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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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