Tnfsf4 (TNF superfamily member 4) - Rat Genome Database

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Gene: Tnfsf4 (TNF superfamily member 4) Heterocephalus glaber
Analyze
Symbol: Tnfsf4
Name: TNF superfamily member 4
RGD ID: 18916298
Description: ENCODES a protein that exhibits tumor necrosis factor receptor superfamily binding (ortholog); INVOLVED IN acute inflammatory response (ortholog); CD4-positive, alpha-beta T cell costimulation (ortholog); cellular response to lipopolysaccharide (ortholog); ASSOCIATED WITH 1q24 Deletion Syndrome (ortholog); antithrombin III deficiency (ortholog); autoimmune lymphoproliferative syndrome (ortholog); FOUND IN cell surface (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: tumor necrosis factor ligand superfamily member 4; tumor necrosis factor superfamily member 4
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: HetGla 1.0 - Naked Mole-Rat female 1.0 Assembly
Position:
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247718,580,489 - 8,599,735 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
acute inflammatory response  (ISO)
CD4-positive, alpha-beta T cell costimulation  (ISO)
cellular response to lipopolysaccharide  (ISO)
cellular response to nitrogen dioxide  (ISO)
cellular response to prostaglandin E stimulus  (ISO)
cholesterol metabolic process  (ISO)
cytokine production  (ISO)
defense response to nematode  (ISO)
immune response  (IEA)
inflammatory response  (IEA,ISO)
memory T cell activation  (ISO)
negative regulation of cytokine production  (ISO)
negative regulation of DNA-templated transcription  (ISO)
negative regulation of interleukin-17 production  (ISO)
negative regulation of regulatory T cell differentiation  (ISO)
negative regulation of T-helper 1 cell differentiation  (ISO)
negative regulation of type II interferon production  (ISO)
positive regulation of activated T cell proliferation  (ISO)
positive regulation of alpha-beta T cell proliferation  (ISO)
positive regulation of B cell activation  (ISO)
positive regulation of CD4-positive, alpha-beta T cell costimulation  (ISO)
positive regulation of CD4-positive, alpha-beta T cell differentiation  (ISO)
positive regulation of chemokine production  (ISO)
positive regulation of cytokine production  (IEA)
positive regulation of immunoglobulin mediated immune response  (ISO)
positive regulation of immunoglobulin production  (ISO)
positive regulation of inflammatory response  (ISO)
positive regulation of interleukin-10 production  (ISO)
positive regulation of interleukin-12 production  (ISO)
positive regulation of interleukin-13 production  (ISO)
positive regulation of interleukin-2 production  (ISO)
positive regulation of interleukin-4 production  (ISO)
positive regulation of interleukin-4-dependent isotype switching to IgE isotypes  (ISO)
positive regulation of interleukin-6 production  (ISO)
positive regulation of memory T cell activation  (ISO)
positive regulation of memory T cell differentiation  (ISO)
positive regulation of T cell costimulation  (ISO)
positive regulation of T cell cytokine production  (ISO)
positive regulation of T cell proliferation  (IEA)
positive regulation of T-helper 2 cell activation  (ISO)
positive regulation of T-helper 2 cell differentiation  (ISO)
positive regulation of type 2 immune response  (ISO)
positive regulation of type II interferon production  (ISO)
regulation of adaptive immune response  (ISO)
regulation of inflammatory response  (ISO)
response to nitrogen dioxide  (ISO)
response to virus  (ISO)
signal transduction  (IEA)
T cell proliferation  (ISO)
T-helper 2 cell activation  (ISO)

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
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
TNFSF4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381173,172,870 - 173,450,733 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1173,183,731 - 173,207,331 (-)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
(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
(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


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_004853422 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AHKG01050416 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: XM_004853422   ⟹   XP_004853479
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046247718,580,489 - 8,599,735 (+)NCBI
Protein Sequences
Protein RefSeqs XP_004853479 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: XP_004853479   ⟸   XM_004853422
- UniProtKB: G5ART5 (UniProtKB/TrEMBL)


Additional Information

Database Acc Id Source(s)
Gene3D-CATH 2.60.120.40 UniProtKB/TrEMBL
InterPro TNF_CS UniProtKB/TrEMBL
  TNF_dom UniProtKB/TrEMBL
  TNFSF4 UniProtKB/TrEMBL
  Tumour_necrosis_fac-like_dom UniProtKB/TrEMBL
NCBI Gene Tnfsf4 ENTREZGENE
PANTHER OX40 LIGAND UniProtKB/TrEMBL
  TUMOR NECROSIS FACTOR LIGAND SUPERFAMILY MEMBER 4 UniProtKB/TrEMBL
PROSITE TNF_1 UniProtKB/TrEMBL
SMART TNF UniProtKB/TrEMBL
Superfamily-SCOP TNF-like UniProtKB/TrEMBL
UniProt G5ART5 ENTREZGENE, UniProtKB/TrEMBL