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

    Gene ID: 683206, updated on 9-Dec-2024

    Summary

    Official Symbol
    Tnfaip3provided by RGD
    Official Full Name
    TNF alpha induced protein 3provided by RGD
    Primary source
    RGD:1589275
    See related
    EnsemblRapid:ENSRNOG00000049517 AllianceGenome:RGD:1589275
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    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 K63-linked polyubiquitin modification-dependent protein binding activity; deubiquitinase activity; and enzyme binding activity. Predicted to be involved in several processes, including negative regulation of macromolecule metabolic process; negative regulation of signal transduction; and protein modification by small protein conjugation or removal. Predicted to act upstream of or within several processes, including establishment of protein localization to vacuole; negative regulation of interleukin-1 beta production; and protein K63-linked deubiquitination. Predicted to be active in cytoplasm and nucleus. Human ortholog(s) of this gene implicated in breast cancer; colorectal cancer; esophageal cancer; and familial Behcet-like autoinflammatory syndrome. Orthologous to human TNFAIP3 (TNF alpha induced protein 3). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 140.9), Spleen (RPKM 109.6) and 9 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Tnfaip3 in Genome Data Viewer
    Location:
    1p12
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (15528921..15543993, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (13709211..13724291, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (14401103..14416369, complement)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene 60S ribosomal protein L7a pseudogene Neighboring gene uncharacterized LOC134482579 Neighboring gene uncharacterized LOC120098793 Neighboring gene ribosomal protein L10A, pseudogene 13

    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?

    General gene information

    Markers

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables K63-linked deubiquitinase activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables K63-linked polyubiquitin modification-dependent protein binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables cysteine-type deubiquitinase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables cysteine-type deubiquitinase activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables kinase binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables protease binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables ubiquitin binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables ubiquitin-protein transferase activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    involved_in B-1 B cell homeostasis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cell migration IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in cellular response to hydrogen peroxide ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cellular response to lipopolysaccharide ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cytoskeleton organization IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within establishment of protein localization to vacuole ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of B cell activation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of CD40 signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of NF-kappaB transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of canonical NF-kappaB signal transduction ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of chronic inflammatory response ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of cyclin-dependent protein serine/threonine kinase activity ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of endothelial cell apoptotic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of extrinsic apoptotic signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of extrinsic apoptotic signaling pathway via death domain receptors ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of inflammatory response ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of innate immune response ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within negative regulation of interleukin-1 beta production ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of interleukin-1 beta production ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of interleukin-2 production ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of interleukin-6 production ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of nucleotide-binding oligomerization domain containing 1 signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of nucleotide-binding oligomerization domain containing 2 signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of protein ubiquitination ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of smooth muscle cell proliferation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of toll-like receptor 3 signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of toll-like receptor 5 signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of tumor necrosis factor production ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of Wnt signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in positive regulation of hepatocyte proliferation ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within positive regulation of protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in protein K11-linked deubiquitination ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in protein K48-linked deubiquitination ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in protein K48-linked ubiquitination ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within protein K63-linked deubiquitination ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in protein K63-linked deubiquitination ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in protein deubiquitination ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in protein deubiquitination involved in ubiquitin-dependent protein catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in regulation of germinal center formation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in response to molecule of bacterial origin ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in response to muramyl dipeptide ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in tolerance induction to lipopolysaccharide ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in 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
    NP_001414035.1
    XP_038954753.1
    XP_038954761.1
    XP_038954771.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001427106.1NP_001414035.1  tumor necrosis factor alpha-induced protein 3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/TrEMBL
      A6JPA8, M0R7V5
      Related
      ENSRNOP00000065542.2, ENSRNOT00000074583.3

    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_086019.1 Reference GRCr8

      Range
      15528921..15543993 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039098843.2XP_038954771.1  tumor necrosis factor alpha-induced protein 3 isoform X2

      UniProtKB/TrEMBL
      A6JPA8, M0R7V5
      Conserved Domains (2) summary
      smart00259
      Location:746771
      ZnF_A20; A20-like zinc fingers
      pfam02338
      Location:98257
      OTU; OTU-like cysteine protease
    2. XM_039098833.2XP_038954761.1  tumor necrosis factor alpha-induced protein 3 isoform X2

      UniProtKB/TrEMBL
      A6JPA8, M0R7V5
      Conserved Domains (2) summary
      smart00259
      Location:746771
      ZnF_A20; A20-like zinc fingers
      pfam02338
      Location:98257
      OTU; OTU-like cysteine protease
    3. XM_039098825.2XP_038954753.1  tumor necrosis factor alpha-induced protein 3 isoform X1

      UniProtKB/TrEMBL
      A0A8I6AL23
      Conserved Domains (2) summary
      smart00259
      Location:783808
      ZnF_A20; A20-like zinc fingers
      pfam02338
      Location:135294
      OTU; OTU-like cysteine protease

    RNA

    1. XR_005497282.2 RNA Sequence