,711 - 171,147,309 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05171,107,243 - 171,109,841 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.05173,459,371 - 173,463,980 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5173,460,354 - 173,463,140 (+)Ensemblrn6Rnor6.0
Rnor_5.05176,933,400 - 176,938,350 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.45172,869,196 - 172,871,795 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera5164,820,612 - 164,823,210 (+)NCBICelera
Cytogenetic Map5q36NCBI
TNFRSF18
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3811,203,508 - 1,206,592 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl11,203,508 - 1,206,592 (-)Ensemblhg38GRCh38
GRCh3711,138,888 - 1,141,972 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3611,128,751 - 1,131,952 (-)NCBIBuild 36Build 36hg18NCBI36
Celera11,441,567 - 1,444,768 (+)NCBICelera
Cytogenetic Map1p36.33NCBI
HuRef1410,603 - 413,804 (-)NCBIHuRef
CHM1_111,125,362 - 1,128,563 (-)NCBICHM1_1
T2T-CHM13v2.01631,965 - 635,049 (-)NCBIT2T-CHM13v2.0
Tnfrsf18
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394156,110,779 - 156,113,351 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl4156,110,621 - 156,113,352 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm384156,026,322 - 156,028,894 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4156,026,164 - 156,028,895 (+)Ensemblmm10GRCm38
MGSCv374155,400,451 - 155,403,000 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv364154,870,142 - 154,872,691 (+)NCBIMGSCv36mm8
Celera4158,288,886 - 158,291,431 (+)NCBICelera
Cytogenetic Map4E2NCBI
cM Map487.76NCBI
Tnfrsf18
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554869,571,530 - 9,573,733 (+)Ensembl
ChiLan1.0NW_0049554869,571,527 - 9,573,733 (+)NCBIChiLan1.0ChiLan1.0
TNFRSF18
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21227,018,219 - 227,022,812 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11225,714,938 - 225,719,522 (+)NCBINHGRI_mPanPan1
PanPan1.111,160,540 - 1,163,839 (-)NCBIPanPan1.1PanPan1.1panPan2
TNFRSF18
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1556,394,559 - 56,397,502 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl556,394,659 - 56,397,741 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha556,471,888 - 56,474,440 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0556,597,800 - 56,600,352 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl556,597,546 - 56,600,352 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1556,588,543 - 56,591,095 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0556,480,829 - 56,483,381 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0556,870,818 - 56,873,370 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Tnfrsf18
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505827,555,513 - 27,560,643 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049367371,905,307 - 1,910,356 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TNFRSF18
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl663,516,045 - 63,518,405 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1663,516,037 - 63,519,323 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2658,018,980 - 58,021,594 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TNFRSF18
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.120130,237,950 - 130,243,303 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl20130,225,847 - 130,242,251 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366605434,806,938 - 34,812,229 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tnfrsf18
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248188,378,131 - 8,379,974 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046248188,376,204 - 8,380,266 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Tnfrsf18
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v114,625,343 - 4,627,966 (-)NCBIRrattus_CSIRO_v1

miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:91
Count of miRNA genes:76
Interacting mature miRNAs:82
Transcripts:ENSRNOT00000038747
Prediction methods:Miranda, Rnahybrid
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1576312Emca8Estrogen-induced mammary cancer QTL 84.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)555124766172190305Rat
10053720Scort26Serum corticosterone level QTL 262.060.0147blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)5130249266172190305Rat
1354583Despr3Despair related QTL34.980.0002locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)5132930505172190305Rat
61444Strs2Sensitivity to stroke QTL 24.7cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)5141212838172190305Rat
724525Bp147Blood pressure QTL 1474.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5131708216172190305Rat
61452Ciaa5CIA Autoantibody QTL 53.5blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)599905133172190305Rat
8552908Pigfal4Plasma insulin-like growth factor 1 level QTL 46.6blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5133789363172190305Rat
1331803Rf32Renal function QTL 322.798kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)5134369199172190305Rat
7794791Mcs33Mammary carcinoma susceptibility QTL 331.93mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)5136631198172190305Rat
1354631Swd2Spike wave discharge measurement QTL 23.640.0002brain electrophysiology trait (VT:0010557)brain total spike-and-wave discharge duration (CMO:0001740)5156396728172190305Rat
1598861Cm64Cardiac mass QTL 642.9heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5133081618172190305Rat
1581505Rf54Renal function QTL 54kidney physiology trait (VT:0002136)kidney 20-HETE level (CMO:0001854)5133270647172190305Rat
1641920Colcs1Colorectal carcinoma susceptibility QTL 12.990.0055intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)5160071170172129029Rat
2317753Glom24Glomerulus QTL 243.1kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)5141764300172190305Rat
1598819Bp292Blood pressure QTL 2924.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5133081618172190305Rat
8694169Bw148Body weight QTL 14850.001body mass (VT:0001259)body weight gain (CMO:0000420)5133789363172190305Rat
1331721Bp210Blood pressure QTL 2103.413arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)5148093485172129029Rat
1581510Cm54Cardiac mass QTL 543.40.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)5125969677172190305Rat

Markers in Region
U82534  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25166,622,120 - 166,622,262 (+)MAPPERmRatBN7.2
Rnor_6.05173,462,996 - 173,463,137NCBIRnor6.0
Rnor_5.05176,937,016 - 176,937,157UniSTSRnor5.0
RGSC_v3.45172,871,563 - 172,871,704UniSTSRGSC3.4
Celera5164,822,978 - 164,823,119UniSTS
Cytogenetic Map5q36UniSTS
UniSTS:479307  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25166,621,473 - 166,621,795 (+)MAPPERmRatBN7.2
Rnor_6.05173,462,349 - 173,462,670NCBIRnor6.0
Rnor_5.05176,936,369 - 176,936,690UniSTSRnor5.0
RGSC_v3.45172,870,916 - 172,871,237UniSTSRGSC3.4
Celera5164,822,331 - 164,822,652UniSTS
Cytogenetic Map5q36UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 11 61 77 86 86 55 92 55 6 342 185 11 52 79 78 31 7 7

Sequence


Ensembl Acc Id: ENSRNOT00000038747   ⟹   ENSRNOP00000035610
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl5171,901,717 - 171,904,576 (+)Ensembl
mRatBN7.2 Ensembl5166,618,969 - 166,622,353 (+)Ensembl
Rnor_6.0 Ensembl5173,460,354 - 173,463,140 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000115857   ⟹   ENSRNOP00000094046
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl5171,901,717 - 171,904,208 (+)Ensembl
mRatBN7.2 Ensembl5166,619,754 - 166,621,983 (+)Ensembl
RefSeq Acc Id: NM_001024349   ⟹   NP_001019520
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85171,901,980 - 171,904,578 (+)NCBI
mRatBN7.25166,619,755 - 166,622,353 (+)NCBI
Rnor_6.05173,460,630 - 173,463,228 (+)NCBI
Rnor_5.05176,933,400 - 176,938,350 (+)NCBI
RGSC_v3.45172,869,196 - 172,871,795 (+)RGD
Celera5164,820,612 - 164,823,210 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039110656   ⟹   XP_038966584
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85171,901,734 - 171,904,034 (+)NCBI
mRatBN7.25166,618,461 - 166,621,809 (+)NCBI
RefSeq Acc Id: NP_001019520   ⟸   NM_001024349
- Peptide Label: precursor
- UniProtKB: A6IUV5 (UniProtKB/TrEMBL),   F7FFS7 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000035610   ⟸   ENSRNOT00000038747
RefSeq Acc Id: XP_038966584   ⟸   XM_039110656
- Peptide Label: isoform X1
Ensembl Acc Id: ENSRNOP00000094046   ⟸   ENSRNOT00000115857
Protein Domains
TNFR-Cys

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F7FFS7-F1-model_v2 AlphaFold F7FFS7 1-274 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1565872 AgrOrtholog
BioCyc Gene G2FUF-38877 BioCyc
Ensembl Genes ENSRNOG00000022012 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000038747 ENTREZGENE
  ENSRNOT00000038747.6 UniProtKB/TrEMBL
  ENSRNOT00000115857.2 UniProtKB/TrEMBL
Gene3D-CATH Tumor Necrosis Factor Receptor, subunit A, domain 2 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7377562 IMAGE-MGC_LOAD
InterPro TNFR/NGFR_Cys_rich_reg UniProtKB/TrEMBL
  TNFR_18 UniProtKB/TrEMBL
  TNFRSF18 UniProtKB/TrEMBL
  TNFRSF18_N UniProtKB/TrEMBL
MGC_CLONE MGC:109095 IMAGE-MGC_LOAD
NCBI Gene 500598 ENTREZGENE
PANTHER TUMOR NECROSIS FACTOR RECEPTOR SUPERFAMILY MEMBER 18 UniProtKB/TrEMBL
  TUMOR NECROSIS FACTOR RECEPTOR SUPERFAMILY MEMBER 18 UniProtKB/TrEMBL
PhenoGen Tnfrsf18 PhenoGen
PRINTS TNFACTORR18 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000022012 RatGTEx
SMART TNFR UniProtKB/TrEMBL
UniProt A0A8I6AIP6_RAT UniProtKB/TrEMBL
  A6IUV5 ENTREZGENE, UniProtKB/TrEMBL
  F7FFS7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-07-05 Tnfrsf18  TNF receptor superfamily member 18  Tnfrsf18  tumor necrosis factor receptor superfamily, member 18  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-04-21 Tnfrsf18  tumor necrosis factor receptor superfamily, member 18  LOC500598  similar to tumor necrosis factor receptor superfamily, member 18  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-02-09 LOC500598  similar to tumor necrosis factor receptor superfamily, member 18      Symbol and Name status set to provisional 70820 PROVISIONAL