TNFSF4 (TNF superfamily member 4) - Rat Genome Database

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Gene: TNFSF4 (TNF superfamily member 4) Chlorocebus sabaeus
Analyze
Symbol: TNFSF4
Name: TNF superfamily member 4
RGD ID: 18591985
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 nitrogen dioxide (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
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
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
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  (IEA)
cellular response to nitrogen dioxide  (ISO)
cellular response to prostaglandin E stimulus  (IEA)
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-binding transcription factor activity  (ISO)
negative regulation of DNA-templated transcription  (ISO)
negative regulation of interleukin-17 production  (IEA)
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  (IEA)
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  (IEA)
positive regulation of interleukin-4-dependent isotype switching to IgE isotypes  (ISO)
positive regulation of interleukin-6 production  (IEA)
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  (IEA)
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
(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
(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
(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
(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

Variants

.
Variants in TNFSF4
7046 total Variants

Expression

RNA-SEQ Expression

ectoderm
endocrine system
hemolymphoid system
mesenchyme
mesoderm
nervous system
reproductive system
76 36 20 36 36 60 20

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_007989466 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007989467 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007989468 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007989469 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007989471 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007989472 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007989473 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007989474 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007989475 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007989476 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007989477 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007989478 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007989479 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007989480 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007989481 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007989482 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007989483 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007989484 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007989485 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007989486 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_037985943 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_037985944 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_037985945 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_037985946 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_037985947 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JACDXN010000023 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSCSAT00000009804   ⟹   ENSCSAP00000007913
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl2555,974,691 - 55,997,374 (+)Ensembl
RefSeq Acc Id: XM_007989468   ⟹   XP_007987659
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12555,718,930 - 55,998,009 (+)NCBI
Vero_WHO_p1.0NW_02366605557,291,046 - 57,591,856 (+)NCBI
Sequence:
RefSeq Acc Id: XM_007989469   ⟹   XP_007987660
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12555,714,291 - 55,998,009 (+)NCBI
Vero_WHO_p1.0NW_02366605557,291,231 - 57,591,856 (+)NCBI
Sequence:
RefSeq Acc Id: XM_007989472   ⟹   XP_007987663
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12555,714,291 - 55,998,009 (+)NCBI
Vero_WHO_p1.0NW_02366605557,291,231 - 57,591,856 (+)NCBI
Sequence:
RefSeq Acc Id: XM_007989480   ⟹   XP_007987671
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12555,714,291 - 55,998,009 (+)NCBI
Vero_WHO_p1.0NW_02366605557,291,231 - 57,591,856 (+)NCBI
Sequence:
RefSeq Acc Id: XM_007989482   ⟹   XP_007987673
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12555,714,291 - 55,998,009 (+)NCBI
Vero_WHO_p1.0NW_02366605557,291,231 - 57,591,856 (+)NCBI
Sequence:
RefSeq Acc Id: XM_007989483   ⟹   XP_007987674
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12555,773,328 - 55,998,009 (+)NCBI
Vero_WHO_p1.0NW_02366605557,291,231 - 57,591,856 (+)NCBI
Sequence:
RefSeq Acc Id: XM_007989484   ⟹   XP_007987675
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12555,714,291 - 55,998,009 (+)NCBI
Vero_WHO_p1.0NW_02366605557,291,231 - 57,591,856 (+)NCBI
Sequence:
RefSeq Acc Id: XM_007989485   ⟹   XP_007987676
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12555,714,291 - 55,998,009 (+)NCBI
Vero_WHO_p1.0NW_02366605557,291,231 - 57,591,856 (+)NCBI
Sequence:
RefSeq Acc Id: XM_037985943   ⟹   XP_037841871
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366605557,291,231 - 57,591,856 (+)NCBI
RefSeq Acc Id: XM_037985944   ⟹   XP_037841872
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366605557,291,046 - 57,591,856 (+)NCBI
RefSeq Acc Id: XM_037985945   ⟹   XP_037841873
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366605557,291,497 - 57,591,856 (+)NCBI
RefSeq Acc Id: XM_037985946   ⟹   XP_037841874
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366605557,291,231 - 57,591,856 (+)NCBI
RefSeq Acc Id: XM_037985947   ⟹   XP_037841875
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366605557,345,190 - 57,591,856 (+)NCBI
RefSeq Acc Id: XP_007987663   ⟸   XM_007989472
- Peptide Label: isoform X1
RefSeq Acc Id: XP_007987660   ⟸   XM_007989469
- Peptide Label: isoform X1
RefSeq Acc Id: XP_007987673   ⟸   XM_007989482
- Peptide Label: isoform X2
RefSeq Acc Id: XP_007987675   ⟸   XM_007989484
- Peptide Label: isoform X3
- UniProtKB: A0A0D9RH24 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_007987671   ⟸   XM_007989480
- Peptide Label: isoform X1
RefSeq Acc Id: XP_007987676   ⟸   XM_007989485
- Peptide Label: isoform X3
- UniProtKB: A0A0D9RH24 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_007987659   ⟸   XM_007989468
- Peptide Label: isoform X1
RefSeq Acc Id: XP_007987674   ⟸   XM_007989483
- Peptide Label: isoform X2
Ensembl Acc Id: ENSCSAP00000007913   ⟸   ENSCSAT00000009804
RefSeq Acc Id: XP_037841872   ⟸   XM_037985944
- Peptide Label: isoform X1
RefSeq Acc Id: XP_037841874   ⟸   XM_037985946
- Peptide Label: isoform X1
RefSeq Acc Id: XP_037841871   ⟸   XM_037985943
- Peptide Label: isoform X1
RefSeq Acc Id: XP_037841873   ⟸   XM_037985945
- Peptide Label: isoform X1
RefSeq Acc Id: XP_037841875   ⟸   XM_037985947
- Peptide Label: isoform X1


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000011720 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000009804.1 UniProtKB/TrEMBL
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 PTHR17534 UniProtKB/TrEMBL
  TUMOR NECROSIS FACTOR LIGAND SUPERFAMILY MEMBER 4 UniProtKB/TrEMBL
PROSITE TNF_1 UniProtKB/TrEMBL
SMART TNF UniProtKB/TrEMBL
Superfamily-SCOP SSF49842 UniProtKB/TrEMBL
UniProt A0A0D9RH24 ENTREZGENE, UniProtKB/TrEMBL