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    Rnf25 ring finger protein 25 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 301515, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Rnf25provided by RGD
    Official Full Name
    ring finger protein 25provided by RGD
    Primary source
    RGD:1311557
    See related
    EnsemblRapid:ENSRNOG00000016886 AllianceGenome:RGD:1311557
    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 NF-kappaB binding activity and ubiquitin protein ligase activity. Predicted to be involved in several processes, including positive regulation of NF-kappaB transcription factor activity; protein K6-linked ubiquitination; and protein-RNA covalent cross-linking repair. Predicted to be located in cytosol. Predicted to be active in cytosolic ribosome and nucleus. Orthologous to human RNF25 (ring finger protein 25). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Testes (RPKM 113.3), Kidney (RPKM 82.3) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Rnf25 in Genome Data Viewer
    Location:
    9q33
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 9 NC_086027.1 (83619148..83626020, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 9 NC_051344.1 (76170037..76176924, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (81873293..81880172, complement)

    Chromosome 9 - NC_086027.1Genomic Context describing neighboring genes Neighboring gene phospholipase C, delta 4 Neighboring gene zinc finger protein 142 Neighboring gene BCS1 homolog, ubiquinol-cytochrome c reductase complex chaperone Neighboring gene serine/threonine kinase 36 Neighboring gene uncharacterized LOC134480595 Neighboring gene tubulin tyrosine ligase like 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. RING finger protein AO7 supports NF-kappaB-mediated transcription by interacting with the transactivation domain of the p65 subunit. Asamitsu K, et al. J Biol Chem, 2003 Jul 18. PMID 12748188
    2. EGF receptor-independent action of TGF-alpha protects Naked2 from AO7-mediated ubiquitylation and proteasomal degradation. Ding W, et al. Proc Natl Acad Sci U S A, 2008 Sep 9. PMID 18757723, Free PMC Article
    3. Gene expression analysis in response to lung toxicants: I. Sequencing and microarray development. Shultz MA, et al. Am J Respir Cell Mol Biol, 2004 Mar. PMID 12947022
    4. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
    5. 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

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables NF-kappaB binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    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 ubiquitin-protein transferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in positive regulation of NF-kappaB transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein K6-linked ubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein ubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein-RNA covalent cross-linking repair ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in rescue of stalled ribosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in rescue of stalled ribosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in ubiquitin-dependent protein catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in ubiquitin-dependent protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in cytosolic ribosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus 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 RNF25
    NP_001012004.2
    XP_006245234.1
    XP_006245235.1
    XP_038939286.1

    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_001012004.2 → NP_001012004.2  E3 ubiquitin-protein ligase RNF25

      See identical proteins and their annotated locations for NP_001012004.2

      Status: VALIDATED

      Source sequence(s)
      BM382839, CB691642, CB775437, CF114855, CK845002
      UniProtKB/TrEMBL
      A6JVV5, D3ZQ26
      Related
      ENSRNOP00000022677.7, ENSRNOT00000022677.7
      Conserved Domains (2) summary
      smart00591
      Location:19 → 127
      RWD; domain in RING finger and WD repeat containing proteins and DEXDc-like helicases subfamily related to the UBCc domain
      pfam13639
      Location:132 → 197
      zf-RING_2; Ring finger 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_086027.1 Reference GRCr8

      Range
      83619148..83626020 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006245172.5 → XP_006245234.1  E3 ubiquitin-protein ligase RNF25 isoform X1

      UniProtKB/TrEMBL
      D3ZQ26
      Conserved Domains (2) summary
      smart00591
      Location:19 → 127
      RWD; domain in RING finger and WD repeat containing proteins and DEXDc-like helicases subfamily related to the UBCc domain
      pfam13639
      Location:132 → 196
      zf-RING_2; Ring finger domain

    2. XM_039083358.2 → XP_038939286.1  E3 ubiquitin-protein ligase RNF25 isoform X3

      UniProtKB/TrEMBL
      D3ZQ26
      Conserved Domains (1) summary
      cd16470
      Location:22 → 87
      RING-H2_RNF25; RING finger, H2 subclass, found in RING finger protein 25 (RNF25) and similar proteins

    3. XM_006245173.4 → XP_006245235.1  E3 ubiquitin-protein ligase RNF25 isoform X2

      UniProtKB/TrEMBL
      D3ZQ26
      Conserved Domains (2) summary
      smart00591
      Location:6 → 94
      RWD; domain in RING finger and WD repeat containing proteins and DEXDc-like helicases subfamily related to the UBCc domain
      pfam13639
      Location:99 → 164
      zf-RING_2; Ring finger domain
    Nucleotide Protein Strain
    Heading Accession and Version

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