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    Trim33 tripartite motif-containing 33 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 365894, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Trim33provided by RGD
    Official Full Name
    tripartite motif-containing 33provided by RGD
    Primary source
    RGD:1307339
    See related
    EnsemblRapid:ENSRNOG00000018946 AllianceGenome:RGD:1307339
    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 SMAD binding activity; promoter-specific chromatin binding activity; and ubiquitin protein ligase activity. Predicted to be involved in gene expression; protein ubiquitination; and regulation of transmembrane receptor protein serine/threonine kinase signaling pathway. Predicted to be located in chromatin and nucleus. Orthologous to human TRIM33 (tripartite motif containing 33). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 175.8), Lung (RPKM 164.7) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Trim33 in Genome Data Viewer
    Location:
    2q34
    Exon count:
    24
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (193495743..193588595)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (190812329..190892663)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (205783252..205863426)

    Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase 1 pseudogene Neighboring gene glutamic acid-rich protein-like Neighboring gene small nucleolar RNA SNORA17 Neighboring gene ribosomal biogenesis factor like 2

    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. FAM/USP9x, a deubiquitinating enzyme essential for TGFbeta signaling, controls Smad4 monoubiquitination. Dupont S, et al. Cell, 2009 Jan 9. PMID 19135894
    2. The zebrafish moonshine gene encodes transcriptional intermediary factor 1gamma, an essential regulator of hematopoiesis. Ransom DG, et al. PLoS Biol, 2004 Aug. PMID 15314655, Free PMC Article
    3. The bromodomain: from epigenome reader to druggable target. Sanchez R, et al. Biochim Biophys Acta, 2014 Aug. PMID 24686119, Free PMC Article
    4. Readout of epigenetic modifications. Patel DJ, et al. Annu Rev Biochem, 2013. PMID 23642229, Free PMC Article
    5. Analysis of oxygen/glucose-deprivation-induced changes in SUMO3 conjugation using SILAC-based quantitative proteomics. Yang W, et al. J Proteome Res, 2012 Feb 3. PMID 22082260, Free PMC Article

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables R-SMAD binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables co-SMAD binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables promoter-specific chromatin binding ISO
    Inferred from Sequence Orthology
    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
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in gene expression ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of BMP signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein ubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of transforming growth factor beta receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in chromatin IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase TRIM33
    Names
    tripartite motif protein 33
    NP_001414366.1
    XP_006233162.1
    XP_063138344.1
    XP_063138345.1
    XP_063138346.1
    XP_063138347.1
    XP_063138348.1

    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_001427437.2 → NP_001414366.1  E3 ubiquitin-protein ligase TRIM33

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000002
      UniProtKB/TrEMBL
      D3ZUK4
      Related
      ENSRNOP00000109572.1, ENSRNOT00000168775.1

    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
      193495743..193588595
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063282278.1 → XP_063138348.1  E3 ubiquitin-protein ligase TRIM33 isoform X3

    2. XM_063282274.1 → XP_063138344.1  E3 ubiquitin-protein ligase TRIM33 isoform X2

    3. XM_006233100.5 → XP_006233162.1  E3 ubiquitin-protein ligase TRIM33 isoform X1

      See identical proteins and their annotated locations for XP_006233162.1

      UniProtKB/TrEMBL
      D3ZUM5
      Related
      ENSRNOP00000025600.5, ENSRNOT00000025600.7
      Conserved Domains (6) summary
      cd05502
      Location:975 → 1083
      Bromo_tif1_like; Bromodomain; tif1_like subfamily. Tif1 (transcription intermediary factor 1) is a member of the tripartite motif (TRIM) protein family, which is characterized by a particular domain architecture. It functions by recruiting coactivators and/or ...
      smart00502
      Location:337 → 463
      BBC; B-Box C-terminal domain
      smart00336
      Location:230 → 266
      BBOX; B-Box-type zinc finger
      cd00021
      Location:292 → 330
      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.
      cd00162
      Location:142 → 206
      RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
      cd15624
      Location:906 → 951
      PHD_TIF1gamma; PHD finger found in transcriptional intermediary factor 1 gamma (TIF1gamma)

    4. XM_063282277.1 → XP_063138347.1  E3 ubiquitin-protein ligase TRIM33 isoform X3

    5. XM_063282276.1 → XP_063138346.1  E3 ubiquitin-protein ligase TRIM33 isoform X3

    6. XM_063282275.1 → XP_063138345.1  E3 ubiquitin-protein ligase TRIM33 isoform X3

    Nucleotide Protein Strain
    Heading Accession and Version

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