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    Rnf220 ring finger protein 220 [ Mus musculus (house mouse) ]

    Gene ID: 66743, updated on 11-Apr-2024

    Summary

    Official Symbol
    Rnf220provided by MGI
    Official Full Name
    ring finger protein 220provided by MGI
    Primary source
    MGI:MGI:1913993
    See related
    Ensembl:ENSMUSG00000028677 AllianceGenome:MGI:1913993
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    4732477A13; 4931406I20Rik; 5730503K05Rik
    Summary
    Enables ubiquitin protein ligase activity. Involved in protein autoubiquitination. Acts upstream of or within several processes, including nervous system development; positive regulation of DNA-binding transcription factor activity; and protein monoubiquitination. Located in cytoplasm. Is expressed in several structures, including central nervous system; dorsal root ganglion; genitourinary system; retina; and tooth. Orthologous to human RNF220 (ring finger protein 220). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in testis adult (RPKM 15.8), ovary adult (RPKM 14.8) and 28 other tissues See more
    Orthologs
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    Genomic context

    Location:
    4 53.44 cM; 4 D1
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (117128660..117354249, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (117271463..117497052, complement)

    Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 23287 Neighboring gene CapStarr-seq enhancer MGSCv37_chr4:116923419-116923602 Neighboring gene armadillo-like helical domain containing 1 Neighboring gene STARR-positive B cell enhancer ABC_E7982 Neighboring gene STARR-seq mESC enhancer starr_11163 Neighboring gene transmembrane protein 53 Neighboring gene predicted gene 12843 Neighboring gene predicted gene, 40231 Neighboring gene STARR-seq mESC enhancer starr_11170 Neighboring gene STARR-seq mESC enhancer starr_11172 Neighboring gene STARR-seq mESC enhancer starr_11174 Neighboring gene STARR-seq mESC enhancer starr_11177 Neighboring gene STARR-seq mESC enhancer starr_11178 Neighboring gene STARR-seq mESC enhancer starr_11179 Neighboring gene STARR-seq mESC enhancer starr_11180 Neighboring gene predicted gene 12828 Neighboring gene predicted gene 12827 Neighboring gene predicted gene, 34669 Neighboring gene STARR-positive B cell enhancer mm9_chr4:117222596-117222897 Neighboring gene STARR-seq mESC enhancer starr_11185 Neighboring gene exoribonuclease 3 Neighboring gene zinc finger (CCCH type), RNA binding motif and serine/arginine rich 2 pseudogene

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by MGI

    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 protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables transferase activity 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 IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables ubiquitin-protein transferase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within dorsal/ventral neural tube patterning IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within noradrenergic neuron development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within positive regulation of DNA-binding transcription factor activity IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within positive regulation of DNA-binding transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    involved_in positive regulation of canonical Wnt signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in protein autoubiquitination IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within protein monoubiquitination IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within protein monoubiquitination ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    involved_in protein ubiquitination IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in protein ubiquitination IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in regulation of postsynaptic neurotransmitter receptor internalization IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in regulation of postsynaptic neurotransmitter receptor internalization IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in regulation of postsynaptic neurotransmitter receptor internalization IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within regulation of transcription regulatory region DNA binding IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within regulation of transcription regulatory region DNA binding ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in glutamatergic synapse IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in glutamatergic synapse IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    is_active_in glutamatergic synapse IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    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 IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in postsynapse IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    is_active_in postsynapse IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    part_of protein-containing complex ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    E3 ubiquitin-protein ligase Rnf220
    Names
    RING-type E3 ubiquitin transferase Rnf220
    NP_001297658.1
    NP_001297659.1
    NP_001297660.1
    NP_080015.3
    XP_006503348.1
    XP_011238889.1
    XP_011238890.1
    XP_011238891.1
    XP_017175845.1
    XP_017175846.1
    XP_030109563.1
    XP_030109564.1
    XP_036020239.1
    XP_036020240.1
    XP_036020241.1
    XP_036020242.1
    XP_036020243.1
    XP_036020244.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001310729.1NP_001297658.1  E3 ubiquitin-protein ligase Rnf220 isoform 2

      See identical proteins and their annotated locations for NP_001297658.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in its 5' UTR, lacks a portion of the 5' coding region, initiates translation at a downstream start codon, and uses an alternate in-frame splice site in the central coding region, compared to variant 1. The encoded isoform (2) has a significantly shorter N-terminus, but contains an alternate internal protein segment compared to isoform 1.
      Source sequence(s)
      AI837557, BC056359, BY716092, CA463153
      Consensus CDS
      CCDS80150.1
      UniProtKB/TrEMBL
      Q9D4L6
      Related
      ENSMUSP00000092449.3, ENSMUST00000094853.9
      Conserved Domains (2) summary
      pfam15926
      Location:1229
      RNF220; E3 ubiquitin-protein ligase RNF220
      cd16563
      Location:300340
      RING-HC_RNF220; RING finger, HC subclass, found in RING finger protein 220 (RNF220) and similar proteins
    2. NM_001310730.1NP_001297659.1  E3 ubiquitin-protein ligase Rnf220 isoform 3

      See identical proteins and their annotated locations for NP_001297659.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in its 5' UTR, lacks a portion of the 5' coding region, initiates translation at an alternate start codon, and uses an alternate in-frame splice site in the central coding region, compared to variant 1. The encoded isoform (3) has a distinct and significantly shorter N-terminus, but contains an alternate internal protein segment compared to isoform 1.
      Source sequence(s)
      AI837557, AK016436, AL844169, BC056359, CJ105892
      Consensus CDS
      CCDS89815.1
      UniProtKB/Swiss-Prot
      Q6PDX6
      UniProtKB/TrEMBL
      Q9D4L6
      Related
      ENSMUSP00000152367.2, ENSMUST00000221654.2
      Conserved Domains (2) summary
      pfam13923
      Location:256294
      zf-C3HC4_2; Zinc finger, C3HC4 type (RING finger)
      pfam15926
      Location:14184
      RNF220; E3 ubiquitin-protein ligase RNF220
    3. NM_001310731.1NP_001297660.1  E3 ubiquitin-protein ligase Rnf220 isoform 4

      See identical proteins and their annotated locations for NP_001297660.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) differs in its 5' UTR, lacks a portion of the 5' coding region, initiates translation at a downstream start codon, compared to variant 1. The encoded isoform (4) has a significantly shorter N-terminus compared to isoform 1.
      Source sequence(s)
      AI837557, AK016436, AL844169, BC056359, BE953159, CJ105892
      Consensus CDS
      CCDS80149.1
      UniProtKB/Swiss-Prot
      Q6PDX6
      UniProtKB/TrEMBL
      Q9D4L6
      Conserved Domains (2) summary
      cd16563
      Location:192232
      RING-HC_RNF220; RING finger, HC subclass, found in RING finger protein 220 (RNF220) and similar proteins
      pfam15926
      Location:11121
      RNF220; E3 ubiquitin-protein ligase RNF220
    4. NM_025739.3NP_080015.3  E3 ubiquitin-protein ligase Rnf220 isoform 1

      See identical proteins and their annotated locations for NP_080015.3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AI837557, AK041785, BC056359
      Consensus CDS
      CCDS18534.1
      UniProtKB/Swiss-Prot
      A2APP0, Q3T9M4, Q3V3D7, Q6PDX6, Q8JZY5
      Related
      ENSMUSP00000030439.9, ENSMUST00000030439.15
      Conserved Domains (2) summary
      cd16563
      Location:513553
      RING-HC_RNF220; RING finger, HC subclass, found in RING finger protein 220 (RNF220) and similar proteins
      pfam15926
      Location:219442
      RNF220; E3 ubiquitin-protein ligase RNF220

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000070.7 Reference GRCm39 C57BL/6J

      Range
      117128660..117354249 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006503285.3XP_006503348.1  E3 ubiquitin-protein ligase Rnf220 isoform X1

      See identical proteins and their annotated locations for XP_006503348.1

      Conserved Domains (2) summary
      cd16563
      Location:539579
      RING-HC_RNF220; RING finger, HC subclass, found in RING finger protein 220 (RNF220) and similar proteins
      pfam15926
      Location:219468
      RNF220; E3 ubiquitin-protein ligase RNF220
    2. XM_036164349.1XP_036020242.1  E3 ubiquitin-protein ligase Rnf220 isoform X2

      UniProtKB/Swiss-Prot
      A2APP0, Q3T9M4, Q3V3D7, Q6PDX6, Q8JZY5
      Conserved Domains (2) summary
      cd16563
      Location:513553
      RING-HC_RNF220; RING finger, HC subclass, found in RING finger protein 220 (RNF220) and similar proteins
      pfam15926
      Location:219442
      RNF220; E3 ubiquitin-protein ligase RNF220
    3. XM_036164348.1XP_036020241.1  E3 ubiquitin-protein ligase Rnf220 isoform X2

      UniProtKB/Swiss-Prot
      A2APP0, Q3T9M4, Q3V3D7, Q6PDX6, Q8JZY5
      Conserved Domains (2) summary
      cd16563
      Location:513553
      RING-HC_RNF220; RING finger, HC subclass, found in RING finger protein 220 (RNF220) and similar proteins
      pfam15926
      Location:219442
      RNF220; E3 ubiquitin-protein ligase RNF220
    4. XM_036164350.1XP_036020243.1  E3 ubiquitin-protein ligase Rnf220 isoform X2

      UniProtKB/Swiss-Prot
      A2APP0, Q3T9M4, Q3V3D7, Q6PDX6, Q8JZY5
      Conserved Domains (2) summary
      cd16563
      Location:513553
      RING-HC_RNF220; RING finger, HC subclass, found in RING finger protein 220 (RNF220) and similar proteins
      pfam15926
      Location:219442
      RNF220; E3 ubiquitin-protein ligase RNF220
    5. XM_011240588.3XP_011238890.1  E3 ubiquitin-protein ligase Rnf220 isoform X1

      See identical proteins and their annotated locations for XP_011238890.1

      Conserved Domains (2) summary
      cd16563
      Location:539579
      RING-HC_RNF220; RING finger, HC subclass, found in RING finger protein 220 (RNF220) and similar proteins
      pfam15926
      Location:219468
      RNF220; E3 ubiquitin-protein ligase RNF220
    6. XM_036164347.1XP_036020240.1  E3 ubiquitin-protein ligase Rnf220 isoform X2

      UniProtKB/Swiss-Prot
      A2APP0, Q3T9M4, Q3V3D7, Q6PDX6, Q8JZY5
      Conserved Domains (2) summary
      cd16563
      Location:513553
      RING-HC_RNF220; RING finger, HC subclass, found in RING finger protein 220 (RNF220) and similar proteins
      pfam15926
      Location:219442
      RNF220; E3 ubiquitin-protein ligase RNF220
    7. XM_036164346.1XP_036020239.1  E3 ubiquitin-protein ligase Rnf220 isoform X2

      UniProtKB/Swiss-Prot
      A2APP0, Q3T9M4, Q3V3D7, Q6PDX6, Q8JZY5
      Conserved Domains (2) summary
      cd16563
      Location:513553
      RING-HC_RNF220; RING finger, HC subclass, found in RING finger protein 220 (RNF220) and similar proteins
      pfam15926
      Location:219442
      RNF220; E3 ubiquitin-protein ligase RNF220
    8. XM_011240587.4XP_011238889.1  E3 ubiquitin-protein ligase Rnf220 isoform X1

      See identical proteins and their annotated locations for XP_011238889.1

      Conserved Domains (2) summary
      cd16563
      Location:539579
      RING-HC_RNF220; RING finger, HC subclass, found in RING finger protein 220 (RNF220) and similar proteins
      pfam15926
      Location:219468
      RNF220; E3 ubiquitin-protein ligase RNF220
    9. XM_036164351.1XP_036020244.1  E3 ubiquitin-protein ligase Rnf220 isoform X3

      Conserved Domains (2) summary
      cd16563
      Location:274314
      RING-HC_RNF220; RING finger, HC subclass, found in RING finger protein 220 (RNF220) and similar proteins
      pfam15926
      Location:1203
      RNF220; E3 ubiquitin-protein ligase RNF220
    10. XM_011240589.4XP_011238891.1  E3 ubiquitin-protein ligase Rnf220 isoform X5

      See identical proteins and their annotated locations for XP_011238891.1

      UniProtKB/Swiss-Prot
      Q6PDX6
      Conserved Domains (2) summary
      cd16563
      Location:192232
      RING-HC_RNF220; RING finger, HC subclass, found in RING finger protein 220 (RNF220) and similar proteins
      pfam15926
      Location:11121
      RNF220; E3 ubiquitin-protein ligase RNF220
    11. XM_017320356.3XP_017175845.1  E3 ubiquitin-protein ligase Rnf220 isoform X4

      Conserved Domains (2) summary
      cd16563
      Location:229269
      RING-HC_RNF220; RING finger, HC subclass, found in RING finger protein 220 (RNF220) and similar proteins
      pfam15926
      Location:14158
      RNF220; E3 ubiquitin-protein ligase RNF220
    12. XM_030253704.2XP_030109564.1  E3 ubiquitin-protein ligase Rnf220 isoform X5

      Related
      ENSMUSP00000099751.3, ENSMUST00000102690.9
      Conserved Domains (2) summary
      cd16563
      Location:192232
      RING-HC_RNF220; RING finger, HC subclass, found in RING finger protein 220 (RNF220) and similar proteins
      pfam15926
      Location:11121
      RNF220; E3 ubiquitin-protein ligase RNF220
    13. XM_030253703.2XP_030109563.1  E3 ubiquitin-protein ligase Rnf220 isoform X5

      Conserved Domains (2) summary
      cd16563
      Location:192232
      RING-HC_RNF220; RING finger, HC subclass, found in RING finger protein 220 (RNF220) and similar proteins
      pfam15926
      Location:11121
      RNF220; E3 ubiquitin-protein ligase RNF220
    14. XM_017320357.3XP_017175846.1  E3 ubiquitin-protein ligase Rnf220 isoform X5

      UniProtKB/Swiss-Prot
      Q6PDX6
      Conserved Domains (2) summary
      cd16563
      Location:192232
      RING-HC_RNF220; RING finger, HC subclass, found in RING finger protein 220 (RNF220) and similar proteins
      pfam15926
      Location:11121
      RNF220; E3 ubiquitin-protein ligase RNF220

    RNA

    1. XR_004941948.1 RNA Sequence