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

Gene ID: 365894, updated on 13-Apr-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
Ensembl: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 R-SMAD binding activity and co-SMAD binding activity. Predicted to be involved in negative regulation of BMP signaling pathway; protein ubiquitination; and regulation of transforming growth factor beta receptor signaling pathway. Predicted to be located in nucleus. Orthologous to human TRIM33 (tripartite motif containing 33). [provided by Alliance of Genome Resources, Apr 2022]
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
part_of 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

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
    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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