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    Rnf216 ring finger protein 216 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 304294, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Rnf216provided by RGD
    Official Full Name
    ring finger protein 216provided by RGD
    Primary source
    RGD:1565135
    See related
    EnsemblRapid:ENSRNOG00000001101 AllianceGenome:RGD:1565135
    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
    RGD1565135
    Summary
    Predicted to enable ubiquitin protein ligase activity. Involved in protein catabolic process, modulating synaptic transmission and regulation of postsynaptic neurotransmitter receptor internalization. Is active in several cellular components, including Schaffer collateral - CA1 synapse; glutamatergic synapse; and postsynaptic endocytic zone. Human ortholog(s) of this gene implicated in Gordon Holmes syndrome. Orthologous to human RNF216 (ring finger protein 216). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Thymus (RPKM 83.4), Kidney (RPKM 80.1) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Rnf216 in Genome Data Viewer
    Location:
    12p11
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 12 NC_086030.1 (16568327..16689868)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 12 NC_051347.1 (11454752..11576305)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 12 NC_005111.4 (13508429..13631689)

    Chromosome 12 - NC_086030.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102555525 Neighboring gene ribosomal protein L36 like 5 Neighboring gene uncharacterized LOC120095834 Neighboring gene uncharacterized LOC120095835 Neighboring gene fascin actin-bundling protein 1 Neighboring gene uncharacterized LOC120095836

    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. RNF216 mediates neuronal injury following experimental subarachnoid hemorrhage through the Arc/Arg3.1-AMPAR pathway. Chen T, et al. FASEB J, 2020 Nov. PMID 32918771
    2. Triad3A regulates synaptic strength by ubiquitination of Arc. Mabb AM, et al. Neuron, 2014 Jun 18. PMID 24945773, Free PMC Article
    3. The E3 ubiquitin ligase Triad3A negatively regulates the RIG-I/MAVS signaling pathway by targeting TRAF3 for degradation. Nakhaei P, et al. PLoS Pathog, 2009 Nov. PMID 19893624, Free PMC Article

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. RNF216 mediates neuronal injury following experimental subarachnoid hemorrhage through the Arc/Arg3.1-AMPAR pathway.
      Title: RNF216 mediates neuronal injury following experimental subarachnoid hemorrhage through the Arc/Arg3.1-AMPAR pathway.
    Submit: New GeneRIF Correction

    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 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 proteasome-mediated ubiquitin-dependent protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein K48-linked ubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein catabolic process, modulating synaptic transmission IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in protein catabolic process, modulating synaptic transmission IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of defense response to virus by host ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of interferon-beta production ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of postsynaptic neurotransmitter receptor internalization IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of postsynaptic neurotransmitter receptor internalization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in Schaffer collateral - CA1 synapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in glutamatergic synapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in glutamatergic synapse IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in postsynaptic endocytic zone IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in presynapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase RNF216
    NP_001100592.1
    XP_038945291.1
    XP_038945292.1
    XP_038945294.1
    XP_038945295.1
    XP_063127331.1
    XP_063127332.1

    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_001107122.1 → NP_001100592.1  E3 ubiquitin-protein ligase RNF216

      See identical proteins and their annotated locations for NP_001100592.1

      Status: PROVISIONAL

      Source sequence(s)
      CH474012
      UniProtKB/TrEMBL
      A6K1N1, D3ZU60
      Conserved Domains (2) summary
      cd16630
      Location:558 → 614
      RING-HC_RBR_RNF216; RING finger, HC subclass, found in RING finger protein 216 (RNF216) and similar proteins
      pfam01485
      Location:700 → 750
      IBR; IBR domain, a half 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_086030.1 Reference GRCr8

      Range
      16568327..16689868
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039089364.2 → XP_038945292.1  E3 ubiquitin-protein ligase RNF216 isoform X1

      UniProtKB/TrEMBL
      A6K1N1, D3ZU60
      Conserved Domains (2) summary
      cd16630
      Location:558 → 614
      RING-HC_RBR_RNF216; RING finger, HC subclass, found in RING finger protein 216 (RNF216) and similar proteins
      pfam01485
      Location:700 → 750
      IBR; IBR domain, a half RING-finger domain

    2. XM_063271261.1 → XP_063127331.1  E3 ubiquitin-protein ligase RNF216 isoform X2

    3. XM_039089363.2 → XP_038945291.1  E3 ubiquitin-protein ligase RNF216 isoform X1

      UniProtKB/TrEMBL
      A6K1N1, D3ZU60
      Conserved Domains (2) summary
      cd16630
      Location:558 → 614
      RING-HC_RBR_RNF216; RING finger, HC subclass, found in RING finger protein 216 (RNF216) and similar proteins
      pfam01485
      Location:700 → 750
      IBR; IBR domain, a half RING-finger domain

    4. XM_039089367.2 → XP_038945295.1  E3 ubiquitin-protein ligase RNF216 isoform X2

      Related
      ENSRNOP00000001458.7, ENSRNOT00000001458.9
      Conserved Domains (2) summary
      cd16630
      Location:501 → 557
      RING-HC_RBR_RNF216; RING finger, HC subclass, found in RING finger protein 216 (RNF216) and similar proteins
      pfam01485
      Location:643 → 693
      IBR; IBR domain, a half RING-finger domain

    5. XM_039089366.2 → XP_038945294.1  E3 ubiquitin-protein ligase RNF216 isoform X1

      UniProtKB/TrEMBL
      A6K1N1, D3ZU60
      Related
      ENSRNOP00000101714.1, ENSRNOT00000157770.1
      Conserved Domains (2) summary
      cd16630
      Location:558 → 614
      RING-HC_RBR_RNF216; RING finger, HC subclass, found in RING finger protein 216 (RNF216) and similar proteins
      pfam01485
      Location:700 → 750
      IBR; IBR domain, a half RING-finger domain

    6. XM_063271262.1 → XP_063127332.1  E3 ubiquitin-protein ligase RNF216 isoform X2

    Nucleotide Protein Strain
    Heading Accession and Version

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