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    TNFSF4 TNF superfamily member 4 [ Homo sapiens (human) ]

    Gene ID: 7292, updated on 29-Mar-2018
    Official Symbol
    TNFSF4provided by HGNC
    Official Full Name
    TNF superfamily member 4provided by HGNC
    Primary source
    HGNC:HGNC:11934
    See related
    Ensembl:ENSG00000117586 MIM:603594; Vega:OTTHUMG00000034838
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    GP34; CD252; OX4OL; TXGP1; CD134L; OX-40L; TNLG2B
    Summary
    This gene encodes a cytokine of the tumor necrosis factor (TNF) ligand family. The encoded protein functions in T cell antigen-presenting cell (APC) interactions and mediates adhesion of activated T cells to endothelial cells. Polymorphisms in this gene have been associated with Sjogren's syndrome and systemic lupus erythematosus. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jul 2014]
    Expression
    Low expression observed in reference dataset See more
    Orthologs
    Location:
    1q25.1
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    109 current GRCh38.p12 (GCF_000001405.38) 1 NC_000001.11 (173183729..173462208, complement)
    105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (173152870..173176471, complement)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene TNF superfamily member 18 Neighboring gene glutamic-oxaloacetic transaminase 2 pseudogene 2 Neighboring gene uncharacterized LOC100506023 Neighboring gene ribosomal protein L26 pseudogene 11 Neighboring gene centrosomal protein 57kDa pseudogene Neighboring gene uncharacterized LOC107985227 Neighboring gene uncharacterized LOC101928673 Neighboring gene peroxiredoxin 6 Neighboring gene solute carrier family 9 member C2 (putative) Neighboring gene testis expressed 50

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Jun 15 11:32:44 2016

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Associated conditions

    Description Tests
    Myocardial infarction 1
    MedGen: C1838021 OMIM: 608446 GeneReviews: Not available
    Compare labs

    NHGRI GWAS Catalog

    Description
    A systemic sclerosis and systemic lupus erythematosus pan-meta-GWAS reveals new shared susceptibility loci.
    NHGRI GWA Catalog
    Genome-wide association study in a Chinese Han population identifies nine new susceptibility loci for systemic lupus erythematosus.
    NHGRI GWA Catalog
    Genome-wide association study of celiac disease in North America confirms FRMD4B as new celiac locus.
    NHGRI GWA Catalog
    Genome-wide meta-analysis for severe diabetic retinopathy.
    NHGRI GWA Catalog
    Genome-wide meta-analysis increases to 71 the number of confirmed Crohn's disease susceptibility loci.
    NHGRI GWA Catalog
    Meta-analysis followed by replication identifies loci in or near CDKN1B, TET3, CD80, DRAM1, and ARID5B as associated with systemic lupus erythematosus in Asians.
    NHGRI GWA Catalog
    Multiple common variants for celiac disease influencing immune gene expression.
    NHGRI GWA Catalog
    • Cytokine Signaling in Immune system, organism-specific biosystem (from REACTOME)
      Cytokine Signaling in Immune system, organism-specific biosystemCytokines are small proteins that regulate and mediate immunity, inflammation, and hematopoiesis. They are secreted in response to immune stimuli, and usually act briefly, locally, at very low concen...
    • Cytokine-cytokine receptor interaction, organism-specific biosystem (from KEGG)
      Cytokine-cytokine receptor interaction, organism-specific biosystemCytokines are soluble extracellular proteins or glycoproteins that are crucial intercellular regulators and mobilizers of cells engaged in innate as well as adaptive inflammatory host defenses, cell ...
    • Cytokine-cytokine receptor interaction, conserved biosystem (from KEGG)
      Cytokine-cytokine receptor interaction, conserved biosystemCytokines are soluble extracellular proteins or glycoproteins that are crucial intercellular regulators and mobilizers of cells engaged in innate as well as adaptive inflammatory host defenses, cell ...
    • Immune System, organism-specific biosystem (from REACTOME)
      Immune System, organism-specific biosystemHumans are exposed to millions of potential pathogens daily, through contact, ingestion, and inhalation. Our ability to avoid infection depends on the adaptive immune system and during the first crit...
    • TNFR2 non-canonical NF-kB pathway, organism-specific biosystem (from REACTOME)
      TNFR2 non-canonical NF-kB pathway, organism-specific biosystemTumor necrosis factor-alpha (TNFA) exerts a wide range of biological effects through TNF receptor 1 (TNFR1) and TNF receptor 2 (TNFR2). Under normal physiological conditions TNFR2 exhibits more restr...
    • TNFs bind their physiological receptors, organism-specific biosystem (from REACTOME)
      TNFs bind their physiological receptors, organism-specific biosystemMembers of the tumour necrosis factor superfamily (TNFSF) and TNF receptor superfamily (TNFRSF) have crucial roles in both innate and adaptive immunity. These members are implicated in various acquir...
    • Thymic Stromal LymphoPoietin (TSLP) Signaling Pathway, organism-specific biosystem (from WikiPathways)
      Thymic Stromal LymphoPoietin (TSLP) Signaling Pathway, organism-specific biosystem
      Thymic Stromal LymphoPoietin (TSLP) Signaling Pathway
    Products Interactant Other Gene Complex Source Pubs Description

    Markers

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    cytokine activity IEA
    Inferred from Electronic Annotation
    more info
     
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    signaling receptor binding TAS
    Traceable Author Statement
    more info
    PubMed 
    tumor necrosis factor receptor binding IEA
    Inferred from Electronic Annotation
    more info
     
    tumor necrosis factor receptor superfamily binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    tumor necrosis factor receptor superfamily binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Process Evidence Code Pubs
    T-helper 2 cell activation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    acute inflammatory response ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    cellular response to lipopolysaccharide IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cellular response to prostaglandin E stimulus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    chemokine (C-C motif) ligand 11 production ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    defense response to nematode ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    immune response IEA
    Inferred from Electronic Annotation
    more info
     
    inflammatory response IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    memory T cell activation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    negative regulation of DNA binding transcription factor activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    negative regulation of T-helper 1 cell differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    negative regulation of interferon-gamma production ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    negative regulation of interleukin-17 production IDA
    Inferred from Direct Assay
    more info
    PubMed 
    negative regulation of regulatory T cell differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    negative regulation of transcription, DNA-templated ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    positive regulation of B cell activation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    positive regulation of CD4-positive, alpha-beta T cell costimulation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    positive regulation of CD4-positive, alpha-beta T cell differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    positive regulation of T cell cytokine production ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    positive regulation of T cell proliferation IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    positive regulation of T-helper 2 cell differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    positive regulation of alpha-beta T cell proliferation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    positive regulation of cell proliferation TAS
    Traceable Author Statement
    more info
    PubMed 
    positive regulation of cytokine production IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    positive regulation of immunoglobulin mediated immune response ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    positive regulation of immunoglobulin secretion ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    positive regulation of inflammatory response IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of interferon-gamma production IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of interleukin-10 production ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    positive regulation of interleukin-12 production ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    positive regulation of interleukin-13 production ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    positive regulation of interleukin-4 production IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of interleukin-4-dependent isotype switching to IgE isotypes ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    positive regulation of interleukin-6 production IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of memory T cell differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    positive regulation of type 2 immune response ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    regulation of adaptive immune response ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    regulation of inflammatory response ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    regulation of signaling receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    response to nitrogen dioxide ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    response to virus ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    signal transduction TAS
    Traceable Author Statement
    more info
    PubMed 
    tumor necrosis factor-mediated signaling pathway TAS
    Traceable Author Statement
    more info
     
    Component Evidence Code Pubs
    cell surface IDA
    Inferred from Direct Assay
    more info
    PubMed 
    extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    extracellular space IDA
    Inferred from Direct Assay
    more info
    PubMed 
    integral component of plasma membrane NAS
    Non-traceable Author Statement
    more info
    PubMed 
    plasma membrane TAS
    Traceable Author Statement
    more info
     
    Preferred Names
    tumor necrosis factor ligand superfamily member 4
    Names
    CD134 ligand
    OX40 antigen ligand
    glycoprotein Gp34
    tax-transcriptionally activated glycoprotein 1 (34kD)
    tumor necrosis factor (ligand) superfamily member 4
    tumor necrosis factor ligand 2B
    tumor necrosis factor superfamily member 4

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    Genomic

    1. NG_011477.1 RefSeqGene

      Range
      5020..28602
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001297562.1NP_001284491.1  tumor necrosis factor ligand superfamily member 4 isoform 2

      See identical proteins and their annotated locations for NP_001284491.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at an alternate start codon, compared to variant 1. The encoded isoform (2) has a distinct N-terminus and is shorter than isoform 1.
      Source sequence(s)
      BC041663, R45433
      Consensus CDS
      CCDS72985.1
      UniProtKB/Swiss-Prot
      P23510
      Related
      ENSP00000356691.1, OTTHUMP00000032705, ENST00000367718.5, OTTHUMT00000084272
      Conserved Domains (1) summary
      smart00207
      Location:24133
      TNF; Tumour necrosis factor family
    2. NM_003326.4NP_003317.1  tumor necrosis factor ligand superfamily member 4 isoform 1

      See identical proteins and their annotated locations for NP_003317.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      BC041663, R45433, X79929
      Consensus CDS
      CCDS1306.1
      UniProtKB/Swiss-Prot
      P23510
      UniProtKB/TrEMBL
      A0A024R937
      Related
      ENSP00000281834.3, OTTHUMP00000032704, ENST00000281834.3, OTTHUMT00000084271
      Conserved Domains (1) summary
      smart00207
      Location:74183
      TNF; Tumour necrosis factor family

    RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p12 Primary Assembly

    Genomic

    1. NC_000001.11 Reference GRCh38.p12 Primary Assembly

      Range
      173183729..173462208 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017002228.1XP_016857717.1  tumor necrosis factor ligand superfamily member 4 isoform X2

    2. XM_017002229.1XP_016857718.1  tumor necrosis factor ligand superfamily member 4 isoform X3

    3. XM_017002230.1XP_016857719.1  tumor necrosis factor ligand superfamily member 4 isoform X4

    4. XM_011509964.2XP_011508266.2  tumor necrosis factor ligand superfamily member 4 isoform X1

    RNA

    1. XR_002957545.1 RNA Sequence

    2. XR_001737393.2 RNA Sequence

    3. XR_001737394.2 RNA Sequence

    4. XR_001737395.2 RNA Sequence

    5. XR_002957543.1 RNA Sequence

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