Human Gene TNFSF10 (ENST00000241261.7_7) from GENCODE V47lift37
  Description: TNF superfamily member 10, transcript variant 4 (from RefSeq NR_033994.2)
Gencode Transcript: ENST00000241261.7_7
Gencode Gene: ENSG00000121858.11_9
Transcript (Including UTRs)
   Position: hg19 chr3:172,223,298-172,241,220 Size: 17,923 Total Exon Count: 5 Strand: -
Coding Region
   Position: hg19 chr3:172,224,282-172,241,174 Size: 16,893 Coding Exon Count: 5 

Page IndexSequence and LinksPrimersMalaCardsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr3:172,223,298-172,241,220)mRNA (may differ from genome)Protein (281 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedUniProtKB
WikipediaBioGrid CRISPR DB

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: TNFSF10
Diseases sorted by gene-association score: malignant glioma (11), ulceroglandular tularemia (8), primary effusion lymphoma (8), dystrophinopathies (8), pharyngoconjunctival fever (7), ameloblastoma (6), mesothelioma, somatic (5), post-transplant lymphoproliferative disease (5), pancreatic cancer (5), colorectal cancer (4), lung cancer (4), prostate cancer (3), chronic lymphocytic leukemia (3), hepatocellular carcinoma (2), ovarian cancer, somatic (2), breast cancer (2), medulloblastoma (2), ewing sarcoma (2), renal cell carcinoma (2), adamantinoma of long bones (2), leukemia, acute promyelocytic, somatic (1)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 70.56 RPKM in Minor Salivary Gland
Total median expression: 866.62 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -11.2046-0.243 Picture PostScript Text
3' UTR -231.10984-0.235 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR006052 - TNF
IPR021184 - TNF_CS
IPR017355 - TNF_ligand_10/11
IPR008983 - Tumour_necrosis_fac-like

Pfam Domains:
PF00229 - TNF(Tumour Necrosis Factor) family

SCOP Domains:
49842 - TNF-like

ModBase Predicted Comparative 3D Structure on Q6IBA9
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGDEnsembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005125 cytokine activity
GO:0005164 tumor necrosis factor receptor binding
GO:0032813 tumor necrosis factor receptor superfamily binding
GO:0046872 metal ion binding

Biological Process:
GO:0006955 immune response
GO:0008584 male gonad development
GO:0010469 regulation of receptor activity
GO:0032868 response to insulin
GO:0043065 positive regulation of apoptotic process
GO:2001238 positive regulation of extrinsic apoptotic signaling pathway

Cellular Component:
GO:0005615 extracellular space
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  AK296085 - Homo sapiens cDNA FLJ51976 complete cds, moderately similar to Tumor necrosis factor ligand superfamily member 10.
U37518 - Human TNF-related apoptosis inducing ligand TRAIL mRNA, complete cds.
BC032722 - Homo sapiens tumor necrosis factor (ligand) superfamily, member 10, mRNA (cDNA clone MGC:45300 IMAGE:5504670), complete cds.
BC020220 - Homo sapiens tumor necrosis factor (ligand) superfamily, member 10, mRNA (cDNA clone IMAGE:4585594), containing frame-shift errors.
U57059 - Homo sapiens Apo-2 ligand mRNA, complete cds.
CR456895 - Homo sapiens full open reading frame cDNA clone RZPDo834F0111D for gene TNFSF10, tumor necrosis factor (ligand) superfamily, member 10; complete cds, incl. stopcodon.
EU183231 - Homo sapiens tumor necrosis factor apoptosis-inducing ligand splice variant delta mRNA, complete cds, alternatively spliced.
AK312742 - Homo sapiens cDNA, FLJ93150, Homo sapiens tumor necrosis factor (ligand) superfamily, member 10(TNFSF10), mRNA.
BT019564 - Homo sapiens tumor necrosis factor (ligand) superfamily, member 10 mRNA, complete cds.
DQ890873 - Synthetic construct clone IMAGE:100003503; FLH166686.01X; RZPDo839C0288D tumor necrosis factor (ligand) superfamily, member 10 (TNFSF10) gene, encodes complete protein.
KJ897900 - Synthetic construct Homo sapiens clone ccsbBroadEn_07294 TNFSF10 gene, encodes complete protein.
DQ894029 - Synthetic construct Homo sapiens clone IMAGE:100008489; FLH166682.01L; RZPDo839C0287D tumor necrosis factor (ligand) superfamily, member 10 (TNFSF10) gene, encodes complete protein.
AB590324 - Synthetic construct DNA, clone: pFN21AE2179, Homo sapiens TNFSF10 gene for tumor necrosis factor (ligand) superfamily, member 10, without stop codon, in Flexi system.
CU689506 - Synthetic construct Homo sapiens gateway clone IMAGE:100020757 5' read TNFSF10 mRNA.
BC009795 - Homo sapiens, tumor necrosis factor (ligand) superfamily, member 10, clone IMAGE:4249793, mRNA.
AY312579 - Homo sapiens chemokine tumor necrosis factor ligand superfamily member 10 (TNFSF10) mRNA, partial cds, alternatively spliced.
DQ848564 - Homo sapiens tumor necrosis factor ligand superfamily member 10 splice variant (TNFSF10) mRNA, complete cds, alternatively spliced.
JD149300 - Sequence 130324 from Patent EP1572962.
JD366282 - Sequence 347306 from Patent EP1572962.
JD051525 - Sequence 32549 from Patent EP1572962.
JD411174 - Sequence 392198 from Patent EP1572962.
JD074590 - Sequence 55614 from Patent EP1572962.
JD155805 - Sequence 136829 from Patent EP1572962.
JD185297 - Sequence 166321 from Patent EP1572962.
JD185298 - Sequence 166322 from Patent EP1572962.
JD185299 - Sequence 166323 from Patent EP1572962.
JD185300 - Sequence 166324 from Patent EP1572962.
JD292537 - Sequence 273561 from Patent EP1572962.
JD366278 - Sequence 347302 from Patent EP1572962.
JD366279 - Sequence 347303 from Patent EP1572962.
JD366280 - Sequence 347304 from Patent EP1572962.
JD366281 - Sequence 347305 from Patent EP1572962.
JD105770 - Sequence 86794 from Patent EP1572962.
JD116840 - Sequence 97864 from Patent EP1572962.
JD517382 - Sequence 498406 from Patent EP1572962.
JD105769 - Sequence 86793 from Patent EP1572962.
JD149295 - Sequence 130319 from Patent EP1572962.
JD353991 - Sequence 335015 from Patent EP1572962.
JD149289 - Sequence 130313 from Patent EP1572962.
JD377956 - Sequence 358980 from Patent EP1572962.
JD185292 - Sequence 166316 from Patent EP1572962.
JD366272 - Sequence 347296 from Patent EP1572962.
JD249515 - Sequence 230539 from Patent EP1572962.
JD085069 - Sequence 66093 from Patent EP1572962.
JD447641 - Sequence 428665 from Patent EP1572962.
JD331989 - Sequence 313013 from Patent EP1572962.
JD175707 - Sequence 156731 from Patent EP1572962.
JD531471 - Sequence 512495 from Patent EP1572962.
JD231800 - Sequence 212824 from Patent EP1572962.
JD536254 - Sequence 517278 from Patent EP1572962.
JD440973 - Sequence 421997 from Patent EP1572962.
JD314702 - Sequence 295726 from Patent EP1572962.
JD224088 - Sequence 205112 from Patent EP1572962.
JD145233 - Sequence 126257 from Patent EP1572962.
JD376844 - Sequence 357868 from Patent EP1572962.
JD438819 - Sequence 419843 from Patent EP1572962.
JD264131 - Sequence 245155 from Patent EP1572962.
JD110540 - Sequence 91564 from Patent EP1572962.
JD329284 - Sequence 310308 from Patent EP1572962.
JD350752 - Sequence 331776 from Patent EP1572962.
JD043578 - Sequence 24602 from Patent EP1572962.
JD344233 - Sequence 325257 from Patent EP1572962.
JD381239 - Sequence 362263 from Patent EP1572962.
JD512675 - Sequence 493699 from Patent EP1572962.
JD412723 - Sequence 393747 from Patent EP1572962.
JD197773 - Sequence 178797 from Patent EP1572962.
JD212381 - Sequence 193405 from Patent EP1572962.
JD522873 - Sequence 503897 from Patent EP1572962.
JD149727 - Sequence 130751 from Patent EP1572962.
JD352238 - Sequence 333262 from Patent EP1572962.
JD298098 - Sequence 279122 from Patent EP1572962.
AK309200 - Homo sapiens cDNA, FLJ99241.
DL491773 - Novel nucleic acids.
JD419082 - Sequence 400106 from Patent EP1572962.
JD422896 - Sequence 403920 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
h_deathPathway - Induction of apoptosis through DR3 and DR4/5 Death Receptors

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000241261.1, ENST00000241261.2, ENST00000241261.3, ENST00000241261.4, ENST00000241261.5, ENST00000241261.6, hCG_20249 , NR_033994, Q6IBA9, Q6IBA9_HUMAN, TNFSF10 , uc317eip.1, uc317eip.2
UCSC ID: ENST00000241261.7_7
RefSeq Accession: NM_003810.4
Protein: Q6IBA9

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.