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    Tnfaip3 TNF alpha induced protein 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 683206, updated on 21-Jul-2018

    Summary

    Official Symbol
    Tnfaip3provided by RGD
    Official Full Name
    TNF alpha induced protein 3provided by RGD
    Primary source
    RGD:1589275
    See related
    Ensembl:ENSRNOG00000049517
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Expression
    Biased expression in Thymus (RPKM 140.9), Spleen (RPKM 109.6) and 9 other tissues See more
    Orthologs

    Genomic context

    See Tnfaip3 in Genome Data Viewer
    Location:
    1p12
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    106 current Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (14401103..14416369, complement)
    104 previous assembly Rnor_5.0 (GCF_000001895.4) 1 NC_005100.3 (15952235..15963951, complement)

    Chromosome 1 - NC_005100.4Genomic Context describing neighboring genes Neighboring gene PERP, TP53 apoptosis effector Neighboring gene 60S ribosomal protein L7a pseudogene Neighboring gene uncharacterized LOC103690926 Neighboring gene similar to ribosomal protein L10a

    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 FunctionsWhat's a GeneRIF?

    Pathways from BioSystems

    General gene information

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    K63-linked polyubiquitin modification-dependent protein binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    Lys63-specific deubiquitinase activity ISO
    Inferred from Sequence Orthology
    more info
     
    identical protein binding IEA
    Inferred from Electronic Annotation
    more info
     
    identical protein binding ISO
    Inferred from Sequence Orthology
    more info
     
    kinase binding IEA
    Inferred from Electronic Annotation
    more info
     
    kinase binding ISO
    Inferred from Sequence Orthology
    more info
     
    protease binding IEA
    Inferred from Electronic Annotation
    more info
     
    protease binding ISO
    Inferred from Sequence Orthology
    more info
     
    protein self-association IEA
    Inferred from Electronic Annotation
    more info
     
    protein self-association ISO
    Inferred from Sequence Orthology
    more info
     
    thiol-dependent ubiquitin-specific protease activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    thiol-dependent ubiquitin-specific protease activity ISO
    Inferred from Sequence Orthology
    more info
     
    thiol-dependent ubiquitinyl hydrolase activity ISO
    Inferred from Sequence Orthology
    more info
     
    ubiquitin binding IEA
    Inferred from Electronic Annotation
    more info
     
    ubiquitin binding ISO
    Inferred from Sequence Orthology
    more info
     
    ubiquitin-protein transferase activity IEA
    Inferred from Electronic Annotation
    more info
     
    ubiquitin-protein transferase activity ISO
    Inferred from Sequence Orthology
    more info
     
    zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    B-1 B cell homeostasis IEA
    Inferred from Electronic Annotation
    more info
     
    B-1 B cell homeostasis ISO
    Inferred from Sequence Orthology
    more info
     
    cell migration IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    cellular response to hydrogen peroxide IEA
    Inferred from Electronic Annotation
    more info
     
    cellular response to hydrogen peroxide ISO
    Inferred from Sequence Orthology
    more info
     
    cellular response to lipopolysaccharide ISO
    Inferred from Sequence Orthology
    more info
     
    cytoskeleton organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    establishment of protein localization to vacuole IEA
    Inferred from Electronic Annotation
    more info
     
    establishment of protein localization to vacuole ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of B cell activation IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of B cell activation ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of CD40 signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of CD40 signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of I-kappaB kinase/NF-kappaB signaling ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of NF-kappaB transcription factor activity IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of NF-kappaB transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of cell death ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of chronic inflammatory response IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of chronic inflammatory response ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of cyclin-dependent protein serine/threonine kinase activity IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of cyclin-dependent protein serine/threonine kinase activity ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of endothelial cell apoptotic process IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of endothelial cell apoptotic process ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of extrinsic apoptotic signaling pathway via death domain receptors IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of extrinsic apoptotic signaling pathway via death domain receptors ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of inflammatory response ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of innate immune response IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of innate immune response ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of interleukin-1 beta production IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of interleukin-1 beta production ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of interleukin-2 production IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of interleukin-2 production ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of interleukin-6 production IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of interleukin-6 production ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of nucleotide-binding oligomerization domain containing 1 signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of nucleotide-binding oligomerization domain containing 1 signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of nucleotide-binding oligomerization domain containing 2 signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of nucleotide-binding oligomerization domain containing 2 signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of protein ubiquitination IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of protein ubiquitination ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of smooth muscle cell proliferation IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of smooth muscle cell proliferation ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of toll-like receptor 3 signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of toll-like receptor 3 signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of toll-like receptor 5 signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of toll-like receptor 5 signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of tumor necrosis factor production IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of tumor necrosis factor production ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of Wnt signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    positive regulation of cellular protein catabolic process IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of cellular protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of hepatocyte proliferation IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of hepatocyte proliferation ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    protein K11-linked deubiquitination ISO
    Inferred from Sequence Orthology
    more info
     
    protein K29-linked deubiquitination IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    protein K33-linked deubiquitination IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    protein K48-linked deubiquitination ISO
    Inferred from Sequence Orthology
    more info
     
    protein K48-linked ubiquitination IEA
    Inferred from Electronic Annotation
    more info
     
    protein K48-linked ubiquitination ISO
    Inferred from Sequence Orthology
    more info
     
    protein K63-linked deubiquitination ISO
    Inferred from Sequence Orthology
    more info
     
    protein deubiquitination ISO
    Inferred from Sequence Orthology
    more info
     
    protein deubiquitination involved in ubiquitin-dependent protein catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    regulation of germinal center formation IEA
    Inferred from Electronic Annotation
    more info
     
    regulation of germinal center formation ISO
    Inferred from Sequence Orthology
    more info
     
    response to molecule of bacterial origin ISO
    Inferred from Sequence Orthology
    more info
     
    response to muramyl dipeptide IEA
    Inferred from Electronic Annotation
    more info
     
    response to muramyl dipeptide ISO
    Inferred from Sequence Orthology
    more info
     
    tolerance induction to lipopolysaccharide IEA
    Inferred from Electronic Annotation
    more info
     
    tolerance induction to lipopolysaccharide ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
     
    nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    nucleus ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    tumor necrosis factor alpha-induced protein 3
    Names
    tumor necrosis factor, alpha-induced protein 3

    NCBI Reference Sequences (RefSeq)

    RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

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

    Reference Rnor_6.0 Primary Assembly

    Genomic

    1. NC_005100.4 Reference Rnor_6.0 Primary Assembly

      Range
      14401103..14416369 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017589829.1XP_017445318.1  tumor necrosis factor alpha-induced protein 3 isoform X2

      Conserved Domains (2) summary
      smart00259
      Location:746771
      ZnF_A20; A20-like zinc fingers
      pfam02338
      Location:98257
      OTU; OTU-like cysteine protease
    2. XM_017589830.1XP_017445319.1  tumor necrosis factor alpha-induced protein 3 isoform X2

      Conserved Domains (2) summary
      smart00259
      Location:746771
      ZnF_A20; A20-like zinc fingers
      pfam02338
      Location:98257
      OTU; OTU-like cysteine protease
    3. XM_017589831.1XP_017445320.1  tumor necrosis factor alpha-induced protein 3 isoform X2

      Conserved Domains (2) summary
      smart00259
      Location:746771
      ZnF_A20; A20-like zinc fingers
      pfam02338
      Location:98257
      OTU; OTU-like cysteine protease
    4. XM_003748656.3XP_003748704.2  tumor necrosis factor alpha-induced protein 3 isoform X3

      See identical proteins and their annotated locations for XP_003748704.2

      UniProtKB/TrEMBL
      M0R7V5
      Related
      ENSRNOP00000065542.1, ENSRNOT00000074583.1
      Conserved Domains (2) summary
      smart00259
      Location:783808
      ZnF_A20; A20-like zinc fingers
      pfam02338
      Location:135294
      OTU; OTU-like cysteine protease
    5. XM_017589828.1XP_017445317.1  tumor necrosis factor alpha-induced protein 3 isoform X1

      UniProtKB/TrEMBL
      M0R7V5
      Conserved Domains (2) summary
      smart00259
      Location:783808
      ZnF_A20; A20-like zinc fingers
      pfam02338
      Location:135294
      OTU; OTU-like cysteine protease

    Alternate Rn_Celera

    Genomic

    1. AC_000069.1 Alternate Rn_Celera

      Range
      12159804..12174919 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006222835.3XP_006222897.1  tumor necrosis factor alpha-induced protein 3 isoform X4

      See identical proteins and their annotated locations for XP_006222897.1

      Conserved Domains (2) summary
      smart00259
      Location:746771
      ZnF_A20; A20-like zinc fingers
      pfam02338
      Location:98257
      OTU; OTU-like cysteine protease
    2. XM_006222836.3XP_006222898.1  tumor necrosis factor alpha-induced protein 3 isoform X4

      See identical proteins and their annotated locations for XP_006222898.1

      Conserved Domains (2) summary
      smart00259
      Location:746771
      ZnF_A20; A20-like zinc fingers
      pfam02338
      Location:98257
      OTU; OTU-like cysteine protease
    3. XM_017588908.1XP_017444397.1  tumor necrosis factor alpha-induced protein 3 isoform X4

      Conserved Domains (2) summary
      smart00259
      Location:746771
      ZnF_A20; A20-like zinc fingers
      pfam02338
      Location:98257
      OTU; OTU-like cysteine protease
    4. XM_001060914.5XP_001060914.4  tumor necrosis factor alpha-induced protein 3 isoform X3

      See identical proteins and their annotated locations for XP_001060914.4

      UniProtKB/TrEMBL
      M0R7V5
      Conserved Domains (2) summary
      smart00259
      Location:783808
      ZnF_A20; A20-like zinc fingers
      pfam02338
      Location:135294
      OTU; OTU-like cysteine protease
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