Tnfsf8 (TNF superfamily member 8) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Tnfsf8 (TNF superfamily member 8) Rattus norvegicus
Analyze
Symbol: Tnfsf8
Name: TNF superfamily member 8
RGD ID: 1590403
Description: Predicted to enable tumor necrosis factor receptor binding activity. Predicted to be involved in CD8-positive, alpha-beta T cell differentiation. Predicted to act upstream of or within defense response to Gram-positive bacterium and positive regulation of transcription by RNA polymerase II. Predicted to be located in membrane. Orthologous to human TNFSF8 (TNF superfamily member 8); PARTICIPATES IN cytokine mediated signaling pathway; INTERACTS WITH 1-naphthyl isothiocyanate; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: CD30 antigen ligand; LOC683163; similar to Tumor necrosis factor ligand superfamily member 8 (CD30 ligand) (CD30-L) (CD153 antigen); Tnlg3a; tumor necrosis factor (ligand) superfamily, member 8; tumor necrosis factor ligand 3a; tumor necrosis factor ligand superfamily member 8; tumor necrosis factor superfamily member 8
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
GRCr8582,266,436 - 82,292,858 (-)NCBIGRCr8
mRatBN7.2577,250,942 - 77,277,364 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl577,251,373 - 77,277,421 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx579,650,484 - 79,673,835 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0581,467,688 - 81,491,043 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0581,443,163 - 81,466,514 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0579,664,779 - 79,691,547 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl579,664,765 - 79,691,258 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0583,767,957 - 83,794,108 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera576,184,919 - 76,207,847 (-)NCBICelera
Cytogenetic Map5q24NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
membrane  (IEA)

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. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
3. GOA pipeline RGD automated data pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:1300497   PMID:11728464   PMID:16177108   PMID:26646413  


Genomics

Comparative Map Data
Tnfsf8
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8582,266,436 - 82,292,858 (-)NCBIGRCr8
mRatBN7.2577,250,942 - 77,277,364 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl577,251,373 - 77,277,421 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx579,650,484 - 79,673,835 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0581,467,688 - 81,491,043 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0581,443,163 - 81,466,514 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0579,664,779 - 79,691,547 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl579,664,765 - 79,691,258 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0583,767,957 - 83,794,108 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera576,184,919 - 76,207,847 (-)NCBICelera
Cytogenetic Map5q24NCBI
TNFSF8
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389114,893,343 - 114,930,595 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl9114,893,343 - 114,930,595 (-)EnsemblGRCh38hg38GRCh38
GRCh379117,655,623 - 117,692,875 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 369116,704,945 - 116,732,591 (-)NCBINCBI36Build 36hg18NCBI36
Build 349114,744,677 - 114,772,324NCBI
Celera988,312,551 - 88,340,202 (-)NCBICelera
Cytogenetic Map9q32-q33.1NCBI
HuRef987,260,238 - 87,297,495 (-)NCBIHuRef
CHM1_19117,802,301 - 117,839,555 (-)NCBICHM1_1
T2T-CHM13v2.09127,085,794 - 127,123,084 (-)NCBIT2T-CHM13v2.0
Tnfsf8
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39463,749,439 - 63,779,745 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl463,749,545 - 63,779,584 (-)EnsemblGRCm39 Ensembl
GRCm38463,831,202 - 63,861,508 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl463,831,308 - 63,861,347 (-)EnsemblGRCm38mm10GRCm38
MGSCv37463,493,858 - 63,522,318 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36463,319,185 - 63,347,645 (-)NCBIMGSCv36mm8
Celera462,493,278 - 62,521,708 (-)NCBICelera
Cytogenetic Map4C1NCBI
cM Map434.06NCBI
Tnfsf8
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541912,762,748 - 12,788,117 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541912,763,343 - 12,790,044 (+)NCBIChiLan1.0ChiLan1.0
TNFSF8
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21124,438,913 - 24,476,711 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1924,441,274 - 24,479,072 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0985,998,567 - 86,036,373 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.19114,360,206 - 114,397,465 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9114,360,206 - 114,397,822 (-)Ensemblpanpan1.1panPan2
TNFSF8
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11168,979,498 - 69,006,898 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1168,982,360 - 69,007,355 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1167,382,605 - 67,408,573 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01170,104,816 - 70,130,774 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1170,106,245 - 70,131,219 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11168,618,787 - 68,644,979 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01168,659,603 - 68,685,784 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01169,390,910 - 69,416,891 (-)NCBIUU_Cfam_GSD_1.0
Tnfsf8
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947184,288,120 - 184,312,680 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364874,057,643 - 4,081,207 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364874,057,637 - 4,081,207 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TNFSF8
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1255,432,969 - 255,459,073 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11255,436,206 - 255,459,020 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21286,548,214 - 286,571,052 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TNFSF8
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11224,646,797 - 24,684,341 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1224,647,412 - 24,678,466 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603518,146,833 - 18,185,831 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tnfsf8
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476020,253,437 - 20,280,522 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462476020,251,390 - 20,280,358 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Tnfsf8
149 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:88
Count of miRNA genes:73
Interacting mature miRNAs:82
Transcripts:ENSRNOT00000072920
Prediction methods:Microtar, Miranda, 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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1331756Rf34Renal function QTL 344.16275kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)5190450412Rat
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)51131345958Rat
1331771Rf35Renal function QTL 354.36965kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)572947086724018Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)52138965166875058Rat
7394712Emca13Estrogen-induced mammary cancer QTL 13mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)5982326699753708Rat
634305Mamtr1Mammary tumor resistance QTL 10.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)512789751113558310Rat
2290448Scl54Serum cholesterol level QTL 542.93blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)531663789131345958Rat
1598807Glom12Glomerulus QTL 122.7kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)53321566578215665Rat
1298067Scl15Serum cholesterol level QTL 154.80.001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)53321566578215665Rat
1302786Kidm8Kidney mass QTL 828.15kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)53321566578215665Rat
1576317Eutr2Estrogen induced uterine response QTL 20.01uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)534730116104251008Rat
2316959Gluco59Glucose level QTL 594.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)534944474113558310Rat
1641912Alcrsp18Alcohol response QTL 18response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)535189153141643988Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)540128307148607290Rat
1331773Scl26Serum cholesterol level QTL 263.065blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)54372665686724018Rat
1331801Rf33Renal function QTL 334.149kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)543726656129132602Rat
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
1300115Hrtrt7Heart rate QTL 72.76heart pumping trait (VT:2000009)heart rate (CMO:0000002)54786906290099692Rat
9589025Epfw7Epididymal fat weight QTL 720.660.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)54946360094463600Rat
7411561Bw134Body weight QTL 134240.001body mass (VT:0001259)body weight gain (CMO:0000420)54946360094463600Rat
1576312Emca8Estrogen-induced mammary cancer QTL 84.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)550328551141643988Rat
2303615Vencon7Ventilatory control QTL 70.001respiration trait (VT:0001943)respiration rate (CMO:0000289)55098389595983895Rat
2303574Gluco42Glucose level QTL 422blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)55349671998496719Rat
61359EaexExperimental allergic encephalomyelitis QTL x3nervous system integrity trait (VT:0010566)post-insult time to onset of experimental autoimmune encephalomyelitis (CMO:0001422)555715622100715622Rat
70189Mcs5Mammary carcinoma susceptibility QTL 510.51mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)555805606132207589Rat
1358895Bp254Blood pressure QTL 2543.60.0003arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)558829236128034027Rat
61426Scl2Serum cholesterol level QTL 27.30.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)559793399143070159Rat
2316954Rf57Renal function QTL 570kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)55979352890450144Rat
2316957Pur21Proteinuria QTL 216.2urine protein amount (VT:0005160)urine protein level (CMO:0000591)559793528113558156Rat
61386Bp49Blood pressure QTL 4916.6cerebrum integrity trait (VT:0010549)brain infarction volume (CMO:0001013)56029343498603051Rat
61393Bp7Blood pressure QTL 74.50.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)560293434161481680Rat
2290005Mcs24Mammary carcinoma susceptibility QTL 24mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)564719390109719390Rat
2306971Anxrr21Anxiety related response QTL 219.47fear/anxiety-related behavior trait (VT:1000241)number of entries into a discrete space in an experimental apparatus (CMO:0000960)566174080124160948Rat
2312671Scl64Serum cholesterol level QTL 640.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)568984307104251008Rat
61380Edpm5Estrogen-dependent pituitary mass QTL 54.50.92pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)568984307104251008Rat
1357396Bw44Body weight QTL 444.19body mass (VT:0001259)body weight (CMO:0000012)568984307104251008Rat
1357402Bw46Body weight QTL 464.47body mass (VT:0001259)body mass index (BMI) (CMO:0000105)568984307104251008Rat
2302381Bw84Body weight QTL 844.47body mass (VT:0001259)body mass index (BMI) (CMO:0000105)568984307104251008Rat
1354598Srn6Serum renin concentration QTL 63.8blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)569540295151018848Rat
1598845Mcs14Mammary carcinoma susceptibility QTL 140.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)57636977680813390Rat


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 6 17 6 20 4 11
Below cutoff 1 11 17 10 10 8 11 15 5 21 8

Sequence


RefSeq Acc Id: ENSRNOT00000072920   ⟹   ENSRNOP00000064026
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl577,251,373 - 77,277,421 (-)Ensembl
Rnor_6.0 Ensembl579,664,765 - 79,691,258 (-)Ensembl
RefSeq Acc Id: NM_001319033   ⟹   NP_001305962
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8582,266,436 - 82,292,858 (-)NCBI
mRatBN7.2577,250,942 - 77,277,364 (-)NCBI
Rnor_6.0579,667,718 - 79,690,915 (-)NCBI
Celera576,184,919 - 76,207,847 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001305962 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein CTQ86175 (Get FASTA)   NCBI Sequence Viewer  
  EDM10513 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000064026
  ENSRNOP00000064026.1
RefSeq Acc Id: NP_001305962   ⟸   NM_001319033
- UniProtKB: M0R3V3 (UniProtKB/TrEMBL),   A6J7Z4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000064026   ⟸   ENSRNOT00000072920
Protein Domains
TNF family profile

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0R3V3-F1-model_v2 AlphaFold M0R3V3 1-237 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:1590403 AgrOrtholog
BioCyc Gene G2FUF-41052 BioCyc
Ensembl Genes ENSRNOG00000048321 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000072920 ENTREZGENE
  ENSRNOT00000072920.3 UniProtKB/TrEMBL
Gene3D-CATH 2.60.120.40 UniProtKB/TrEMBL
InterPro TNF UniProtKB/TrEMBL
  Tumour_necrosis_fac-like_dom UniProtKB/TrEMBL
KEGG Report rno:683163 UniProtKB/TrEMBL
NCBI Gene 683163 ENTREZGENE
PANTHER TUMOR NECROSIS FACTOR LIGAND SUPERFAMILY MEMBER 8 UniProtKB/TrEMBL
  TUMOR NECROSIS FACTOR LIGAND SUPERFAMILY MEMBER 8 UniProtKB/TrEMBL
Pfam TNF UniProtKB/TrEMBL
PhenoGen Tnfsf8 PhenoGen
PROSITE TNF_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000048321 RatGTEx
SMART TNF UniProtKB/TrEMBL
Superfamily-SCOP TNF_like UniProtKB/TrEMBL
UniProt A6J7Z4 ENTREZGENE, UniProtKB/TrEMBL
  M0R3V3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-03-21 Tnfsf8  TNF superfamily member 8  Tnfsf8  tumor necrosis factor superfamily member 8  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-11-25 Tnfsf8  tumor necrosis factor superfamily member 8  Tnfsf8  tumor necrosis factor (ligand) superfamily, member 8  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2009-09-01 Tnfsf8  tumor necrosis factor (ligand) superfamily, member 8   LOC683163  similar to Tumor necrosis factor ligand superfamily member 8 (CD30 ligand) (CD30-L) (CD153 antigen)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC683163  similar to Tumor necrosis factor ligand superfamily member 8 (CD30 ligand) (CD30-L) (CD153 antigen)      Symbol and Name status set to provisional 70820 PROVISIONAL