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

Gene ID: 313216, updated on 2-Nov-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 histone H2B C-terminal K residue ubiquitin ligase 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 transcription by RNA polymerase II; protein polyubiquitination; and ubiquitin-dependent protein catabolic process. Predicted to act upstream of or within chromatin remodeling. Predicted to be located in nucleolus and nucleoplasm. Predicted to be part of HULC complex. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in breast cancer. Orthologous to human RNF20 (ring finger protein 20). [provided by Alliance of Genome Resources, Nov 2024]
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 ATM signaling network in development and disease. Stracker TH, et al. Front Genet, 2013. PMID 23532176, Free PMC Article
  5. 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

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
  
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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