Human Gene TNFSF8 (uc004bji.2) Description and Page Index
  Description: Homo sapiens tumor necrosis factor (ligand) superfamily, member 8 (TNFSF8), transcript variant 1, mRNA.
RefSeq Summary (NM_001244): The protein encoded by this gene is a cytokine that belongs to the tumor necrosis factor (TNF) ligand family. This cytokine is a ligand for TNFRSF8/CD30, which is a cell surface antigen and a marker for Hodgkin lymphoma and related hematologic malignancies. The engagement of this cytokine expressed on B cell surface plays an inhibitory role in modulating Ig class switch. This cytokine was shown to enhance cell proliferation of some lymphoma cell lines, while to induce cell death and reduce cell proliferation of other lymphoma cell lines. The pleiotropic biologic activities of this cytokine on different CD30+ lymphoma cell lines may play a pathophysiologic role in Hodgkin's and some non-Hodgkin's lymphomas. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Nov 2011].
Transcript (Including UTRs)
   Position: hg19 chr9:117,663,425-117,692,875 Size: 29,451 Total Exon Count: 4 Strand: -
Coding Region
   Position: hg19 chr9:117,666,211-117,692,583 Size: 26,373 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr9:117,663,425-117,692,875)mRNA (may differ from genome)Protein (234 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkHGNCHPRDLynxMGIneXtProt
OMIMPubMedReactomeStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
  ID: TNFL8_HUMAN
DESCRIPTION: RecName: Full=Tumor necrosis factor ligand superfamily member 8; AltName: Full=CD30 ligand; Short=CD30-L; AltName: CD_antigen=CD153;
FUNCTION: Cytokine that binds to TNFRSF8/CD30. Induces proliferation of T-cells.
SUBUNIT: Homotrimer (Probable).
SUBCELLULAR LOCATION: Membrane; Single-pass type II membrane protein.
SIMILARITY: Belongs to the tumor necrosis factor family.

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): TNFSF8
CDC HuGE Published Literature: TNFSF8
Positive Disease Associations: Blood Pressure
Related Studies:
  1. Blood Pressure
    , , . [PubMed 0]

-  MalaCards Disease Associations
  MalaCards Gene Search: TNFSF8
Diseases sorted by gene-association score: hodgkin lymphoma (17), anaplastic large cell lymphoma (11), autoimmune neuropathy (7), autoimmune disease of central nervous system (7), acute myocarditis (5), lymphoma, non-hodgkin (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: 4.80 RPKM in Whole Blood
Total median expression: 23.08 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 -85.00292-0.291 Picture PostScript Text
3' UTR -825.092786-0.296 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
IPR021185 - TNF_CD30_ligand_type
IPR021184 - TNF_CS
IPR008983 - Tumour_necrosis_fac-like

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

SCOP Domains:
49842 - TNF-like

ModBase Predicted Comparative 3D Structure on P32971
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 Details     
Gene Sorter     
      
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005102 receptor binding
GO:0005125 cytokine activity
GO:0005164 tumor necrosis factor receptor binding

Biological Process:
GO:0006915 apoptotic process
GO:0006955 immune response
GO:0007165 signal transduction
GO:0007267 cell-cell signaling
GO:0008283 cell proliferation
GO:0010469 regulation of receptor activity
GO:0033209 tumor necrosis factor-mediated signaling pathway
GO:0043374 CD8-positive, alpha-beta T cell differentiation
GO:0045944 positive regulation of transcription from RNA polymerase II promoter
GO:0050830 defense response to Gram-positive bacterium

Cellular Component:
GO:0005615 extracellular space
GO:0005886 plasma membrane
GO:0005887 integral component of plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  L09753 - Homo sapiens CD30 ligand mRNA, complete cds.
JD296131 - Sequence 277155 from Patent EP1572962.
JD417431 - Sequence 398455 from Patent EP1572962.
JD208204 - Sequence 189228 from Patent EP1572962.
JD223783 - Sequence 204807 from Patent EP1572962.
JD280762 - Sequence 261786 from Patent EP1572962.
JD474970 - Sequence 455994 from Patent EP1572962.
JD074834 - Sequence 55858 from Patent EP1572962.
JD301745 - Sequence 282769 from Patent EP1572962.
JD073585 - Sequence 54609 from Patent EP1572962.
JD054825 - Sequence 35849 from Patent EP1572962.
JD265457 - Sequence 246481 from Patent EP1572962.
JD316430 - Sequence 297454 from Patent EP1572962.
JD203995 - Sequence 185019 from Patent EP1572962.
JD493192 - Sequence 474216 from Patent EP1572962.
JD563861 - Sequence 544885 from Patent EP1572962.
JD045602 - Sequence 26626 from Patent EP1572962.
JD331586 - Sequence 312610 from Patent EP1572962.
JD539028 - Sequence 520052 from Patent EP1572962.
JD527780 - Sequence 508804 from Patent EP1572962.
JD521632 - Sequence 502656 from Patent EP1572962.
JD506522 - Sequence 487546 from Patent EP1572962.
BC111939 - Homo sapiens tumor necrosis factor (ligand) superfamily, member 8, mRNA (cDNA clone MGC:138144 IMAGE:8327407), complete cds.
BC093630 - Homo sapiens tumor necrosis factor (ligand) superfamily, member 8, mRNA (cDNA clone MGC:120665 IMAGE:7939475), complete cds.
AK313619 - Homo sapiens cDNA, FLJ94189, Homo sapiens tumor necrosis factor (ligand) superfamily, member 8(TNFSF8), mRNA.
KJ890862 - Synthetic construct Homo sapiens clone ccsbBroadEn_00256 TNFSF8 gene, encodes complete protein.
AB590754 - Synthetic construct DNA, clone: pFN21AE1724, Homo sapiens TNFSF8 gene for tumor necrosis factor (ligand) superfamily, member 8, without stop codon, in Flexi system.
JD088825 - Sequence 69849 from Patent EP1572962.
JD436482 - Sequence 417506 from Patent EP1572962.
JD422362 - Sequence 403386 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04060 - Cytokine-cytokine receptor interaction

Reactome (by CSHL, EBI, and GO)

Protein P32971 (Reactome details) participates in the following event(s):

R-HSA-8856189 TNFSF8 binds TNFRSF8
R-HSA-5669034 TNFs bind their physiological receptors
R-HSA-5668541 TNFR2 non-canonical NF-kB pathway
R-HSA-1280215 Cytokine Signaling in Immune system
R-HSA-168256 Immune System

-  Other Names for This Gene
  Alternate Gene Symbols: CD30L, CD30LG, NM_001244, NP_001235, O43404, P32971, TNFL8_HUMAN
UCSC ID: uc004bji.2
RefSeq Accession: NM_001244
Protein: P32971 (aka TNFL8_HUMAN or TNF8_HUMAN)
CCDS: CCDS6810.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001244.3
exon count: 4CDS single in 3' UTR: no RNA size: 3797
ORF size: 705CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1400.00frame shift in genome: no % Coverage: 99.63
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 3082# strange splices: 0
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.