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Trim65 tripartite motif-containing 65 [ Rattus norvegicus (Norway rat) ]

Gene ID: 303684, updated on 30-Mar-2024

Summary

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Official Symbol
Trim65provided by RGD
Official Full Name
tripartite motif-containing 65provided by RGD
Primary source
RGD:1559497
See related
Ensembl:ENSRNOG00000024145 AllianceGenome:RGD:1559497
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 metal ion binding activity. Predicted to be involved in positive regulation of autophagy. Predicted to be located in cytosol and nucleoplasm. Orthologous to human TRIM65 (tripartite motif containing 65). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Liver (RPKM 51.5), Heart (RPKM 50.4) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Trim65 in Genome Data Viewer
Location:
10q32.1
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (101847822..101863052, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (101357937..101364036, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (104674956..104681055, complement)

Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102552044 Neighboring gene WW domain binding protein 2 Neighboring gene uncharacterized LOC120093105 Neighboring gene tripartite motif-containing 47 Neighboring gene mitochondrial ribosomal protein L38 Neighboring gene Fas binding factor 1 Neighboring gene small Cajal body-specific RNA 4

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. TRIM-mediated precision autophagy targets cytoplasmic regulators of innate immunity. Kimura T, et al. J Cell Biol, 2015 Sep 14. PMID 26347139, 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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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables ubiquitin protein ligase activity 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
acts_upstream_of_or_within antiviral innate immune response ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of inflammatory response ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of autophagy IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in positive regulation of autophagy ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within positive regulation of interferon-alpha production ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within positive regulation of interferon-beta production ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of interferon-beta production ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within positive regulation of protein oligomerization ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within positive regulation of protein phosphorylation ISO
Inferred from Sequence Orthology
more info
  
involved_in protein K48-linked ubiquitination ISO
Inferred from Sequence Orthology
more info
  
involved_in protein K63-linked ubiquitination ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within type I interferon-mediated signaling pathway ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_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 nucleoplasm IEA
Inferred from Electronic Annotation
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 TRIM65
Names
tripartite motif-containing protein 65
NP_001129186.1
XP_063125308.1
XP_063125309.1

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_001135714.2 → NP_001129186.1  E3 ubiquitin-protein ligase TRIM65

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000010
    UniProtKB/TrEMBL
    D3ZY16
    Related
    ENSRNOP00000047932.4, ENSRNOT00000046026.6
    Conserved Domains (4) summary
    cd12896
    Location:319 → 500
    SPRY_PRY_TRIM65; PRY/SPRY domain in tripartite motif-containing domain 65 (TRIM65)
    cd00162
    Location:13 → 51
    RING_Ubox; RING-HC finger (C3HC4-type) [structural motif]
    cl00034
    Location:89 → 130
    Bbox_SF; B-box-type zinc finger superfamily
    cl17238
    Location:11 → 52
    RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain

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_086028.1 Reference GRCr8

    Range
    101847822..101863052 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063269238.1 → XP_063125308.1  E3 ubiquitin-protein ligase TRIM65 isoform X1

  2. XM_063269239.1 → XP_063125309.1  E3 ubiquitin-protein ligase TRIM65 isoform X2

Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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