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    Traf6 TNF receptor associated factor 6 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 311245, updated on 9-Dec-2024

    Summary

    Official Symbol
    Traf6provided by RGD
    Official Full Name
    TNF receptor associated factor 6provided by RGD
    Primary source
    RGD:1306853
    See related
    EnsemblRapid:ENSRNOG00000004639 AllianceGenome:RGD:1306853
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable several functions, including enzyme binding activity; identical protein binding activity; and ubiquitin-ubiquitin ligase activity. Involved in several processes, including interleukin-1-mediated signaling pathway; regulation protein catabolic process at postsynapse; and response to ischemia. Part of protein-containing complex. Is active in glutamatergic synapse and postsynapse. Orthologous to human TRAF6 (TNF receptor associated factor 6). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 104.3), Adrenal (RPKM 87.3) and 9 other tissues See more
    Orthologs
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    Genomic context

    See Traf6 in Genome Data Viewer
    Location:
    3q31
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (108418537..108443330)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (87963517..87988316)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (91252829..91271607)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene intraflagellar transport associated protein Neighboring gene recombination activating 2 Neighboring gene recombination activating 1 Neighboring gene proline rich 5 like Neighboring gene COMM domain containing 9

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    Interactions

    General gene information

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables histone deacetylase binding  
    enables histone deacetylase binding  
    enables identical protein binding  
    enables identical protein binding  
    enables protein kinase B binding  
    enables protein kinase B binding  
    enables protein-macromolecule adaptor activity  
    enables protein-macromolecule adaptor activity  
    enables signaling adaptor activity  
    enables tumor necrosis factor receptor binding  
    enables ubiquitin conjugating enzyme binding  
    enables ubiquitin conjugating enzyme binding  
    enables ubiquitin protein ligase activity  
    enables ubiquitin protein ligase activity  
    enables ubiquitin-protein transferase activity  
    enables ubiquitin-protein transferase activity  
    enables ubiquitin-ubiquitin ligase activity  
    enables ubiquitin-ubiquitin ligase activity  
    enables zinc ion binding  
    Items 1 - 25 of 115
    Process Evidence Code Pubs
    involved_in CD40 signaling pathway  
    involved_in CD40 signaling pathway  
    involved_in DNA damage response  
    involved_in JNK cascade PubMed 
    involved_in T cell receptor signaling pathway  
    involved_in T cell receptor signaling pathway  
    involved_in T-helper 1 type immune response  
    acts_upstream_of_or_within T-helper 1 type immune response  
    involved_in activation of protein kinase activity  
    acts_upstream_of_or_within animal organ morphogenesis  
    involved_in antigen processing and presentation of exogenous peptide antigen via MHC class II  
    acts_upstream_of_or_within antigen processing and presentation of exogenous peptide antigen via MHC class II  
    involved_in antiviral innate immune response  
    involved_in antiviral innate immune response  
    involved_in autophagosome assembly  
    involved_in autophagosome assembly  
    involved_in bone remodeling  
    involved_in bone resorption  
    involved_in bone resorption  
    involved_in canonical NF-kappaB signal transduction  
    involved_in canonical NF-kappaB signal transduction  
    acts_upstream_of_or_within cell development  
    involved_in cellular response to angiotensin PubMed 
    involved_in cellular response to cytokine stimulus  
    involved_in cellular response to hydrogen peroxide PubMed 
    acts_upstream_of_or_within cellular response to lipopolysaccharide  
    involved_in cytokine-mediated signaling pathway PubMed 
    involved_in cytoplasmic pattern recognition receptor signaling pathway  
    involved_in cytoplasmic pattern recognition receptor signaling pathway  
    acts_upstream_of_or_within immune response  
    involved_in in utero embryonic development  
    acts_upstream_of_or_within in utero embryonic development  
    involved_in innate immune response  
    involved_in interleukin-1-mediated signaling pathway  
    involved_in interleukin-1-mediated signaling pathway PubMed 
    involved_in interleukin-1-mediated signaling pathway  
    involved_in interleukin-17-mediated signaling pathway  
    involved_in interleukin-17-mediated signaling pathway  
    involved_in interleukin-17A-mediated signaling pathway  
    involved_in interleukin-17A-mediated signaling pathway  
    involved_in interleukin-33-mediated signaling pathway  
    involved_in interleukin-33-mediated signaling pathway  
    involved_in lipopolysaccharide-mediated signaling pathway  
    involved_in lipopolysaccharide-mediated signaling pathway  
    acts_upstream_of_or_within lipopolysaccharide-mediated signaling pathway  
    involved_in myeloid dendritic cell differentiation  
    acts_upstream_of_or_within myeloid dendritic cell differentiation  
    involved_in negative regulation of DNA-templated transcription  
    involved_in negative regulation of transcription by RNA polymerase II  
    involved_in negative regulation of transcription by RNA polymerase II  
    involved_in neural tube closure  
    involved_in neural tube closure  
    involved_in non-canonical NF-kappaB signal transduction  
    involved_in non-canonical NF-kappaB signal transduction  
    involved_in odontogenesis of dentin-containing tooth  
    acts_upstream_of_or_within odontogenesis of dentin-containing tooth  
    involved_in ossification  
    acts_upstream_of_or_within ossification  
    involved_in osteoclast differentiation  
    involved_in osteoclast differentiation  
    involved_in positive regulation of DNA-binding transcription factor activity  
    involved_in positive regulation of JUN kinase activity  
    involved_in positive regulation of NF-kappaB transcription factor activity  
    involved_in positive regulation of NF-kappaB transcription factor activity  
    involved_in positive regulation of T cell cytokine production  
    involved_in positive regulation of T cell cytokine production  
    involved_in positive regulation of T cell proliferation  
    involved_in positive regulation of T cell proliferation  
    involved_in positive regulation of canonical NF-kappaB signal transduction  
    involved_in positive regulation of canonical NF-kappaB signal transduction  
    involved_in positive regulation of canonical NF-kappaB signal transduction  
    involved_in positive regulation of interleukin-12 production  
    acts_upstream_of_or_within positive regulation of interleukin-12 production  
    involved_in positive regulation of interleukin-2 production  
    involved_in positive regulation of interleukin-2 production  
    involved_in positive regulation of interleukin-6 production  
    acts_upstream_of_or_within positive regulation of interleukin-6 production  
    involved_in positive regulation of leukocyte adhesion to vascular endothelial cell  
    involved_in positive regulation of leukocyte adhesion to vascular endothelial cell  
    involved_in positive regulation of lipopolysaccharide-mediated signaling pathway  
    involved_in positive regulation of lipopolysaccharide-mediated signaling pathway  
    involved_in positive regulation of osteoclast differentiation  
    involved_in positive regulation of osteoclast differentiation  
    involved_in positive regulation of smooth muscle cell proliferation PubMed 
    involved_in positive regulation of transcription by RNA polymerase II  
    involved_in positive regulation of transcription by RNA polymerase II  
    involved_in positive regulation of type I interferon production  
    involved_in positive regulation of type I interferon production  
    involved_in protein K63-linked ubiquitination  
    involved_in protein K63-linked ubiquitination  
    involved_in protein K63-linked ubiquitination  
    involved_in protein autoubiquitination  
    acts_upstream_of_or_within protein autoubiquitination  
    involved_in protein autoubiquitination  
    involved_in protein branched polyubiquitination  
    involved_in protein branched polyubiquitination  
    involved_in protein polyubiquitination  
    acts_upstream_of_or_within protein ubiquitination  
    involved_in regulation of apoptotic process  
    involved_in regulation of canonical NF-kappaB signal transduction  
    involved_in regulation of immunoglobulin production  
    acts_upstream_of_or_within regulation of immunoglobulin production  
    involved_in regulation of neurotransmitter receptor localization to postsynaptic specialization membrane  
    involved_in regulation of neurotransmitter receptor localization to postsynaptic specialization membrane  
    involved_in regulation protein catabolic process at postsynapse PubMed 
    involved_in regulation protein catabolic process at postsynapse PubMed 
    involved_in regulation protein catabolic process at postsynapse PubMed 
    involved_in response to interleukin-1  
    involved_in response to ischemia PubMed 
    acts_upstream_of_or_within signal transduction  
    involved_in synapse assembly PubMed 
    involved_in synapse assembly PubMed 
    involved_in synapse assembly PubMed 
    involved_in toll-like receptor 4 signaling pathway  
    involved_in toll-like receptor 4 signaling pathway  
    Items 1 - 25 of 115
    Items 1 - 20 of 27
    Component Evidence Code Pubs
    part_of CD40 receptor complex  
    part_of CD40 receptor complex  
    located_in cell cortex  
    is_active_in cytoplasm  
    is_active_in cytoplasm  
    located_in cytoplasm  
    located_in cytoplasmic side of plasma membrane  
    located_in cytosol  
    located_in cytosol  
    located_in extrinsic component of cytoplasmic side of plasma membrane  
    is_active_in glutamatergic synapse PubMed 
    is_active_in glutamatergic synapse PubMed 
    located_in glutamatergic synapse  
    is_active_in glutamatergic synapse PubMed 
    is_active_in glutamatergic synapse  
    located_in lipid droplet  
    located_in lipid droplet  
    located_in lipid droplet  
    located_in nucleus  
    located_in nucleus  
    located_in perinuclear region of cytoplasm  
    located_in perinuclear region of cytoplasm  
    located_in plasma membrane  
    part_of plasma membrane signaling receptor complex  
    is_active_in postsynapse PubMed 
    part_of protein-containing complex PubMed 
    part_of protein-containing complex  
    Items 1 - 20 of 27

    General protein information

    Preferred Names
    TNF receptor-associated factor 6
    Names
    E3 ubiquitin-protein ligase TRAF6
    RING-type E3 ubiquitin transferase TRAF6
    TNF receptor-associated factor 6, E3 ubiquitin protein ligase
    NP_001101224.1
    XP_038960852.1
    XP_038960853.1

    NCBI Reference Sequences (RefSeq)

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    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.

    mRNA and Protein(s)

    1. NM_001107754.2NP_001101224.1  TNF receptor-associated factor 6

      See identical proteins and their annotated locations for NP_001101224.1

      Status: PROVISIONAL

      Source sequence(s)
      BC168921
      UniProtKB/Swiss-Prot
      B5DF45
      UniProtKB/TrEMBL
      A0A8I6A434
      Related
      ENSRNOP00000006148.4, ENSRNOT00000006148.7
      Conserved Domains (6) summary
      PLN03086
      Location:132219
      PLN03086; PRLI-interacting factor K; Provisional
      cd03776
      Location:359508
      MATH_TRAF6; Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF6 subfamily, TRAF domain, C-terminal MATH subdomain; composed of proteins with similarity to human TRAF6, including the Drosophila protein DTRAF2. TRAF molecules serve as adapter ...
      pfam02176
      Location:204261
      zf-TRAF; TRAF-type zinc finger
      cd16643
      Location:67124
      mRING-HC-C3HC3D_TRAF6; Modified RING finger, HC subclass (C3HC3D-type), found in tumor necrosis factor (TNF) receptor-associated factor 6 (TRAF6) and similar proteins
      pfam18048
      Location:157183
      TRAF6_Z2; TNF receptor-associated factor 6 zinc finger 2
      cl27170
      Location:273352
      DUF460; Protein of unknown function (DUF460)

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086021.1 Reference GRCr8

      Range
      108418537..108443330
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039104925.2XP_038960853.1  TNF receptor-associated factor 6 isoform X2

      UniProtKB/TrEMBL
      A0A8I6A434
      Conserved Domains (5) summary
      cd03776
      Location:341490
      MATH_TRAF6; Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF6 subfamily, TRAF domain, C-terminal MATH subdomain; composed of proteins with similarity to human TRAF6, including the Drosophila protein DTRAF2. TRAF molecules serve as adapter ...
      pfam02176
      Location:186243
      zf-TRAF; TRAF-type zinc finger
      cd16643
      Location:67124
      mRING-HC-C3HC3D_TRAF6; Modified RING finger, HC subclass (C3HC3D-type), found in tumor necrosis factor (TNF) receptor-associated factor 6 (TRAF6) and similar proteins
      pfam18048
      Location:139165
      TRAF6_Z2; TNF receptor-associated factor 6 zinc finger 2
      cl27170
      Location:255334
      DUF460; Protein of unknown function (DUF460)
    2. XM_039104924.2XP_038960852.1  TNF receptor-associated factor 6 isoform X1

      UniProtKB/Swiss-Prot
      B5DF45
      UniProtKB/TrEMBL
      A0A8I6A434
      Conserved Domains (6) summary
      PLN03086
      Location:132219
      PLN03086; PRLI-interacting factor K; Provisional
      cd03776
      Location:359508
      MATH_TRAF6; Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF6 subfamily, TRAF domain, C-terminal MATH subdomain; composed of proteins with similarity to human TRAF6, including the Drosophila protein DTRAF2. TRAF molecules serve as adapter ...
      pfam02176
      Location:204261
      zf-TRAF; TRAF-type zinc finger
      cd16643
      Location:67124
      mRING-HC-C3HC3D_TRAF6; Modified RING finger, HC subclass (C3HC3D-type), found in tumor necrosis factor (TNF) receptor-associated factor 6 (TRAF6) and similar proteins
      pfam18048
      Location:157183
      TRAF6_Z2; TNF receptor-associated factor 6 zinc finger 2
      cl27170
      Location:273352
      DUF460; Protein of unknown function (DUF460)
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