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    Trim45 tripartite motif-containing 45 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 295323, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Trim45provided by RGD
    Official Full Name
    tripartite motif-containing 45provided by RGD
    Primary source
    RGD:1309168
    See related
    EnsemblRapid:ENSRNOG00000015347 AllianceGenome:RGD:1309168
    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 ubiquitin protein ligase activity. Predicted to be involved in negative regulation of inflammatory response; proteasome-mediated ubiquitin-dependent protein catabolic process; and protein K48-linked ubiquitination. Predicted to act upstream of or within bone development. Predicted to be located in cytosol and intercellular bridge. Predicted to be active in cytoplasm and nucleoplasm. Orthologous to human TRIM45 (tripartite motif containing 45). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Muscle (RPKM 61.6), Testes (RPKM 35.7) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Trim45 in Genome Data Viewer
    Location:
    2q34
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (191038355..191047826)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (188349979..188359205)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (203301838..203310532)

    Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene cofilin 1, pseudogene 9 Neighboring gene V-set domain containing T cell activation inhibitor 1 Neighboring gene uncharacterized LOC120100897 Neighboring gene ribosomal protein L18A, pseudogene 3 Neighboring gene transcription termination factor 2 Neighboring gene CD101 molecule

    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
    • 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. Rapid-throughput skeletal phenotyping of 100 knockout mice identifies 9 new genes that determine bone strength. Bassett JH, et al. PLoS Genet, 2012. PMID 22876197, Free PMC Article
    2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables ubiquitin protein ligase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables ubiquitin protein ligase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within bone development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of inflammatory response ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in proteasome-mediated ubiquitin-dependent protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein K48-linked ubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in intercellular bridge IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in intercellular bridge ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase TRIM45
    Names
    tripartite motif protein 45
    tripartite motif-containing protein 45
    NP_001099923.1
    XP_038957990.1

    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_001106453.1 → NP_001099923.1  E3 ubiquitin-protein ligase TRIM45

      See identical proteins and their annotated locations for NP_001099923.1

      Status: PROVISIONAL

      Source sequence(s)
      CH474015
      UniProtKB/TrEMBL
      A6K3G8, A6K3G9, D4A7S9
      Related
      ENSRNOP00000042024.2, ENSRNOT00000043146.4
      Conserved Domains (4) summary
      smart00557
      Location:398 → 496
      IG_FLMN; Filamin-type immunoglobulin domains
      cd00021
      Location:189 → 226
      BBOX; B-Box-type zinc finger; zinc binding domain (CHC3H2); often present in combination with other motifs, like RING zinc finger, NHL motif, coiled-coil or RFP domain in functionally unrelated proteins, most likely mediating protein-protein interaction.
      pfam00630
      Location:396 → 492
      Filamin; Filamin/ABP280 repeat
      cl23765
      Location:237 → 357
      iSH2_PI3K_IA_R; Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits

    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_086020.1 Reference GRCr8

      Range
      191038355..191047826
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039102062.2 → XP_038957990.1  E3 ubiquitin-protein ligase TRIM45 isoform X1

      UniProtKB/TrEMBL
      A0A8I6A6L4, A6K3G9
      Related
      ENSRNOP00000086631.1, ENSRNOT00000102925.2
      Conserved Domains (4) summary
      smart00502
      Location:184 → 304
      BBC; B-Box C-terminal domain
      smart00557
      Location:345 → 443
      IG_FLMN; Filamin-type immunoglobulin domains
      cd19785
      Location:135 → 177
      Bbox2_TRIM45_C-X; B-box-type 2 zinc finger found in tripartite motif-containing protein 45 (TRIM45) and similar proteins
      cd19809
      Location:80 → 123
      Bbox1_TRIM45_C-X; B-box-type 1 zinc finger found in tripartite motif-containing protein 45 (TRIM45) and similar proteins

    RNA

    1. XR_010063591.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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