Tnfrsf8 (TNF receptor superfamily member 8) - Rat Genome Database

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Gene: Tnfrsf8 (TNF receptor superfamily member 8) Rattus norvegicus
Analyze
Symbol: Tnfrsf8
Name: TNF receptor superfamily member 8
RGD ID: 3879
Description: Predicted to enable transmembrane signaling receptor activity. Involved in positive regulation of NF-kappaB transcription factor activity. Predicted to be located in plasma membrane. Orthologous to human TNFRSF8 (TNF receptor superfamily member 8); PARTICIPATES IN cytokine mediated signaling pathway; INTERACTS WITH acetamide; ammonium chloride; arsenous acid.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Cd30; CD30L receptor; lymphocyte activation antigen CD30; tumor necrosis factor receptor superfamily member 8; tumor necrosis factor receptor superfamily, member 8; Tumor necrosis factor superfamily member 8; tumor necrosis factor superfamily member CD30; tumor necrosis factor superfamily, member CD30
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.25157,123,183 - 157,168,421 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5157,123,185 - 157,168,421 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5159,825,817 - 159,871,349 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.05161,599,104 - 161,644,643 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.05161,555,455 - 161,600,991 (-)NCBIRnor_WKY
Rnor_6.05163,186,349 - 163,231,578 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5163,186,349 - 163,231,578 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05166,864,886 - 166,910,671 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45163,716,462 - 163,762,235 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.15163,726,649 - 163,772,415 (-)NCBI
Celera5155,412,388 - 155,457,954 (-)NCBICelera
RH 3.4 Map51065.7RGD
Cytogenetic Map5q36NCBI
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

References - curated
# Reference Title Reference Citation
1. Cloning and characterization of a cDNA for rat CD30 homolog and chromosomal assignment of the genomic gene. Aizawa S, etal., Gene 1996 Dec 5;182(1-2):155-62.
2. 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.
3. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
4. Signalling through CD30 protects against autoimmune diabetes mediated by CD8 T cells. Kurts C, etal., Nature. 1999 Mar 25;398(6725):341-4.
5. High-density rat radiation hybrid maps containing over 24,000 SSLPs, genes, and ESTs provide a direct link to the rat genome sequence. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
6. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
7. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
8. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
9. GOA pipeline RGD automated data pipeline
10. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
11. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
12. Comprehensive gene review and curation RGD comprehensive gene curation
13. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
Additional References at PubMed
PMID:8999898   PMID:16108830   PMID:19593445   PMID:20458337  


Genomics

Comparative Map Data
Tnfrsf8
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.25157,123,183 - 157,168,421 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5157,123,185 - 157,168,421 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5159,825,817 - 159,871,349 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.05161,599,104 - 161,644,643 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.05161,555,455 - 161,600,991 (-)NCBIRnor_WKY
Rnor_6.05163,186,349 - 163,231,578 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5163,186,349 - 163,231,578 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05166,864,886 - 166,910,671 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45163,716,462 - 163,762,235 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.15163,726,649 - 163,772,415 (-)NCBI
Celera5155,412,388 - 155,457,954 (-)NCBICelera
RH 3.4 Map51065.7RGD
Cytogenetic Map5q36NCBI
TNFRSF8
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38112,063,303 - 12,144,207 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl112,063,303 - 12,144,207 (+)EnsemblGRCh38hg38GRCh38
GRCh37112,123,360 - 12,204,264 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36112,046,021 - 12,126,851 (+)NCBINCBI36Build 36hg18NCBI36
Build 34112,120,221 - 12,138,528NCBI
Celera111,236,734 - 11,317,553 (+)NCBICelera
Cytogenetic Map1p36.22NCBI
HuRef111,277,612 - 11,357,523 (+)NCBIHuRef
CHM1_1112,111,329 - 12,192,169 (+)NCBICHM1_1
T2T-CHM13v2.0111,607,442 - 11,688,342 (+)NCBIT2T-CHM13v2.0
Tnfrsf8
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394144,993,702 - 145,041,734 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl4144,993,707 - 145,041,734 (-)EnsemblGRCm39 Ensembl
GRCm384145,267,132 - 145,315,164 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4145,267,137 - 145,315,164 (-)EnsemblGRCm38mm10GRCm38
MGSCv374144,858,879 - 144,905,050 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv364144,535,663 - 144,581,834 (-)NCBIMGSCv36mm8
Celera4146,859,235 - 146,903,716 (-)NCBICelera
Cytogenetic Map4E1NCBI
cM Map478.17NCBI
Tnfrsf8
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554861,839,642 - 1,910,080 (-)NCBIChiLan1.0ChiLan1.0
TNFRSF8
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1112,029,038 - 12,108,495 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl112,029,038 - 12,108,495 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0110,813,111 - 10,893,005 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
TNFRSF8
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1284,185,445 - 84,225,986 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl284,186,961 - 84,232,675 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha280,718,898 - 80,759,203 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0284,846,192 - 84,886,695 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl284,847,766 - 84,936,785 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1281,596,265 - 81,636,510 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0282,596,295 - 82,636,747 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0283,661,577 - 83,702,020 (-)NCBIUU_Cfam_GSD_1.0
Tnfrsf8
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505835,006,667 - 35,066,082 (+)NCBIHiC_Itri_2
SpeTri2.0NW_004936474814,510 - 889,851 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TNFRSF8
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1672,103,309 - 72,174,882 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2666,086,273 - 66,128,007 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TNFRSF8
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.120119,656,183 - 119,736,151 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl20119,657,614 - 119,715,078 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605423,512,780 - 23,552,347 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tnfrsf8
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624818957,597 - 996,565 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Tnfrsf8
268 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:239
Count of miRNA genes:153
Interacting mature miRNAs:187
Transcripts:ENSRNOT00000022968
Prediction methods:Miranda, 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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)52138965166875058Rat
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)546711509161317411Rat
61393Bp7Blood pressure QTL 74.50.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)560293434161481680Rat
1302790Scl20Serum cholesterol level QTL 206.40.0001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)582394392166664054Rat
1641920Colcs1Colorectal carcinoma susceptibility QTL 12.990.0055intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)5121846814166846814Rat
10053720Scort26Serum corticosterone level QTL 262.060.0147blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)5124965598166875058Rat
724525Bp147Blood pressure QTL 1474.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5126424772166875058Rat
1598819Bp292Blood pressure QTL 2924.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5127798274166875058Rat
1598861Cm64Cardiac mass QTL 642.9heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5127798274166875058Rat
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)5128506074166875058Rat
8694169Bw148Body weight QTL 14850.001body mass (VT:0001259)body weight gain (CMO:0000420)5128506074166875058Rat
634349Bp139Blood pressure QTL 1390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5128924607166875058Rat
738018Anxrr4Anxiety related response QTL 45.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)5130130159166875058Rat
7794791Mcs33Mammary carcinoma susceptibility QTL 331.93mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)5131345754166875058Rat
631505Bp103Blood pressure QTL 1033.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5132717196165560427Rat
631562Apr2Acute phase response QTL 23.7blood murinoglobulin 1 amount (VT:0010597)plasma murinoglobulin 1 level (CMO:0001931)5135927956166875058Rat
61444Strs2Sensitivity to stroke QTL 24.7cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)5135929696166875058Rat
1331721Bp210Blood pressure QTL 2103.413arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)5143069996166846814Rat
2302369Scl60Serum cholesterol level QTL 603.13blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)5143608201161165651Rat
631263Cm24Cardiac mass QTL 243.5heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)5143799107158428037Rat
1300119Bp180Blood pressure QTL 1803.82arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)5144358090157869054Rat
2313096Bmd78Bone mineral density QTL 783.10.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)5144377876161317411Rat
1298090Bp155Blood pressure QTL 1553.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)5151006154161165494Rat
1354631Swd2Spike wave discharge measurement QTL 23.640.0002brain electrophysiology trait (VT:0010557)brain total spike-and-wave discharge duration (CMO:0001740)5151113452164465185Rat
631272Lanf1Left ventricular atrial natriuretic factor QTL 112heart left ventricle natriuretic peptide A amount (VT:0010596)heart left ventricle natriuretic peptide A level (CMO:0002165)5151113452166875058Rat
1549904Neuinf1Neuroinflammation QTL 130nervous system integrity trait (VT:0010566)blood T lymphocyte count (CMO:0000110)5154828214166875058Rat

Markers in Region
RH94435  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25157,123,186 - 157,123,377 (+)MAPPERmRatBN7.2
Rnor_6.05163,186,351 - 163,186,541NCBIRnor6.0
Rnor_5.05166,864,890 - 166,865,080UniSTSRnor5.0
RGSC_v3.45163,716,464 - 163,716,654UniSTSRGSC3.4
Celera5155,412,390 - 155,412,580UniSTS
RH 3.4 Map51065.7UniSTS
Cytogenetic Map5q36.2UniSTS
AU049470  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25157,134,335 - 157,134,568 (+)MAPPERmRatBN7.2
Rnor_6.05163,197,498 - 163,197,730NCBIRnor6.0
Rnor_5.05166,875,933 - 166,876,191UniSTSRnor5.0
RGSC_v3.45163,727,562 - 163,728,357UniSTSRGSC3.4
Celera5155,423,448 - 155,424,106UniSTS
Cytogenetic Map5q36.2UniSTS


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 2 2
Low 2 12 17 2 6 11
Below cutoff 1 18 10 10 10 8 11 36 12 26 8

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000022968   ⟹   ENSRNOP00000022967
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5157,123,185 - 157,168,421 (-)Ensembl
Rnor_6.0 Ensembl5163,186,349 - 163,231,578 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000085929   ⟹   ENSRNOP00000074409
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl5163,188,170 - 163,231,494 (-)Ensembl
RefSeq Acc Id: NM_019135   ⟹   NP_062008
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25157,123,183 - 157,168,421 (-)NCBI
Rnor_6.05163,186,349 - 163,231,578 (-)NCBI
Rnor_5.05166,864,886 - 166,910,671 (-)NCBI
RGSC_v3.45163,716,462 - 163,762,235 (-)RGD
Celera5155,412,388 - 155,457,954 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_062008 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein BAA07699 (Get FASTA)   NCBI Sequence Viewer  
  P97525 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_062008   ⟸   NM_019135
- Peptide Label: precursor
- Sequence:
RefSeq Acc Id: ENSRNOP00000074409   ⟸   ENSRNOT00000085929
RefSeq Acc Id: ENSRNOP00000022967   ⟸   ENSRNOT00000022968
Protein Domains
TNFR-Cys

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P97525-F1-model_v2 AlphaFold P97525 1-492 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:3879 AgrOrtholog
BioCyc Gene G2FUF-39250 BioCyc
Ensembl Genes ENSRNOG00000016782 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000022967 ENTREZGENE
  ENSRNOP00000022967.5 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000022968 ENTREZGENE
  ENSRNOT00000022968.5 UniProtKB/TrEMBL
InterPro TNFR/NGFR_Cys_rich_reg UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TNFR_8 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TNFRSF8_N UniProtKB/TrEMBL
KEGG Report rno:25069 UniProtKB/Swiss-Prot
NCBI Gene 25069 ENTREZGENE
PhenoGen Tnfrsf8 PhenoGen
PRINTS TNFACTORR8 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE TNFR_NGFR_1 UniProtKB/TrEMBL
  TNFR_NGFR_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART TNFR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC212021
UniProt F1LNN5_RAT UniProtKB/TrEMBL
  P97525 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary A0A0G2K7Z6 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-07-05 Tnfrsf8  TNF receptor superfamily member 8  Tnfrsf8  tumor necrosis factor receptor superfamily, member 8  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2001-06-22 Cd30  tumor necrosis factor superfamily, member CD30      Symbol withdrawn, duplicate of Tnfrsf8 (RGD:3879) 67952 WITHDRAWN
2001-06-22 Tnfrsf8  Tumor necrosis factor superfamily, member 8      Name updated 67952 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_domains contains a single transmembrane domain 730027
gene_protein 493 amino acids 730027