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    Trim42 tripartite motif-containing 42 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 301106, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Trim42provided by RGD
    Official Full Name
    tripartite motif-containing 42provided by RGD
    Primary source
    RGD:1359699
    See related
    EnsemblRapid:ENSRNOG00000048975 AllianceGenome:RGD:1359699
    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 zinc ion binding activity. Orthologous to human TRIM42 (tripartite motif containing 42). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Restricted expression toward (RPKM 39.8) See more
    Orthologs
    human mouse all
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    Genomic context

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    See Trim42 in Genome Data Viewer
    Location:
    8q31
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (106781847..106802764, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (97902349..97923268, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (105205041..105226541, complement)

    Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134480218 Neighboring gene solute carrier family 25 member 36 Neighboring gene 40S ribosomal protein S17-like Neighboring gene small nucleolar RNA SNORA17 Neighboring gene calsyntenin 2 Neighboring gene U6 spliceosomal RNA

    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. The tripartite motif family identifies cell compartments. Reymond A, et al. EMBO J, 2001 May 1. PMID 11331580, Free PMC Article
    2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    3. 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 zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    tripartite motif-containing protein 42

    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_001013955.1 → NP_001013977.1  tripartite motif-containing protein 42

      See identical proteins and their annotated locations for NP_001013977.1

      Status: PROVISIONAL

      Source sequence(s)
      BC087151
      UniProtKB/TrEMBL
      Q5PQK3
      Related
      ENSRNOP00000066659.1, ENSRNOT00000071936.4
      Conserved Domains (4) summary
      cd00063
      Location:612 → 698
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      cd16578
      Location:143 → 193
      RING-HC_TRIM42_C-III; RING finger, HC subclass, found in tripartite motif-containing protein 42 (TRIM42) and similar proteins
      cl00034
      Location:235 → 280
      Bbox_SF; B-box-type zinc finger superfamily
      cl26030
      Location:341 → 432
      Topo_C_assoc; C-terminal topoisomerase 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_086026.1 Reference GRCr8

      Range
      106781847..106802764 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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