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    Trim38 tripartite motif containing 38 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 680019, updated on 28-Oct-2024

    Summary

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    Official Symbol
    Trim38provided by RGD
    Official Full Name
    tripartite motif containing 38provided by RGD
    Primary source
    RGD:1596868
    See related
    AllianceGenome:RGD:1596868
    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
    Summary
    Predicted to enable transcription coactivator activity and ubiquitin protein ligase activity. Predicted to be involved in positive regulation of NF-kappaB transcription factor activity; positive regulation of canonical NF-kappaB signal transduction; and positive regulation of viral entry into host cell. Predicted to act upstream of or within several processes, including negative regulation of defense response to virus; positive regulation of viral genome replication; and protein K48-linked ubiquitination. Orthologous to human TRIM38 (tripartite motif containing 38). [provided by Alliance of Genome Resources, Oct 2024]
    Expression
    Low expression observed in reference dataset See more
    Orthologs
    human mouse all
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    Genomic context

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    See Trim38 in Genome Data Viewer
    Location:
    17p11
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 17 NC_086035.1 (41774419..41787709, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 17 NC_051352.1 (41351857..41365021, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 17 NC_005116.4 (43600006..43607879, complement)

    Chromosome 17 - NC_086035.1Genomic Context describing neighboring genes Neighboring gene solute carrier family 17 member 3 Neighboring gene solute carrier family 17, member 2 Neighboring gene H1.1 linker histone, cluster member Neighboring gene uncharacterized LOC134482711 Neighboring gene uncharacterized LOC134482710 Neighboring gene histone H4C like 1 Neighboring gene H3 clustered histone 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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

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    Related articles in PubMed

    1. TRIM38 protects H9c2 cells from hypoxia/reoxygenation injury via the TRAF6/TAK1/NF-κB signalling pathway. Lu Z, et al. PeerJ, 2022. PMID 36061751, Free PMC Article
    2. Tripartite motif-containing protein 38 negatively regulates TLR3/4- and RIG-I-mediated IFN-β production and antiviral response by targeting NAP1. Zhao W, et al. J Immunol, 2012 Jun 1. PMID 22539786
    3. TRIM protein-mediated regulation of inflammatory and innate immune signaling and its association with antiretroviral activity. Uchil PD, et al. J Virol, 2013 Jan. PMID 23077300, Free PMC Article
    4. TRIM E3 ligases interfere with early and late stages of the retroviral life cycle. Uchil PD, et al. PLoS Pathog, 2008 Feb 8. PMID 18248090, Free PMC Article
    5. Large-scale identification and characterization of human genes that activate NF-kappaB and MAPK signaling pathways. Matsuda A, et al. Oncogene, 2003 May 22. PMID 12761501

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. TRIM38 protects H9c2 cells from hypoxia/reoxygenation injury via the TRAF6/TAK1/NF-kappaB signalling pathway.
      Title: TRIM38 protects H9c2 cells from hypoxia/reoxygenation injury via the TRAF6/TAK1/NF-κB signalling pathway.
    Submit: New GeneRIF Correction

    General gene information

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    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables transcription coactivator activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ubiquitin protein ligase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within negative regulation of defense response to virus ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of DNA-binding transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of NF-kappaB transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of canonical NF-kappaB signal transduction ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of viral entry into host cell ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within positive regulation of viral genome replication ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within proteasome-mediated ubiquitin-dependent protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within protein K48-linked ubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within regulation of interferon-beta production ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    LOW QUALITY PROTEIN: E3 ubiquitin-protein ligase TRIM38
    Names
    E3 ubiquitin-protein ligase TRIM38

    NCBI Reference Sequences (RefSeq)

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    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_086035.1 Reference GRCr8

      Range
      41774419..41787709 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039096440.2 → XP_038952368.1  LOW QUALITY PROTEIN: E3 ubiquitin-protein ligase TRIM38

      Conserved Domains (4) summary
      cd15815
      Location:187 → 363
      SPRY_PRY_TRIM38; PRY/SPRY domain of tripartite motif-binding protein 38 (TRIM38), also known as Ring finger protein 15 (RNF15)
      cd00162
      Location:16 → 61
      RING_Ubox; RING-HC finger (C3HC4-type) [structural motif]
      cl00034
      Location:94 → 132
      Bbox_SF; B-box-type zinc finger superfamily
      cl17238
      Location:16 → 61
      RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain
    Nucleotide Protein Strain
    Heading Accession and Version

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