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Trim58 tripartite motif-containing 58 [ Rattus norvegicus (Norway rat) ]

Gene ID: 303167, updated on 4-Jan-2025

Summary

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Official Symbol
Trim58provided by RGD
Official Full Name
tripartite motif-containing 58provided by RGD
Primary source
RGD:1566174
See related
EnsemblRapid:ENSRNOG00000026430 AllianceGenome:RGD:1566174
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
Also known as
RGD1566174
Summary
Predicted to enable dynein heavy chain binding activity; dynein intermediate chain binding activity; and ubiquitin protein ligase activity. Predicted to be involved in several processes, including positive regulation of erythrocyte enucleation; protein ubiquitination; and regulation of nuclear migration along microtubule. Predicted to be active in cytoplasm. Orthologous to human TRIM58 (tripartite motif containing 58). [provided by Alliance of Genome Resources, Jan 2025]
Expression
Restricted expression toward (RPKM 137.0) See more
Orthologs
human mouse all
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Genomic context

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See Trim58 in Genome Data Viewer
Location:
10q22
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (43523341..43536435)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (43022933..43038984)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (44271587..44282726)

Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene LY6/PLAUR domain containing 8 like 2 Neighboring gene olfactory receptor family 11 subfamily L member 3 Neighboring gene olfactory receptor 1433 Neighboring gene olfactory receptor family 2 subfamily AK member 6E

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. Trim58 degrades Dynein and regulates terminal erythropoiesis. Thom CS, et al. Dev Cell, 2014 Sep 29. PMID 25241935, 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 dynein heavy chain binding ISO
Inferred from Sequence Orthology
more info
  
enables dynein intermediate chain binding ISO
Inferred from Sequence Orthology
more info
  
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
involved_in innate immune response IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in positive regulation of erythrocyte enucleation ISO
Inferred from Sequence Orthology
more info
  
involved_in protein autoubiquitination ISO
Inferred from Sequence Orthology
more info
  
involved_in protein polyubiquitination ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of gene expression IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of nuclear migration along microtubule ISO
Inferred from Sequence Orthology
more info
  
involved_in ubiquitin-dependent protein catabolic process ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
E3 ubiquitin-protein ligase TRIM58
Names
tripartite motif-containing protein 58
NP_001178570.1
XP_038941874.1
XP_038941875.1
XP_038941876.1

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_001191641.1 → NP_001178570.1  E3 ubiquitin-protein ligase TRIM58

    Status: PROVISIONAL

    Source sequence(s)
    JAXUCZ010000010
    UniProtKB/TrEMBL
    D3ZYF5
    Related
    ENSRNOP00000049077.2, ENSRNOT00000047700.4
    Conserved Domains (3) summary
    smart00336
    Location:90 → 131
    BBOX; B-Box-type zinc finger
    pfam15227
    Location:15 → 58
    zf-C3HC4_4; zinc finger of C3HC4-type, RING
    cd15816
    Location:291 → 458
    SPRY_PRY_TRIM58; PRY/SPRY domain in tripartite motif-binding protein 58 (TRIM58), also known as BIA2

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
    43523341..43536435
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039085946.1 → XP_038941874.1  E3 ubiquitin-protein ligase TRIM58 isoform X1

    Conserved Domains (4) summary
    cd00162
    Location:15 → 58
    RING_Ubox; RING-HC finger (C3HC4-type) [structural motif]
    pfam17380
    Location:132 → 224
    DUF5401; Family of unknown function (DUF5401)
    cd19780
    Location:91 → 134
    Bbox2_TRIM39-like; B-box-type 2 zinc finger found in tripartite motif-containing proteins TRIM39, TRIM58 and similar proteins
    cl17238
    Location:12 → 61
    RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain

  2. XM_039085947.2 → XP_038941875.1  E3 ubiquitin-protein ligase TRIM58 isoform X2

    Conserved Domains (4) summary
    cd00162
    Location:15 → 58
    RING_Ubox; RING-HC finger (C3HC4-type) [structural motif]
    pfam17380
    Location:132 → 224
    DUF5401; Family of unknown function (DUF5401)
    cd19780
    Location:91 → 134
    Bbox2_TRIM39-like; B-box-type 2 zinc finger found in tripartite motif-containing proteins TRIM39, TRIM58 and similar proteins
    cl17238
    Location:12 → 61
    RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain

  3. XM_039085948.2 → XP_038941876.1  E3 ubiquitin-protein ligase TRIM58 isoform X3

    Conserved Domains (4) summary
    cd00162
    Location:15 → 58
    RING_Ubox; RING-HC finger (C3HC4-type) [structural motif]
    pfam17380
    Location:132 → 224
    DUF5401; Family of unknown function (DUF5401)
    cd19780
    Location:91 → 134
    Bbox2_TRIM39-like; B-box-type 2 zinc finger found in tripartite motif-containing proteins TRIM39, TRIM58 and similar proteins
    cl17238
    Location:12 → 61
    RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain

RNA

  1. XR_005489809.2 RNA Sequence

  2. XR_005489810.2 RNA Sequence

  3. XR_005489808.2 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version

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