TNFSF4 (TNF superfamily member 4) - Rat Genome Database

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Gene: TNFSF4 (TNF superfamily member 4) Homo sapiens
Analyze
Symbol: TNFSF4
Name: TNF superfamily member 4
RGD ID: 1345164
HGNC Page HGNC:11934
Description: Predicted to enable tumor necrosis factor receptor superfamily binding activity. Involved in cellular response to lipid; positive regulation of inflammatory response; and regulation of cytokine production. Located in cell surface and extracellular space. Implicated in myocardial infarction. Biomarker of cervical squamous cell carcinoma.
Type: protein-coding
RefSeq Status: REVIEWED
Previously known as: CD134 ligand; CD134L; CD252; glycoprotein Gp34; GP34; OX-40L; OX40 antigen ligand; OX40L; OX4OL; TAX transcriptionally-activated glycoprotein 1; tax-transcriptionally activated glycoprotein 1 (34kD); 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; TXGP1
RGD Orthologs
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
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
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-demecolcine  (EXP)
1D-myo-inositol 1,4,5-trisphosphate  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-trinitrobenzenesulfonic acid  (ISO)
2-palmitoylglycerol  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (EXP)
6-propyl-2-thiouracil  (ISO)
8-Br-cAMP  (EXP)
aflatoxin B1  (EXP)
all-trans-retinoic acid  (EXP)
aluminium hydroxide  (ISO)
ammonium chloride  (ISO)
amphotericin B  (EXP)
benzo[a]pyrene  (EXP)
benzo[b]fluoranthene  (EXP)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
Bisphenol B  (EXP)
bleomycin A2  (ISO)
butanal  (EXP)
C60 fullerene  (ISO)
caffeine  (EXP)
calcipotriol  (ISO)
carbamazepine  (EXP)
carbon monoxide  (ISO)
carbon nanotube  (ISO)
ceric oxide  (ISO)
CGP 52608  (EXP)
cobalt dichloride  (EXP)
copper(II) sulfate  (EXP)
cyclosporin A  (EXP)
dexamethasone  (EXP)
disodium selenite  (EXP)
dorsomorphin  (EXP)
epoxiconazole  (ISO)
ethanol  (ISO)
ethyl methanesulfonate  (EXP)
flavonoids  (ISO)
formaldehyde  (EXP)
fragrance  (EXP)
genistein  (EXP)
graphite  (ISO)
hydrogen peroxide  (EXP)
isoflurane  (ISO)
leflunomide  (EXP)
lipopolysaccharide  (EXP)
methotrexate  (EXP)
methyl methanesulfonate  (EXP)
mevalonic acid  (EXP)
N,N-diethyl-m-toluamide  (ISO)
N-acetyl-L-cysteine  (EXP)
nickel atom  (EXP)
niclosamide  (EXP)
Nonylphenol  (ISO)
O-methyleugenol  (EXP)
p-menthan-3-ol  (EXP)
paraquat  (ISO)
pentobarbital  (ISO)
perfluorooctanoic acid  (EXP)
permethrin  (ISO)
quercetin  (EXP)
SB 431542  (EXP)
simvastatin  (EXP)
sodium arsenite  (EXP)
sulfur dioxide  (ISO)
tacrine  (ISO)
testosterone  (ISO)
thapsigargin  (EXP)
trichloroethene  (ISO)
tris(2-butoxyethyl) phosphate  (EXP)
tunicamycin  (EXP)
urethane  (EXP)
valproic acid  (EXP,ISO)
vinclozolin  (ISO)
vincristine  (EXP)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

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

Cellular Component
cell surface  (IDA,ISO)
extracellular space  (IBA,IDA,IEA)
membrane  (IEA)
plasma membrane  (NAS,TAS)

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Human Phenotype
Abnormal pigmentation of the oral mucosa  (IAGP)
Abnormal pupillary function  (IAGP)
Abnormal rapid eye movement sleep  (IAGP)
Abnormality of salivation  (IAGP)
Alopecia  (IAGP)
Anorexia  (IAGP)
Anti-La/SS-B antibody positivity  (IAGP)
Anti-Sm antibody positivity  (IAGP)
Anti-U1 ribonucleoprotein antibody positivity  (IAGP)
Antineutrophil antibody positivity  (IAGP)
Antinuclear antibody positivity  (IAGP)
Anxiety  (IAGP)
Arthritis  (IAGP)
Attention deficit hyperactivity disorder  (IAGP)
Cataplexy  (IAGP)
Cheilitis  (IAGP)
Chorea  (IAGP)
Constipation  (IAGP)
Cutaneous photosensitivity  (IAGP)
Decreased circulating complement C3 concentration  (IAGP)
Decreased circulating complement C4 concentration  (IAGP)
Depression  (IAGP)
Discoid lupus rash  (IAGP)
Drooling  (IAGP)
Excessive daytime somnolence  (IAGP)
Fatigue  (IAGP)
Female sexual dysfunction  (IAGP)
Fever  (IAGP)
Gastrointestinal stroma tumor  (IAGP)
Hallucinations  (IAGP)
Hematuria  (IAGP)
Hemolytic anemia  (IAGP)
Hyperhidrosis  (IAGP)
Hypertension  (IAGP)
Hypnagogic hallucination  (IAGP)
Hypnopompic hallucination  (IAGP)
Leukopenia  (IAGP)
Lupus nephritis  (IAGP)
Lymphadenopathy  (IAGP)
Malaise  (IAGP)
Malar rash  (IAGP)
Male sexual dysfunction  (IAGP)
Migraine  (IAGP)
Nocturia  (IAGP)
NREM parasomnia  (IAGP)
Obesity  (IAGP)
Oral ulcer  (IAGP)
Parathyroid carcinoma  (IAGP)
Precocious puberty  (IAGP)
Proteinuria  (IAGP)
Psychosis  (IAGP)
Pyuria  (IAGP)
Raynaud phenomenon  (IAGP)
Reduced antithrombin III activity  (IAGP)
Restless legs  (IAGP)
Restlessness  (IAGP)
Retinopathy  (IAGP)
Seizure  (IAGP)
Serositis  (IAGP)
Sleep abnormality  (IAGP)
Sleep apnea  (IAGP)
Sleep paralysis  (IAGP)
Slurred speech  (IAGP)
Syncope  (IAGP)
Thrombocytopenia  (IAGP)
Transient global amnesia  (IAGP)
Weight loss  (IAGP)
References

References - curated
# Reference Title Reference Citation
1. GOAs Human GO annotations GOA_HUMAN data from the GO Consortium
2. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. RGD HPO Phenotype Annotation Pipeline RGD automated import pipeline for human HPO-to-gene-to-disease annotations
5. 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.
6. 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.
Additional References at PubMed
PMID:1996093   PMID:7913952   PMID:8076595   PMID:8642328   PMID:9108415   PMID:9378971   PMID:9418902   PMID:9603911   PMID:9862675   PMID:10358148   PMID:11069062   PMID:11197696  
PMID:11346458   PMID:12134113   PMID:12477932   PMID:12624783   PMID:12798307   PMID:15034038   PMID:15100674   PMID:15218969   PMID:15356117   PMID:15470070   PMID:16272289   PMID:16275760  
PMID:16710414   PMID:16905106   PMID:16924108   PMID:17016617   PMID:17166734   PMID:17185358   PMID:17584577   PMID:17666213   PMID:18059267   PMID:18060034   PMID:18174230   PMID:18356244  
PMID:18397322   PMID:18398332   PMID:18501882   PMID:18674525   PMID:18718855   PMID:18832690   PMID:18987746   PMID:18998106   PMID:19029446   PMID:19029970   PMID:19083191   PMID:19092840  
PMID:19357697   PMID:19494280   PMID:19573080   PMID:19578796   PMID:19663699   PMID:19773279   PMID:19778912   PMID:19838193   PMID:19913121   PMID:19951374   PMID:20012871   PMID:20139223  
PMID:20190752   PMID:20237496   PMID:20307208   PMID:20331378   PMID:20568250   PMID:20628086   PMID:20677014   PMID:20844189   PMID:20848568   PMID:20861858   PMID:20881011   PMID:20962850  
PMID:21068098   PMID:21102463   PMID:21143648   PMID:21187296   PMID:21239696   PMID:21397857   PMID:21402531   PMID:21441570   PMID:21445270   PMID:21476935   PMID:21781408   PMID:21820713  
PMID:21873635   PMID:21986129   PMID:22156349   PMID:22422496   PMID:22646697   PMID:22760717   PMID:22820624   PMID:22847298   PMID:22850862   PMID:22870213   PMID:23184501   PMID:23216302  
PMID:23273568   PMID:23469620   PMID:23589118   PMID:23622253   PMID:23635951   PMID:23740937   PMID:23874208   PMID:23936824   PMID:23948416   PMID:23953582   PMID:24091983   PMID:24583911  
PMID:24595151   PMID:24679586   PMID:24999842   PMID:25359291   PMID:26070486   PMID:26125814   PMID:26348892   PMID:26646413   PMID:27008001   PMID:27012942   PMID:27088737   PMID:27107937  
PMID:27519474   PMID:27556446   PMID:27708417   PMID:27872495   PMID:28713926   PMID:29032462   PMID:29321210   PMID:29424751   PMID:29554934   PMID:29921578   PMID:29949525   PMID:30041578  
PMID:30468820   PMID:30562687   PMID:30614039   PMID:30723312   PMID:30789234   PMID:30794011   PMID:30797237   PMID:30890137   PMID:31240276   PMID:31299880   PMID:31467932   PMID:31501955  
PMID:31783796   PMID:32097938   PMID:32176307   PMID:32208776   PMID:32647184   PMID:32809147   PMID:33132120   PMID:33161796   PMID:33287909   PMID:33777009   PMID:34084166   PMID:34282497  
PMID:34538280   PMID:34830466   PMID:35078374   PMID:35265719   PMID:35835012   PMID:38142184   PMID:38607026  


Genomics

Comparative Map Data
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
(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

Variants

.
Variants in TNFSF4
40 total Variants

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 1q23.1-25.1(chr1:157747246-176021247)x3 copy number gain See cases [RCV000051854] Chr1:157747246..176021247 [GRCh38]
Chr1:157717036..175990383 [GRCh37]
Chr1:155983660..174257006 [NCBI36]
Chr1:1q23.1-25.1		 pathogenic
GRCh38/hg38 1q23.3-25.2(chr1:164922655-180061589)x3 copy number gain See cases [RCV000051856] Chr1:164922655..180061589 [GRCh38]
Chr1:164891892..180030724 [GRCh37]
Chr1:163158516..178297347 [NCBI36]
Chr1:1q23.3-25.2		 pathogenic
GRCh38/hg38 1q24.2-25.1(chr1:168314822-175299299)x1 copy number loss See cases [RCV000053918] Chr1:168314822..175299299 [GRCh38]
Chr1:168284060..175268435 [GRCh37]
Chr1:166550684..173535058 [NCBI36]
Chr1:1q24.2-25.1		 pathogenic
GRCh38/hg38 1q23.3-25.1(chr1:161740907-173965154)x1 copy number loss See cases [RCV000053914] Chr1:161740907..173965154 [GRCh38]
Chr1:161710697..173934292 [GRCh37]
Chr1:159977321..172200915 [NCBI36]
Chr1:1q23.3-25.1		 pathogenic
GRCh38/hg38 1q24.1-25.1(chr1:166762832-175327423)x1 copy number loss See cases [RCV000053917] Chr1:166762832..175327423 [GRCh38]
Chr1:166732069..175296559 [GRCh37]
Chr1:164998693..173563182 [NCBI36]
Chr1:1q24.1-25.1		 pathogenic
GRCh38/hg38 1q24.3-31.1(chr1:171039975-186875957)x3 copy number gain See cases [RCV000134876] Chr1:171039975..186875957 [GRCh38]
Chr1:171009116..186845089 [GRCh37]
Chr1:169275740..185111712 [NCBI36]
Chr1:1q24.3-31.1		 pathogenic
GRCh38/hg38 1q24.2-25.2(chr1:169218236-178075834)x1 copy number loss See cases [RCV000137128] Chr1:169218236..178075834 [GRCh38]
Chr1:169187474..178044969 [GRCh37]
Chr1:167454098..176311592 [NCBI36]
Chr1:1q24.2-25.2		 pathogenic
GRCh38/hg38 1q24.3-31.2(chr1:170929720-191065409)x1 copy number loss See cases [RCV000142369] Chr1:170929720..191065409 [GRCh38]
Chr1:170898861..191034539 [GRCh37]
Chr1:169165485..189301162 [NCBI36]
Chr1:1q24.3-31.2		 pathogenic
GRCh38/hg38 1q23.3-25.1(chr1:163382523-175877022)x1 copy number loss See cases [RCV000143292] Chr1:163382523..175877022 [GRCh38]
Chr1:163352313..175846158 [GRCh37]
Chr1:161618937..174112781 [NCBI36]
Chr1:1q23.3-25.1		 pathogenic
GRCh38/hg38 1q24.2-31.1(chr1:170036068-187555148)x1 copy number loss See cases [RCV000143688] Chr1:170036068..187555148 [GRCh38]
Chr1:170005209..187524280 [GRCh37]
Chr1:168271833..185790903 [NCBI36]
Chr1:1q24.2-31.1		 pathogenic
GRCh38/hg38 1q21.2-25.2(chr1:149854269-180267197)x3 copy number gain See cases [RCV000143515] Chr1:149854269..180267197 [GRCh38]
Chr1:149825831..180236332 [GRCh37]
Chr1:148092455..178502955 [NCBI36]
Chr1:1q21.2-25.2		 pathogenic
GRCh37/hg19 1q24.2-25.3(chr1:169423492-180367623) copy number gain not provided [RCV000767621] Chr1:169423492..180367623 [GRCh37]
Chr1:1q24.2-25.3		 pathogenic
GRCh37/hg19 1q24.3-25.3(chr1:172742952-181814496)x1 copy number loss See cases [RCV000239775] Chr1:172742952..181814496 [GRCh37]
Chr1:1q24.3-25.3		 pathogenic
GRCh37/hg19 1q23.2-25.1(chr1:160369890-175796325) copy number loss not provided [RCV000767779] Chr1:160369890..175796325 [GRCh37]
Chr1:1q23.2-25.1		 pathogenic
GRCh37/hg19 1q23.3-25.3(chr1:161676893-184071723)x1 copy number loss See cases [RCV000447098] Chr1:161676893..184071723 [GRCh37]
Chr1:1q23.3-25.3		 pathogenic
GRCh37/hg19 1q24.2-25.3(chr1:169873155-181823980)x1 copy number loss See cases [RCV000447593] Chr1:169873155..181823980 [GRCh37]
Chr1:1q24.2-25.3		 pathogenic
GRCh37/hg19 1q24.3-31.3(chr1:171990029-195086758)x1 copy number loss See cases [RCV000448686] Chr1:171990029..195086758 [GRCh37]
Chr1:1q24.3-31.3		 pathogenic
GRCh37/hg19 1p36.33-q44(chr1:849467-249224684)x3 copy number gain See cases [RCV000510383] Chr1:849467..249224684 [GRCh37]
Chr1:1p36.33-q44		 pathogenic
GRCh37/hg19 1p36.33-q44(chr1:849467-249224684) copy number gain See cases [RCV000510926] Chr1:849467..249224684 [GRCh37]
Chr1:1p36.33-q44		 pathogenic
GRCh37/hg19 1q25.1-25.3(chr1:173138799-185129406)x3 copy number gain See cases [RCV000512520] Chr1:173138799..185129406 [GRCh37]
Chr1:1q25.1-25.3		 likely pathogenic
GRCh37/hg19 1q25.1(chr1:173064278-173167101)x1 copy number loss not provided [RCV000684672] Chr1:173064278..173167101 [GRCh37]
Chr1:1q25.1		 likely benign
Single allele deletion 1q24q25 microdeletion syndrome [RCV000754969] Chr1:169095250..175778910 [GRCh37]
Chr1:1q24.2-25.1		 pathogenic
GRCh37/hg19 1p36.33-q44(chr1:47851-249228449)x3 copy number gain not provided [RCV000736295] Chr1:47851..249228449 [GRCh37]
Chr1:1p36.33-q44		 pathogenic
GRCh37/hg19 1p36.33-q44(chr1:82154-249218992)x3 copy number gain not provided [RCV000736305] Chr1:82154..249218992 [GRCh37]
Chr1:1p36.33-q44		 pathogenic
GRCh37/hg19 1q23.2-25.2(chr1:159815642-177026983)x1 copy number loss not provided [RCV000736717] Chr1:159815642..177026983 [GRCh37]
Chr1:1q23.2-25.2		 pathogenic
GRCh37/hg19 1q25.1-31.1(chr1:173131908-187406532)x1 copy number loss not provided [RCV000736735] Chr1:173131908..187406532 [GRCh37]
Chr1:1q25.1-31.1		 pathogenic
NM_003326.5(TNFSF4):c.478C>T (p.Leu160=) single nucleotide variant not provided [RCV000924085] Chr1:173186590 [GRCh38]
Chr1:173155729 [GRCh37]
Chr1:1q25.1		 likely benign
NC_000001.10:g.172652343_183538289del10885947 deletion 1q24q25 microdeletion syndrome [RCV000785662] Chr1:172652343..183538289 [GRCh37]
Chr1:1q24.3-25.3		 pathogenic
GRCh37/hg19 1q25.1(chr1:173036654-173333855)x1 copy number loss not provided [RCV000849605] Chr1:173036654..173333855 [GRCh37]
Chr1:1q25.1		 uncertain significance
NM_003326.5(TNFSF4):c.186C>T (p.Ile62=) single nucleotide variant not provided [RCV000952464] Chr1:173188537 [GRCh38]
Chr1:173157676 [GRCh37]
Chr1:1q25.1		 benign
GRCh37/hg19 1q24.2-25.1(chr1:167430471-174635618)x1 copy number loss not provided [RCV001005149] Chr1:167430471..174635618 [GRCh37]
Chr1:1q24.2-25.1		 pathogenic
GRCh37/hg19 1q25.1(chr1:173047673-173339681)x1 copy number loss not provided [RCV001258484] Chr1:173047673..173339681 [GRCh37]
Chr1:1q25.1		 uncertain significance
GRCh37/hg19 1q25.1-25.3(chr1:173162501-182702252)x3 copy number gain not provided [RCV001258487] Chr1:173162501..182702252 [GRCh37]
Chr1:1q25.1-25.3		 pathogenic
NC_000001.10:g.(?_130980840)_(248900000_?)dup duplication Gastrointestinal stromal tumor [RCV001300221]|Parathyroid carcinoma [RCV001341077] Chr1:130980840..248900000 [GRCh37]
Chr1:1q12-44		 uncertain significance
NC_000001.11:g.172987296_174843232del deletion Hereditary antithrombin deficiency [RCV001779981] Chr1:172987296..174843232 [GRCh38]
Chr1:1q24.3-25.1		 pathogenic
NC_000001.10:g.(?_171605065)_(173962123_?)del deletion Autoimmune lymphoproliferative syndrome type 1 [RCV001947302]|not provided [RCV001947303] Chr1:171605065..173962123 [GRCh37]
Chr1:1q24.3-25.1		 pathogenic|uncertain significance|no classifications from unflagged records
GRCh37/hg19 1q24.3-25.1(chr1:171881608-175899893) copy number loss not specified [RCV002053725] Chr1:171881608..175899893 [GRCh37]
Chr1:1q24.3-25.1		 pathogenic
GRCh37/hg19 1q24.3-31.3(chr1:171990029-195086758) copy number loss not specified [RCV002053736] Chr1:171990029..195086758 [GRCh37]
Chr1:1q24.3-31.3		 pathogenic
GRCh37/hg19 1q24.2-25.3(chr1:169873155-181823980) copy number loss not specified [RCV002053713] Chr1:169873155..181823980 [GRCh37]
Chr1:1q24.2-25.3		 pathogenic
NC_000001.10:g.(?_171605065)_(173962123_?)dup duplication Autoimmune lymphoproliferative syndrome type 1 [RCV001939952] Chr1:171605065..173962123 [GRCh37]
Chr1:1q24.3-25.1		 uncertain significance
NM_003326.5(TNFSF4):c.164G>A (p.Arg55Gln) single nucleotide variant not specified [RCV004237404] Chr1:173188559 [GRCh38]
Chr1:173157698 [GRCh37]
Chr1:1q25.1		 likely benign
NM_003326.5(TNFSF4):c.385C>G (p.Leu129Val) single nucleotide variant not specified [RCV004173794] Chr1:173186683 [GRCh38]
Chr1:173155822 [GRCh37]
Chr1:1q25.1		 uncertain significance
NM_003326.5(TNFSF4):c.262G>A (p.Val88Met) single nucleotide variant not specified [RCV004179522] Chr1:173186806 [GRCh38]
Chr1:173155945 [GRCh37]
Chr1:1q25.1		 uncertain significance
NM_003326.5(TNFSF4):c.347G>A (p.Ser116Asn) single nucleotide variant not specified [RCV004173154] Chr1:173186721 [GRCh38]
Chr1:173155860 [GRCh37]
Chr1:1q25.1		 uncertain significance
GRCh37/hg19 1q23.3-25.1(chr1:164571371-175708060)x1 copy number loss not provided [RCV003483966] Chr1:164571371..175708060 [GRCh37]
Chr1:1q23.3-25.1		 pathogenic
GRCh37/hg19 1q25.1-25.3(chr1:173162501-182702252)x3 copy number gain not specified [RCV003986506] Chr1:173162501..182702252 [GRCh37]
Chr1:1q25.1-25.3		 pathogenic
GRCh37/hg19 1q24.2-31.1(chr1:167994071-187711459)x1 copy number loss not specified [RCV003987250] Chr1:167994071..187711459 [GRCh37]
Chr1:1q24.2-31.1		 pathogenic
NM_003326.5(TNFSF4):c.499G>A (p.Gly167Ser) single nucleotide variant not specified [RCV004473237] Chr1:173186569 [GRCh38]
Chr1:173155708 [GRCh37]
Chr1:1q25.1		 uncertain significance
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:2585
Count of miRNA genes:743
Interacting mature miRNAs:846
Transcripts:ENST00000281834, ENST00000367718, ENST00000488053
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.

Markers in Region
RH17450  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371173,152,989 - 173,153,259UniSTSGRCh37
Build 361171,419,612 - 171,419,882RGDNCBI36
Celera1146,262,451 - 146,262,721RGD
Cytogenetic Map1q25UniSTS
HuRef1144,377,727 - 144,377,997UniSTS
GeneMap99-GB4 RH Map1623.3UniSTS
G42294  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371173,159,437 - 173,159,603UniSTSGRCh37
Build 361171,426,060 - 171,426,226RGDNCBI36
Celera1146,268,899 - 146,269,065RGD
Cytogenetic Map1q25UniSTS
HuRef1144,384,175 - 144,384,341UniSTS
G15923  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371173,153,801 - 173,153,925UniSTSGRCh37
Build 361171,420,424 - 171,420,548RGDNCBI36
Celera1146,263,263 - 146,263,387RGD
Cytogenetic Map1q25UniSTS
HuRef1144,378,539 - 144,378,663UniSTS
TNFSF4_270  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371173,152,833 - 173,153,732UniSTSGRCh37
Build 361171,419,456 - 171,420,355RGDNCBI36
Celera1146,262,295 - 146,263,194RGD
HuRef1144,377,571 - 144,378,470UniSTS
SHGC-12820  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371173,155,044 - 173,155,372UniSTSGRCh37
Build 361171,421,667 - 171,421,995RGDNCBI36
Celera1146,264,506 - 146,264,834RGD
Cytogenetic Map1q25UniSTS
HuRef1144,379,782 - 144,380,110UniSTS
Stanford-G3 RH Map16790.0UniSTS
Whitehead-YAC Contig Map1 UniSTS
GeneMap99-G3 RH Map16746.0UniSTS


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 sensory system adipose tissue appendage entire extraembryonic component
High
Medium 19 2 21 18 412 18 10 7 12 2 48 11 2 1
Low 2125 2331 1465 380 1255 316 2755 1061 3403 329 1322 1404 69 1109 1615 3
Below cutoff 274 649 235 223 278 129 1588 1121 294 83 77 189 99 92 1171 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NG_011477 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001297562 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_003326 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_011509964 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017002228 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017002229 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017002230 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_047429896 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_047429902 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_047429908 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_054338600 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_054338601 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_054338602 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_001737393 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_001737394 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_001737395 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_002957543 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_002957545 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AB007839 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB042986 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB042988 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK297932 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AL022310 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AL360002 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AL645568 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC041663 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BQ007105 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH471067 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CP068277 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CR542033 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  D90224 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KF455079 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KF455081 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KF455092 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KF455105 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  LN874319 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  R45433 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X79929 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENST00000281834   ⟹   ENSP00000281834
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1173,183,731 - 173,207,331 (-)Ensembl
RefSeq Acc Id: ENST00000367718   ⟹   ENSP00000356691
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1173,183,734 - 173,205,558 (-)Ensembl
RefSeq Acc Id: ENST00000488053
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1173,188,464 - 173,205,724 (-)Ensembl
RefSeq Acc Id: ENST00000714429   ⟹   ENSP00000519698
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1173,168,727 - 173,476,991 (-)Ensembl
RefSeq Acc Id: ENST00000714430   ⟹   ENSP00000519699
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1173,183,797 - 173,477,036 (-)Ensembl
RefSeq Acc Id: ENST00000714452
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1173,162,645 - 173,477,583 (-)Ensembl
RefSeq Acc Id: ENST00000714453
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1173,172,872 - 173,190,686 (-)Ensembl
RefSeq Acc Id: ENST00000714469
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1173,172,055 - 173,476,985 (-)Ensembl
RefSeq Acc Id: ENST00000714470   ⟹   ENSP00000519727
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1173,183,804 - 173,476,998 (-)Ensembl
RefSeq Acc Id: ENST00000714471   ⟹   ENSP00000519728
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1173,183,814 - 173,477,148 (-)Ensembl
RefSeq Acc Id: NM_001297562   ⟹   NP_001284491
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381173,183,731 - 173,205,532 (-)NCBI
CHM1_11174,575,344 - 174,597,171 (-)NCBI
T2T-CHM13v2.01172,541,831 - 172,563,632 (-)NCBI
Sequence:
RefSeq Acc Id: NM_003326   ⟹   NP_003317
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381173,183,731 - 173,207,331 (-)NCBI
GRCh371173,152,870 - 173,176,471 (-)ENTREZGENE
Build 361171,419,493 - 171,443,094 (-)NCBI Archive
HuRef1144,377,608 - 144,401,209 (-)ENTREZGENE
CHM1_11174,575,344 - 174,598,926 (-)NCBI
T2T-CHM13v2.01172,541,831 - 172,565,431 (-)NCBI
Sequence:
RefSeq Acc Id: XM_011509964   ⟹   XP_011508266
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381173,183,731 - 173,208,900 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017002228   ⟹   XP_016857717
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381173,183,731 - 173,207,010 (-)NCBI
Sequence:
RefSeq Acc Id: XM_047429896   ⟹   XP_047285852
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381173,183,731 - 173,450,733 (-)NCBI
RefSeq Acc Id: XM_047429902   ⟹   XP_047285858
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381173,183,731 - 173,410,012 (-)NCBI
RefSeq Acc Id: XM_047429908   ⟹   XP_047285864
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381173,172,870 - 173,207,017 (-)NCBI
RefSeq Acc Id: XM_054338600   ⟹   XP_054194575
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
T2T-CHM13v2.01172,541,831 - 172,567,000 (-)NCBI
RefSeq Acc Id: XM_054338601   ⟹   XP_054194576
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
T2T-CHM13v2.01172,541,831 - 172,565,110 (-)NCBI
RefSeq Acc Id: XM_054338602   ⟹   XP_054194577
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
T2T-CHM13v2.01172,541,831 - 172,768,144 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_003317   ⟸   NM_003326
- Peptide Label: isoform 1
- UniProtKB: Q8IV74 (UniProtKB/Swiss-Prot),   Q5JZA5 (UniProtKB/Swiss-Prot),   Q9HCN9 (UniProtKB/Swiss-Prot),   P23510 (UniProtKB/Swiss-Prot),   A0A024R937 (UniProtKB/TrEMBL),   A0A0U5CJ97 (UniProtKB/TrEMBL),   Q6FGS4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001284491   ⟸   NM_001297562
- Peptide Label: isoform 2
- UniProtKB: P23510 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_011508266   ⟸   XM_011509964
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_016857717   ⟸   XM_017002228
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: ENSP00000281834   ⟸   ENST00000281834
RefSeq Acc Id: ENSP00000356691   ⟸   ENST00000367718
RefSeq Acc Id: XP_047285864   ⟸   XM_047429908
- Peptide Label: isoform X5
RefSeq Acc Id: XP_047285852   ⟸   XM_047429896
- Peptide Label: isoform X2
RefSeq Acc Id: XP_047285858   ⟸   XM_047429902
- Peptide Label: isoform X4
RefSeq Acc Id: XP_054194577   ⟸   XM_054338602
- Peptide Label: isoform X4
RefSeq Acc Id: XP_054194575   ⟸   XM_054338600
- Peptide Label: isoform X1
RefSeq Acc Id: XP_054194576   ⟸   XM_054338601
- Peptide Label: isoform X3
RefSeq Acc Id: ENSP00000519727   ⟸   ENST00000714470
RefSeq Acc Id: ENSP00000519728   ⟸   ENST00000714471
RefSeq Acc Id: ENSP00000519699   ⟸   ENST00000714430
RefSeq Acc Id: ENSP00000519698   ⟸   ENST00000714429
Protein Domains
TNF family profile

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P23510-F1-model_v2 AlphaFold P23510 1-183 view protein structure

Promoters
RGD ID:6787043
Promoter ID:HG_KWN:6215
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:CD4+TCell,   Jurkat,   K562,   Lymphoblastoid
Transcripts:OTTHUMT00000098113,   UC001GIV.1
Position:
Human AssemblyChrPosition (strand)Source
Build 361171,441,329 - 171,441,829 (-)MPROMDB
RGD ID:6787044
Promoter ID:HG_KWN:6216
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:CD4+TCell,   Lymphoblastoid
Transcripts:UC001GIW.1
Position:
Human AssemblyChrPosition (strand)Source
Build 361171,442,919 - 171,443,419 (-)MPROMDB
RGD ID:6858140
Promoter ID:EPDNEW_H2234
Type:initiation region
Name:TNFSF4_3
Description:TNF superfamily member 4
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_H2235  EPDNEW_H2236  
Experiment Methods:Single-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh381173,205,532 - 173,205,592EPDNEW
RGD ID:6858142
Promoter ID:EPDNEW_H2235
Type:initiation region
Name:TNFSF4_2
Description:TNF superfamily member 4
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_H2234  EPDNEW_H2236  
Experiment Methods:Single-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh381173,207,330 - 173,207,390EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:11934 AgrOrtholog
COSMIC TNFSF4 COSMIC
Ensembl Genes ENSG00000117586 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENST00000281834 ENTREZGENE
  ENST00000281834.4 UniProtKB/Swiss-Prot
  ENST00000367718 ENTREZGENE
  ENST00000367718.5 UniProtKB/Swiss-Prot
Gene3D-CATH 2.60.120.40 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
GTEx ENSG00000117586 GTEx
HGNC ID HGNC:11934 ENTREZGENE
Human Proteome Map TNFSF4 Human Proteome Map
InterPro TNF_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TNF_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TNFSF4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tumour_necrosis_fac-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report hsa:7292 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 7292 ENTREZGENE
OMIM 603594 OMIM
PANTHER PTHR17534 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TUMOR NECROSIS FACTOR LIGAND SUPERFAMILY MEMBER 4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB PA36625 PharmGKB
PROSITE TNF_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART TNF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF49842 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A024R937 ENTREZGENE, UniProtKB/TrEMBL
  A0A0U5CJ97 ENTREZGENE
  P23510 ENTREZGENE
  Q5JZA5 ENTREZGENE
  Q6FGS4 ENTREZGENE, UniProtKB/TrEMBL
  Q8IV74 ENTREZGENE
  Q9HCN9 ENTREZGENE
  TNFL4_HUMAN UniProtKB/Swiss-Prot
UniProt Secondary A0A0U5CJ97 UniProtKB/TrEMBL
  Q5JZA5 UniProtKB/Swiss-Prot
  Q8IV74 UniProtKB/Swiss-Prot
  Q9HCN9 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-03-07 TNFSF4  TNF superfamily member 4  TNFSF4  tumor necrosis factor superfamily member 4  Symbol and/or name change 5135510 APPROVED
2015-11-24 TNFSF4  tumor necrosis factor superfamily member 4  TNFSF4  tumor necrosis factor (ligand) superfamily, member 4  Symbol and/or name change 5135510 APPROVED