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

Gene ID: 500532, updated on 25-Apr-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
Ensembl: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 ubiquitin protein ligase activity. Predicted to be involved in positive regulation of canonical Wnt signaling pathway and protein autoubiquitination. Predicted to act upstream of or within several processes, including nervous system development; positive regulation of DNA-binding transcription factor activity; and protein monoubiquitination. Predicted to be located in cytoplasm. Predicted to be part of protein-containing complex. Orthologous to human RNF220 (ring finger protein 220). [provided by Alliance of Genome Resources, Apr 2022]
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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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 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
  
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 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

  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, ENSRNOT00000026201.8
    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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