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    Ube3d ubiquitin protein ligase E3D [ Mus musculus (house mouse) ]

    Gene ID: 70348, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Ube3dprovided by MGI
    Official Full Name
    ubiquitin protein ligase E3Dprovided by MGI
    Primary source
    MGI:MGI:1917598
    See related
    Ensembl:ENSMUSG00000032415 AllianceGenome:MGI:1917598
    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
    Ube2cbp; 2610018I03Rik
    Summary
    Predicted to enable cyclin binding activity; ubiquitin conjugating enzyme binding activity; and ubiquitin protein ligase activity. Predicted to be involved in proteasome-mediated ubiquitin-dependent protein catabolic process and protein ubiquitination. Predicted to be located in cytoplasm. Predicted to be part of ubiquitin ligase complex. Predicted to be active in cytosol and nucleus. Orthologous to human UBE3D (ubiquitin protein ligase E3D). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in CNS E11.5 (RPKM 1.4), CNS E14 (RPKM 1.3) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Ube3d in Genome Data Viewer
    Location:
    9 E3.1; 9 46.58 cM
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (86189364..86347003, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (86307234..86464976, complement)

    Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 9330154J02 gene Neighboring gene STARR-seq mESC enhancer starr_24825 Neighboring gene trophoblast glycoprotein Neighboring gene STARR-seq mESC enhancer starr_24827 Neighboring gene STARR-seq mESC enhancer starr_24828 Neighboring gene STARR-seq mESC enhancer starr_24829 Neighboring gene VISTA enhancer mm1553 Neighboring gene ribosomal protein L5 pseudogene Neighboring gene STARR-seq mESC enhancer starr_24831 Neighboring gene STARR-seq mESC enhancer starr_24832 Neighboring gene sorting nexin 4 pseudogene Neighboring gene DOP1 leucine zipper like protein A Neighboring gene STARR-positive B cell enhancer ABC_E9332 Neighboring gene RWD domain containing 2A Neighboring gene phosphoglucomutase 3

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data 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

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    Related articles in PubMed

    1. Conditional loss of Ube3d in the retinal pigment epithelium accelerates age-associated alterations in the retina of mice. Tao T, et al. J Pathol, 2023 Dec. PMID 37772657
    2. UBE3D Regulates mRNA 3'-End Processing and Maintains Adipogenic Potential in 3T3-L1 Cells. Heller-Trulli D, et al. Mol Cell Biol, 2022 Dec 15. PMID 36519931, Free PMC Article
    3. Whole-exome sequencing implicates UBE3D in age-related macular degeneration in East Asian populations. Huang LZ, et al. Nat Commun, 2015 Apr 15. PMID 25872646
    4. UBE3D Is Involved in Blue Light-Induced Retinal Damage by Regulating Double-Strand Break Repair. Xu N, et al. Invest Ophthalmol Vis Sci, 2022 Sep 1. PMID 36094642, Free PMC Article
    5. Decreased expression levels of Ifi genes is associated to the increased resistance to spontaneous arthritis disease in mice deficiency of IL-1RA. Liu X, et al. BMC Immunol, 2016 Aug 2. PMID 27480124, Free PMC Article

    See all (16) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Conditional loss of Ube3d in the retinal pigment epithelium accelerates age-associated alterations in the retina of mice.
      Title: Conditional loss of Ube3d in the retinal pigment epithelium accelerates age-associated alterations in the retina of mice.
    2. UBE3D Regulates mRNA 3'-End Processing and Maintains Adipogenic Potential in 3T3-L1 Cells.
      Title: UBE3D Regulates mRNA 3'-End Processing and Maintains Adipogenic Potential in 3T3-L1 Cells.
    3. UBE3D Is Involved in Blue Light-Induced Retinal Damage by Regulating Double-Strand Break Repair.
      Title: UBE3D Is Involved in Blue Light-Induced Retinal Damage by Regulating Double-Strand Break Repair.
    4. Ablation of the UBE3D protein lead to an abnormal amount of pigment granules deposited in retinal pigment epithelium microvilli area and an abnormal response on electroretinography (ERG) in UBE3D(+/-) heterozygous mice.
      Title: Whole-exome sequencing implicates UBE3D in age-related macular degeneration in East Asian populations.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

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

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC144619

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables cyclin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables cyclin binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables cyclin binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ubiquitin conjugating enzyme binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables ubiquitin protein ligase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables ubiquitin protein ligase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ubiquitin protein ligase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ubiquitin-like protein conjugating enzyme binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ubiquitin-like protein conjugating enzyme binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in proteasome-mediated ubiquitin-dependent protein catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein autoubiquitination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein autoubiquitination IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein autoubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein monoubiquitination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein monoubiquitination IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein monoubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein polyubiquitination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein polyubiquitination IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein polyubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of ubiquitin ligase complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of ubiquitin ligase complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of ubiquitin ligase complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase E3D
    Names
    HECT-type E3 ubiquitin transferase E3D
    UbcH10 binding protein with a hect-like domain
    ubcH10-binding protein with a HECT-like domain
    ubiquitin-conjugating enzyme E2C binding protein
    NP_001405800.1
    NP_001405801.1
    NP_001405802.1
    NP_081670.1

    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_001418871.1 → NP_001405800.1  E3 ubiquitin-protein ligase E3D isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC137556, AC157998

    2. NM_001418872.1 → NP_001405801.1  E3 ubiquitin-protein ligase E3D isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC137556, AC157998

    3. NM_001418873.1 → NP_001405802.1  E3 ubiquitin-protein ligase E3D isoform 4

      Status: VALIDATED

      Source sequence(s)
      AC137556, AC157998

    4. NM_001433775.1 → NP_001420704.1  E3 ubiquitin-protein ligase E3D isoform 5

      Status: VALIDATED

      Source sequence(s)
      AC137556, AC157998

    5. NM_027394.3 → NP_081670.1  E3 ubiquitin-protein ligase E3D isoform 1

      See identical proteins and their annotated locations for NP_081670.1

      Status: VALIDATED

      Source sequence(s)
      AC137556, AC157998
      Consensus CDS
      CCDS40713.1
      UniProtKB/Swiss-Prot
      Q8BX13
      UniProtKB/TrEMBL
      Q9D0H0
      Related
      ENSMUSP00000034986.8, ENSMUST00000034986.14
      Conserved Domains (1) summary
      pfam09814
      Location:13 → 358
      HECT_2; HECT-like Ubiquitin-conjugating enzyme (E2)-binding

    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_000075.7 Reference GRCm39 C57BL/6J

      Range
      86189364..86347003 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8BX13.1 GenPept UniProtKB/Swiss-Prot:Q8BX13

    Gene LinkOut

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