Tnfsf4 (TNF superfamily member 4) - Rat Genome Database

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Gene: Tnfsf4 (TNF superfamily member 4) Rattus norvegicus
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Symbol: Tnfsf4
Name: TNF superfamily member 4
RGD ID: 619816
Description: Enables tumor necrosis factor receptor superfamily binding activity. Involved in T cell proliferation; positive regulation of activated T cell proliferation; and positive regulation of interleukin-2 production. Located in cell surface. Human ortholog(s) of this gene implicated in myocardial infarction. Orthologous to human TNFSF4 (TNF superfamily member 4); PARTICIPATES IN cytokine mediated signaling pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4,6-trinitrobenzenesulfonic acid; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: OX40 ligand; Ox40l; Tnlg2b; tumor necrosis factor (ligand) superfamily, member 4; tumor necrosis factor ligand 2b; tumor necrosis factor ligand superfamily member 4; tumor necrosis factor superfamily member 4
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81376,256,654 - 76,280,133 (+)NCBIGRCr8
mRatBN7.21373,723,329 - 73,746,809 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1373,723,329 - 73,746,788 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1376,302,498 - 76,326,020 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01377,600,036 - 77,623,530 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01374,859,914 - 74,883,412 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01379,269,973 - 79,293,775 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1379,269,973 - 79,293,778 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01384,166,838 - 84,190,566 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41377,026,337 - 77,050,223 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11377,040,524 - 77,064,407 (+)NCBI
Celera1373,499,753 - 73,523,609 (+)NCBICelera
Cytogenetic Map13q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model



  
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Original Reference(s)
Tnfsf4Ratcervical squamous cell carcinoma severityISOTNFSF4 (Homo sapiens)38455996 RGD 
Tnfsf4Ratmyocardial infarction  ISOTNFSF4 (Homo sapiens)1580396 RGD 
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Original Reference(s)
Tnfsf4Rat1q24 Deletion Syndrome  ISOTNFSF4 (Homo sapiens)8554872ClinVar Annotator: match by term: 1q24q25 microdeletion syndromeClinVarPMID:21548129 more ...
Tnfsf4Ratantithrombin III deficiency  ISOTNFSF4 (Homo sapiens)8554872ClinVar Annotator: match by term: Hereditary antithrombin deficiencyClinVar 
Tnfsf4Ratautoimmune lymphoproliferative syndrome  ISOTNFSF4 (Homo sapiens)8554872ClinVar Annotator: match by term: AUTOIMMUNE LYMPHOPROLIFERATIVE SYNDROME more ...ClinVarPMID:22857792 more ...
Tnfsf4Ratgastrointestinal stromal tumor  ISOTNFSF4 (Homo sapiens)8554872ClinVar Annotator: match by term: Gastrointestinal stromal tumorClinVarPMID:28492532
Tnfsf4Ratparathyroid carcinoma  ISOTNFSF4 (Homo sapiens)8554872ClinVar Annotator: match by term: Parathyroid carcinomaClinVarPMID:28492532
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Tnfsf4Ratdilated cardiomyopathy  ISOTNFSF4 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:12031769
Tnfsf4Ratleishmaniasis  ISOTNFSF4 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:10637281
Tnfsf4Ratmyocardial infarction  ISOTNFSF4 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTD 
Tnfsf4Ratmyocarditis  ISOTNFSF4 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:12031769
Tnfsf4Ratsystemic lupus erythematosus  ISOTNFSF4 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:18059267 and PMID:19838193
Tnfsf4Ratviral infectious disease  ISOTNFSF4 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:12031769
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Tnfsf4Ratprimary pulmonary hypertension  ISSTnfsf4 (Mus musculus)13592920OMIM:178600 more ...MouseDO 
Tnfsf4Rattype 1 diabetes mellitus  ISSTnfsf4 (Mus musculus)13592920OMIM:222100MouseDO 
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Tnfsf4Ratmyocardial infarction susceptibilityISOTNFSF4 (Homo sapiens)7240710 OMIM 

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Tnfsf4Rat(-)-demecolcine increases expressionISOTNFSF4 (Homo sapiens)6480464Demecolcine results in increased expression of TNFSF4 mRNACTDPMID:23649840
Tnfsf4Rat1D-myo-inositol 1,4,5-trisphosphate increases abundanceISOTNFSF4 (Homo sapiens)6480464TNFSF4 protein results in increased abundance of Inositol 1 more ...CTDPMID:19416722
Tnfsf4Rat2,3,7,8-tetrachlorodibenzodioxine decreases expressionISOTnfsf4 (Mus musculus)6480464Tetrachlorodibenzodioxin results in decreased expression of TNFSF4 mRNACTDPMID:18684927
Tnfsf4Rat2,3,7,8-tetrachlorodibenzodioxine decreases expressionEXP 6480464Tetrachlorodibenzodioxin results in decreased expression of TNFSF4 mRNACTDPMID:32109520
Tnfsf4Rat2,3,7,8-tetrachlorodibenzodioxine decreases expressionISOTNFSF4 (Homo sapiens)6480464Tetrachlorodibenzodioxin results in decreased expression of TNFSF4 mRNACTDPMID:20106945 and PMID:21632981
Tnfsf4Rat2,3,7,8-tetrachlorodibenzodioxine increases expressionISOTnfsf4 (Mus musculus)6480464Tetrachlorodibenzodioxin results in increased expression of TNFSF4 mRNACTDPMID:14718646 and PMID:15972635
Tnfsf4Rat2,4,6-trinitrobenzenesulfonic acid increases expressionEXP 6480464Trinitrobenzenesulfonic Acid results in increased expression of TNFSF4 mRNACTDPMID:23537331
Tnfsf4Rat2-palmitoylglycerol increases expressionISOTNFSF4 (Homo sapiens)64804642-palmitoylglycerol results in increased expression of TNFSF4 mRNACTDPMID:37199045
Tnfsf4Rat3-isobutyl-1-methyl-7H-xanthine multiple interactionsISOTNFSF4 (Homo sapiens)6480464[Dexamethasone co-treated with 8-Bromo Cyclic Adenosine Monophosphate co-treated with 1-Methyl-3-isobutylxanthine] results in decreased expression of TNFSF4 mRNACTDPMID:16997883
Tnfsf4Rat6-propyl-2-thiouracil increases expressionEXP 6480464Propylthiouracil results in increased expression of TNFSF4 mRNACTDPMID:24780913
Tnfsf4Rat8-Br-cAMP multiple interactionsISOTNFSF4 (Homo sapiens)6480464[Dexamethasone co-treated with 8-Bromo Cyclic Adenosine Monophosphate co-treated with 1-Methyl-3-isobutylxanthine] results in decreased expression of TNFSF4 mRNACTDPMID:16997883
Tnfsf4Rataflatoxin B1 affects expressionISOTNFSF4 (Homo sapiens)6480464Aflatoxin B1 affects the expression of TNFSF4 proteinCTDPMID:20106945
Tnfsf4Rataflatoxin B1 increases expressionISOTNFSF4 (Homo sapiens)6480464Aflatoxin B1 results in increased expression of TNFSF4 mRNACTDPMID:21641981
Tnfsf4Ratall-trans-retinoic acid increases expressionISOTNFSF4 (Homo sapiens)6480464Tretinoin results in increased expression of TNFSF4 mRNACTDPMID:23724009
Tnfsf4Ratalpha-amanitin affects expressionISOTnfsf4 (Mus musculus)6480464Alpha-Amanitin affects the expression of TNFSF4 mRNACTDPMID:38531469
Tnfsf4Rataluminium hydroxide multiple interactionsISOTnfsf4 (Mus musculus)6480464[Ovalbumin co-treated with Aluminum Hydroxide] results in increased expression of TNFSF4 mRNA and nonylphenol promotes the reaction [[Ovalbumin co-treated with Aluminum Hydroxide] results in increased expression of TNFSF4 mRNA]CTDPMID:36029577
Tnfsf4Ratammonium chloride affects expressionEXP 6480464Ammonium Chloride affects the expression of TNFSF4 mRNACTDPMID:16483693
Tnfsf4Ratamphotericin B decreases expressionISOTNFSF4 (Homo sapiens)6480464Amphotericin B analog results in decreased expression of TNFSF4 mRNACTDPMID:28534445
Tnfsf4Ratbenzo[a]pyrene decreases expressionISOTNFSF4 (Homo sapiens)6480464Benzo(a)pyrene results in decreased expression of TNFSF4 mRNACTDPMID:20064835 more ...
Tnfsf4Ratbenzo[a]pyrene affects methylationISOTNFSF4 (Homo sapiens)6480464Benzo(a)pyrene affects the methylation of TNFSF4 3' UTRCTDPMID:27901495

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Biological Process
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Original Reference(s)
Tnfsf4Ratacute inflammatory response involved_inISOTnfsf4 (Mus musculus)1624291 PMID:20844189RGDPMID:20844189
Tnfsf4Ratacute inflammatory response involved_inIEAUniProtKB:P43488 and ensembl:ENSMUSP000000280241600115GO_REF:0000107EnsemblGO_REF:0000107
Tnfsf4RatCD4-positive, alpha-beta T cell costimulation involved_inISOTnfsf4 (Mus musculus)1624291 PMID:20639485RGDPMID:20639485
Tnfsf4RatCD4-positive, alpha-beta T cell costimulation involved_inIEAUniProtKB:P43488 and ensembl:ENSMUSP000000280241600115GO_REF:0000107EnsemblGO_REF:0000107
Tnfsf4Ratcellular response to lipopolysaccharide involved_inISOTNFSF4 (Homo sapiens)1624291 PMID:20844189RGDPMID:20844189
Tnfsf4Ratcellular response to nitrogen dioxide involved_inISOTnfsf4 (Mus musculus)1624291 PMID:20659336RGDPMID:20659336
Tnfsf4Ratcellular response to nitrogen dioxide involved_inIEAUniProtKB:P43488 and ensembl:ENSMUSP000000280241600115GO_REF:0000107EnsemblGO_REF:0000107
Tnfsf4Ratcellular response to prostaglandin E stimulus involved_inISOTNFSF4 (Homo sapiens)1624291 PMID:19029446RGDPMID:19029446
Tnfsf4Ratcholesterol metabolic process acts_upstream_of_or_withinISOTnfsf4 (Mus musculus)1624291 PMID:3473481RGDPMID:3473481
Tnfsf4Ratcholesterol metabolic process acts_upstream_of_or_withinIEAUniProtKB:P43488 and ensembl:ENSMUSP000000280241600115GO_REF:0000107EnsemblGO_REF:0000107
Tnfsf4Ratcytokine production  IMP 2289071 RGD 
Tnfsf4Ratdefense response to nematode involved_inISOTnfsf4 (Mus musculus)1624291 PMID:12496423RGDPMID:12496423
Tnfsf4Ratdefense response to nematode involved_inIEAUniProtKB:P43488 and ensembl:ENSMUSP000000280241600115GO_REF:0000107EnsemblGO_REF:0000107
Tnfsf4Ratimmune response involved_inIEAInterPro:IPR0060521600115GO_REF:0000002InterProGO_REF:0000002
Tnfsf4Ratinflammatory response involved_inIBAMGI:104511 and PANTHER:PTN0004262561600115GO_REF:0000033GO_CentralGO_REF:0000033
Tnfsf4Ratinflammatory response acts_upstream_of_or_withinIEAUniProtKB:P43488 and ensembl:ENSMUSP000000280241600115GO_REF:0000107EnsemblGO_REF:0000107
Tnfsf4Ratinflammatory response acts_upstream_of_or_withinISOTnfsf4 (Mus musculus)1624291PR:P47741 PMID:14635034RGDPMID:14635034
Tnfsf4Ratmemory T cell activation involved_inISOTnfsf4 (Mus musculus)1624291 PMID:12496423RGDPMID:12496423
Tnfsf4Ratmemory T cell activation involved_inIEAUniProtKB:P43488 and ensembl:ENSMUSP000000280241600115GO_REF:0000107EnsemblGO_REF:0000107
Tnfsf4Ratnegative regulation of cytokine production acts_upstream_of_or_withinISOTnfsf4 (Mus musculus)1624291PR:P47741 PMID:14635034RGDPMID:14635034
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Cellular Component

  
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Tnfsf4Ratcell surface  IDA 634509 RGD 
Tnfsf4Ratcell surface located_inISOTNFSF4 (Homo sapiens)1624291 PMID:18397322RGDPMID:18397322
Tnfsf4Ratextracellular space located_inISOTNFSF4 (Homo sapiens)1624291 PMID:17166734RGDPMID:17166734
Tnfsf4Ratextracellular space located_inIEAUniProtKB-KW:KW-02021600115GO_REF:0000043UniProtGO_REF:0000043
Tnfsf4Ratextracellular space is_active_inIBAPANTHER:PTN000426256 and UniProtKB:P235101600115GO_REF:0000033GO_CentralGO_REF:0000033
Tnfsf4Ratmembrane located_inIEAInterPro:IPR0060521600115GO_REF:0000002InterProGO_REF:0000002
Tnfsf4Ratmembrane located_inIEAUniProtKB-KW:KW-04721600115GO_REF:0000043UniProtGO_REF:0000043
Tnfsf4Ratmembrane located_inIEAUniProtKB-SubCell:SL-01621600115GO_REF:0000044UniProtGO_REF:0000044

Molecular Function
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Tnfsf4Ratcytokine activity enablesIEAUniProtKB-KW:KW-02021600115GO_REF:0000043UniProtGO_REF:0000043
Tnfsf4Ratcytokine activity enablesIEAInterPro:IPR0423381600115GO_REF:0000002InterProGO_REF:0000002
Tnfsf4Ratprotein binding enablesISOTnfsf4 (Mus musculus)1624291UniProtKB:P23510 and PMID:16905106RGDPMID:16905106
Tnfsf4Ratprotein binding enablesISOTNFSF4 (Homo sapiens)1624291UniProtKB:P43488 more ...RGDPMID:16905106
Tnfsf4Rattumor necrosis factor receptor binding enablesISOTnfsf4 (Mus musculus)1624291PR:P47741 PMID:14635034RGDPMID:14635034
Tnfsf4Rattumor necrosis factor receptor binding enablesIEAInterPro:IPR0060521600115GO_REF:0000002InterProGO_REF:0000002
Tnfsf4Rattumor necrosis factor receptor binding enablesIEAUniProtKB:P43488 and ensembl:ENSMUSP000000280241600115GO_REF:0000107EnsemblGO_REF:0000107
Tnfsf4Rattumor necrosis factor receptor superfamily binding  IPITnfrsf4 (Mus musculus)634509 RGD 
Tnfsf4Rattumor necrosis factor receptor superfamily binding enablesIEAUniProtKB:P43488 and ensembl:ENSMUSP000000280241600115GO_REF:0000107EnsemblGO_REF:0000107
Tnfsf4Rattumor necrosis factor receptor superfamily binding enablesISOTnfsf4 (Mus musculus)1624291UniProtKB:P47741 and PMID:7749983RGDPMID:7749983
Tnfsf4Rattumor necrosis factor receptor superfamily binding enablesIBAMGI:104511 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Tnfsf4Rattumor necrosis factor receptor superfamily binding  IMP 2289071 RGD 
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Imported Annotations - KEGG (archival)

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Tnfsf4Ratcytokine mediated signaling pathway  IEA 6907045 KEGGrno:04060
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Tnfsf4Ratabnormal response to transplant  IDA 1580395 RGD 

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#
Reference Title
Reference Citation
1. Identification of rat OX40 ligand by molecular cloning. Akiba H, etal., Biochem Biophys Res Commun 1998 Oct 9;251(1):131-6.
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. Revenue sharing: source of more program funds for the disabled and others. Hammer P and Uhlman TM, Soc Rehabil Rec 1975 Jul-Aug;2(6):28-32.
4. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
5. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
6. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
7. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
8. GOA pipeline RGD automated data pipeline
9. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
10. Characterization of rat OX40 ligand by monoclonal antibody. Satake Y, etal., Biochem Biophys Res Commun. 2000 Apr 21;270(3):1041-8.
11. Positional identification of TNFSF4, encoding OX40 ligand, as a gene that influences atherosclerosis susceptibility. Wang X, etal., Nat Genet. 2005 Apr;37(4):365-72. Epub 2005 Mar 6.
12. The role of the CD134-CD134 ligand costimulatory pathway in alloimmune responses in vivo. Yuan X, etal., J Immunol. 2003 Mar 15;170(6):2949-55.
13. Negative immune factors might predominate local tumor immune status and promote carcinogenesis in cervical carcinoma. Zhao M, etal., Virol J. 2017 Jan 13;14(1):5. doi: 10.1186/s12985-016-0670-8.
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PMID:3473481   PMID:7749983   PMID:9670042   PMID:12355440   PMID:12496423   PMID:14635034   PMID:15376196   PMID:16670306   PMID:17166734   PMID:17785785   PMID:18354165   PMID:18397322  
PMID:18501882   PMID:18713990   PMID:19029446   PMID:20639485   PMID:20659336   PMID:20844189   PMID:20871162   PMID:26646413  



Tnfsf4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81376,256,654 - 76,280,133 (+)NCBIGRCr8
mRatBN7.21373,723,329 - 73,746,809 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1373,723,329 - 73,746,788 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1376,302,498 - 76,326,020 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01377,600,036 - 77,623,530 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01374,859,914 - 74,883,412 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01379,269,973 - 79,293,775 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1379,269,973 - 79,293,778 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01384,166,838 - 84,190,566 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41377,026,337 - 77,050,223 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11377,040,524 - 77,064,407 (+)NCBI
Celera1373,499,753 - 73,523,609 (+)NCBICelera
Cytogenetic Map13q22NCBI
TNFSF4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381173,172,870 - 173,450,733 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1173,162,645 - 173,477,583 (-)EnsemblGRCh38hg38GRCh38
GRCh371173,152,870 - 173,176,470 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361171,419,493 - 171,443,094 (-)NCBINCBI36Build 36hg18NCBI36
Build 341169,884,527 - 169,908,128NCBI
Celera1146,262,332 - 146,285,933 (-)NCBICelera
Cytogenetic Map1q25.1NCBI
HuRef1144,377,608 - 144,401,209 (-)NCBIHuRef
CHM1_11174,575,344 - 174,598,945 (-)NCBICHM1_1
T2T-CHM13v2.01172,541,831 - 172,768,144 (-)NCBIT2T-CHM13v2.0
Tnfsf4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391161,223,009 - 161,245,777 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1161,222,980 - 161,245,981 (+)EnsemblGRCm39 Ensembl
GRCm381161,395,438 - 161,418,206 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1161,395,409 - 161,418,410 (+)EnsemblGRCm38mm10GRCm38
MGSCv371163,325,569 - 163,348,337 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361163,232,135 - 163,254,883 (+)NCBIMGSCv36mm8
Celera1163,843,815 - 163,866,564 (+)NCBICelera
Cytogenetic Map1H2.1NCBI
cM Map169.75NCBI
Tnfsf4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540613,477,077 - 13,493,309 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540613,477,077 - 13,493,309 (-)NCBIChiLan1.0ChiLan1.0
TNFSF4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2176,255,433 - 76,559,453 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1175,929,208 - 76,396,416 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01148,684,689 - 148,989,775 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11152,391,450 - 152,699,026 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1152,251,683 - 152,262,668 (-)Ensemblpanpan1.1panPan2
PanPan1.1 Ensembl1152,391,450 - 152,415,845 (-)Ensemblpanpan1.1panPan2
TNFSF4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1725,883,297 - 25,909,608 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl725,883,251 - 25,906,892 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha725,415,436 - 25,441,738 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0725,634,585 - 25,660,879 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl725,634,528 - 25,660,603 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1725,553,133 - 25,579,437 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0725,626,526 - 25,652,838 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0725,780,205 - 25,806,523 (+)NCBIUU_Cfam_GSD_1.0
Tnfsf4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934496,542,360 - 96,562,833 (+)NCBIHiC_Itri_2
SpeTri2.0NW_00493648114,391,359 - 14,409,514 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TNFSF4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl9115,550,569 - 115,659,263 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.19115,535,185 - 115,857,457 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.29127,042,208 - 127,049,271 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TNFSF4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12555,714,291 - 55,998,009 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2555,974,691 - 55,997,374 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605557,291,046 - 57,591,856 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tnfsf4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247718,580,489 - 8,599,735 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

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Variants in Tnfsf4
142 total Variants

Predicted Target Of
Summary Value
Count of predictions:149
Count of miRNA genes:110
Interacting mature miRNAs:128
Transcripts:ENSRNOT00000003969
Prediction methods:Microtar, 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.


1 to 10 of 32 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
1298066Bp159Blood pressure QTL 1590.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134608804691088046Rat
10755495Bp387Blood pressure QTL 3873.78arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133466346187525369Rat
1354655Bp241Blood pressure QTL 2413.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1356056920101056920Rat
8655951Rf63Renal function QTL 6312.2blood urea nitrogen amount (VT:0005265)plasma urea nitrogen level (CMO:0000586)136906051977046890Rat
70220Bp55Blood pressure QTL 555.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)133737450982374509Rat
8655945Rf61Renal function QTL 613.6blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)136906051986800898Rat
71119Thym2Thymus enlargement QTL 23.8thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)134619797684753113Rat
4889861Pur29Proteinuria QTL 2913.80.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)133741558480753406Rat
1331783Bp221Blood pressure QTL 2213.72886arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)136906051986800898Rat
12879441Bp396Blood pressure QTL 396arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134569998390699983Rat

1 to 10 of 32 rows



alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
8 6 16 93 37 46 19 25 19 4 116 47 85 36 45 27



Ensembl Acc Id: ENSRNOT00000003969   ⟹   ENSRNOP00000003969
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1373,723,329 - 73,746,788 (+)Ensembl
Rnor_6.0 Ensembl1379,269,973 - 79,293,778 (+)Ensembl
RefSeq Acc Id: NM_053552   ⟹   NP_446004
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81376,256,654 - 76,280,133 (+)NCBI
mRatBN7.21373,723,329 - 73,746,809 (+)NCBI
Rnor_6.01379,269,973 - 79,293,775 (+)NCBI
Rnor_5.01384,166,838 - 84,190,566 (+)NCBI
RGSC_v3.41377,026,337 - 77,050,223 (+)RGD
Celera1373,499,753 - 73,523,609 (+)RGD
Sequence:
Protein RefSeqs NP_446004 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAC67236 (Get FASTA)   NCBI Sequence Viewer  
  CTQ86174 (Get FASTA)   NCBI Sequence Viewer  
  EDM09415 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000003969
  ENSRNOP00000003969.3
GenBank Protein Q9Z2P3 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_446004   ⟸   NM_053552
- UniProtKB: Q9Z2P3 (UniProtKB/Swiss-Prot),   A0A0U5JAD2 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000003969   ⟸   ENSRNOT00000003969
THD

Name Modeler Protein Id AA Range Protein Structure
AF-Q9Z2P3-F1-model_v2 AlphaFold Q9Z2P3 1-199 view protein structure


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



1 to 21 of 21 rows
Database
Acc Id
Source(s)
BioCyc Gene G2FUF-17714 BioCyc
Ensembl Genes ENSRNOG00000002968 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000003969 ENTREZGENE
  ENSRNOT00000003969.6 UniProtKB/Swiss-Prot
Gene3D-CATH 2.60.120.40 UniProtKB/Swiss-Prot
InterPro TNF_CS UniProtKB/Swiss-Prot
  TNF_dom UniProtKB/Swiss-Prot
  TNFSF4 UniProtKB/Swiss-Prot
  Tumour_necrosis_fac-like_dom UniProtKB/Swiss-Prot
KEGG Report rno:89814 UniProtKB/Swiss-Prot
NCBI Gene 89814 ENTREZGENE
PANTHER PTHR17534 UniProtKB/Swiss-Prot
  TUMOR NECROSIS FACTOR LIGAND SUPERFAMILY MEMBER 4 UniProtKB/Swiss-Prot
PhenoGen Tnfsf4 PhenoGen
PROSITE THD_2 UniProtKB/Swiss-Prot
  TNF_1 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000002968 RatGTEx
SMART TNF UniProtKB/Swiss-Prot
Superfamily-SCOP SSF49842 UniProtKB/Swiss-Prot
UniProt A0A0U5JAD2 ENTREZGENE, UniProtKB/TrEMBL
  Q9Z2P3 ENTREZGENE, UniProtKB/Swiss-Prot
1 to 21 of 21 rows


Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-03-21 Tnfsf4  TNF superfamily member 4  Tnfsf4  tumor necrosis factor superfamily member 4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-11-25 Tnfsf4  tumor necrosis factor superfamily member 4  Tnfsf4  tumor necrosis factor (ligand) superfamily, member 4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Tnfsf4  tumor necrosis factor (ligand) superfamily, member 4      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Tnfsf4  tumor necrosis factor (ligand) superfamily, member 4      Symbol and Name status set to provisional 70820 PROVISIONAL

Note Type Note Reference
gene_cellular_localization localized to the cell surface 634509
gene_protein 199 amino acids 634509