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    Rnf20 ring finger protein 20 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 313216, updated on 17-Aug-2024

    Summary

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    Official Symbol
    Rnf20provided by RGD
    Official Full Name
    ring finger protein 20provided by RGD
    Primary source
    RGD:1311936
    See related
    EnsemblRapid:ENSRNOG00000006087 AllianceGenome:RGD:1311936
    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 several functions, including mRNA 3'-UTR binding activity; p53 binding activity; and ubiquitin protein ligase binding activity. Predicted to contribute to ubiquitin-protein transferase activity. Predicted to be involved in several processes, including positive regulation of histone H2B ubiquitination; protein ubiquitination; and regulation of RNA metabolic process. Predicted to act upstream of or within histone ubiquitination and positive regulation of histone methylation. Predicted to be located in nucleolus and nucleoplasm. Predicted to be part of HULC complex and ubiquitin ligase complex. Human ortholog(s) of this gene implicated in breast cancer. Orthologous to human RNF20 (ring finger protein 20). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Thymus (RPKM 100.1), Spleen (RPKM 95.9) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Rnf20 in Genome Data Viewer
    Location:
    5q22
    Exon count:
    21
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (68771507..68797240)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (63976063..64001754)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (64892996..64920397)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134478967 Neighboring gene post-GPI attachment to proteins GalNAc transferase 4 Neighboring gene glutamate ionotropic receptor NMDA type subunit 3A Neighboring gene eukaryotic translation initiation factor 2 subunit alpha, pseudogene 1 Neighboring gene protein phosphatase 3, regulatory subunit B, beta

    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 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. Spinal RNF20-Mediated Histone H2B Monoubiquitylation Regulates mGluR5 Transcription for Neuropathic Allodynia. Lai CY, et al. J Neurosci, 2018 Oct 24. PMID 30201771, Free PMC Article
    2. Proteomic analysis for human urinary proteins associated with arsenic intoxication. Tan LB, et al. Proteomics Clin Appl, 2008 Jul. PMID 21136906
    3. The histone H2B-specific ubiquitin ligase RNF20/hBRE1 acts as a putative tumor suppressor through selective regulation of gene expression. Shema E, et al. Genes Dev, 2008 Oct 1. PMID 18832071, Free PMC Article
    4. The human homolog of yeast BRE1 functions as a transcriptional coactivator through direct activator interactions. Kim J, et al. Mol Cell, 2005 Dec 9. PMID 16337599
    5. The ATM signaling network in development and disease. Stracker TH, et al. Front Genet, 2013. PMID 23532176, Free PMC Article

    See all (13) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. RNF20-drive H2B monoubiquitination, which facilitates phosphorylated mGluR5 transcription in the dorsal horn in the development of neuropathic allodynia.
      Title: Spinal RNF20-Mediated Histone H2B Monoubiquitylation Regulates mGluR5 Transcription for Neuropathic Allodynia.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables chromatin binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables histone H2B C-terminal K residue ubiquitin ligase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables histone binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables mRNA 3'-UTR binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables p53 binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables transcription coactivator activity 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 binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    contributes_to ubiquitin-protein transferase 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 biological_process ND
    No biological Data available
    more info
    		  
    involved_in chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within chromatin remodeling ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of cell migration ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein polyubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    NOT involved_in regulation of mitotic cell cycle 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
    part_of HULC complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of HULC complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleolus 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
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of ubiquitin ligase complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase BRE1A
    Names
    ring finger protein 20, E3 ubiquitin protein ligase
    NP_001101399.2
    XP_006238216.1

    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_001107929.2 → NP_001101399.2  E3 ubiquitin-protein ligase BRE1A

      See identical proteins and their annotated locations for NP_001101399.2

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/TrEMBL
      A0A8I6AJL7, D3ZYQ9
      Related
      ENSRNOP00000094446.1, ENSRNOT00000096159.2
      Conserved Domains (1) summary
      cd00162
      Location:919 → 962
      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 ...

    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_086023.1 Reference GRCr8

      Range
      68771507..68797240
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006238154.5 → XP_006238216.1  E3 ubiquitin-protein ligase BRE1A isoform X1

      See identical proteins and their annotated locations for XP_006238216.1

      UniProtKB/TrEMBL
      A0A8I6AJL7, D3ZYQ9
      Related
      ENSRNOP00000056614.2, ENSRNOT00000059869.5
      Conserved Domains (1) summary
      cd00162
      Location:919 → 962
      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 ...
    Nucleotide Protein Strain
    Heading Accession and Version

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