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    Rnf220 ring finger protein 220 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 500532, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Rnf220provided by RGD
    Official Full Name
    ring finger protein 220provided by RGD
    Primary source
    RGD:1598210
    See related
    EnsemblRapid:ENSRNOG00000019236 AllianceGenome:RGD:1598210
    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 beta-catenin binding activity and ubiquitin protein ligase activity. Predicted to be involved in positive regulation of canonical Wnt signaling pathway; protein autoubiquitination; and regulation of postsynaptic neurotransmitter receptor internalization. Predicted to act upstream of or within nervous system development; positive regulation of DNA-binding transcription factor activity; and protein monoubiquitination. Predicted to be located in cytoplasm and nuclear lamina. Predicted to be part of protein-containing complex. Predicted to be active in glutamatergic synapse and postsynapse. Human ortholog(s) of this gene implicated in hypomyelinating leukodystrophy 23. Orthologous to human RNF220 (ring finger protein 220). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Brain (RPKM 134.7), Thymus (RPKM 116.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Rnf220 in Genome Data Viewer
    Location:
    5q36
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (135975739..136198017, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (130739173..130961386, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (136129457..136351752, complement)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene U5 spliceosomal RNA Neighboring gene armadillo-like helical domain containing 1 Neighboring gene transmembrane protein 53 Neighboring gene uncharacterized LOC134486974 Neighboring gene ribosomal protein S13, pseudogene 2 Neighboring gene uncharacterized LOC134486975

    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. The ubiquitin ligase RNF220 enhances canonical Wnt signaling through USP7-mediated deubiquitination of β-catenin. Ma P, et al. Mol Cell Biol, 2014 Dec 1. PMID 25266658, Free PMC Article
    2. RNF220, an E3 ubiquitin ligase that targets Sin3B for ubiquitination. Kong Q, et al. Biochem Biophys Res Commun, 2010 Mar 19. PMID 20170641
    3. 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
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables beta-catenin 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
    acts_upstream_of_or_within dorsal/ventral neural tube patterning ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within noradrenergic neuron development ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within positive regulation of DNA-binding transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of canonical Wnt signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein autoubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within protein monoubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein ubiquitination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein ubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of postsynaptic neurotransmitter receptor internalization ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in glutamatergic synapse ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear lamina ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in postsynapse ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of protein-containing complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase RNF220
    NP_001414675.1
    XP_008762298.1
    XP_008762301.1
    XP_008762306.1
    XP_017449286.1
    XP_017449287.1
    XP_017449289.1
    XP_017449290.1
    XP_063144315.1
    XP_063144316.1
    XP_063144317.1
    XP_063144318.1

    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_001427746.1 → NP_001414675.1  E3 ubiquitin-protein ligase RNF220

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005

    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
      135975739..136198017 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017593798.3 → XP_017449287.1  E3 ubiquitin-protein ligase RNF220 isoform X2

      UniProtKB/TrEMBL
      A0A8I6AQ97
      Related
      ENSRNOP00000096245.1, ENSRNOT00000111259.2

    2. XM_017593797.3 → XP_017449286.1  E3 ubiquitin-protein ligase RNF220 isoform X1

    3. XM_063288245.1 → XP_063144315.1  E3 ubiquitin-protein ligase RNF220 isoform X1

    4. XM_008764079.4 → XP_008762301.1  E3 ubiquitin-protein ligase RNF220 isoform X6

      See identical proteins and their annotated locations for XP_008762301.1

      Conserved Domains (2) summary
      pfam13923
      Location:230 → 268
      zf-C3HC4_2; Zinc finger, C3HC4 type (RING finger)
      pfam15926
      Location:15 → 158
      RNF220; E3 ubiquitin-protein ligase RNF220

    5. XM_008764076.3 → XP_008762298.1  E3 ubiquitin-protein ligase RNF220 isoform X3

      See identical proteins and their annotated locations for XP_008762298.1

      UniProtKB/TrEMBL
      D4AA66
      Related
      ENSRNOP00000026201.7, ENSRNOT00000026201.9
      Conserved Domains (2) summary
      pfam13923
      Location:256 → 294
      zf-C3HC4_2; Zinc finger, C3HC4 type (RING finger)
      pfam15926
      Location:15 → 184
      RNF220; E3 ubiquitin-protein ligase RNF220

    6. XM_063288247.1 → XP_063144317.1  E3 ubiquitin-protein ligase RNF220 isoform X5

    7. XM_008764084.4 → XP_008762306.1  E3 ubiquitin-protein ligase RNF220 isoform X8

      See identical proteins and their annotated locations for XP_008762306.1

      Conserved Domains (2) summary
      pfam13923
      Location:209 → 247
      zf-C3HC4_2; Zinc finger, C3HC4 type (RING finger)
      pfam15926
      Location:16 → 137
      RNF220; E3 ubiquitin-protein ligase RNF220

    8. XM_017593801.2 → XP_017449290.1  E3 ubiquitin-protein ligase RNF220 isoform X9

      UniProtKB/TrEMBL
      A6JZD6
      Conserved Domains (2) summary
      pfam13923
      Location:193 → 231
      zf-C3HC4_2; Zinc finger, C3HC4 type (RING finger)
      pfam15926
      Location:9 → 121
      RNF220; E3 ubiquitin-protein ligase RNF220

    9. XM_063288248.1 → XP_063144318.1  E3 ubiquitin-protein ligase RNF220 isoform X7

    10. XM_063288246.1 → XP_063144316.1  E3 ubiquitin-protein ligase RNF220 isoform X4

    11. XM_017593800.3 → XP_017449289.1  E3 ubiquitin-protein ligase RNF220 isoform X9

      UniProtKB/TrEMBL
      A6JZD6
      Conserved Domains (2) summary
      pfam13923
      Location:193 → 231
      zf-C3HC4_2; Zinc finger, C3HC4 type (RING finger)
      pfam15926
      Location:9 → 121
      RNF220; E3 ubiquitin-protein ligase RNF220
    Nucleotide Protein Strain
    Heading Accession and Version

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