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    Ube3d ubiquitin protein ligase E3D [ Rattus norvegicus (Norway rat) ]

    Gene ID: 315863, updated on 3-Dec-2024

    Summary

    Official Symbol
    Ube3dprovided by RGD
    Official Full Name
    ubiquitin protein ligase E3Dprovided by RGD
    Primary source
    RGD:1306773
    See related
    EnsemblRapid:ENSRNOG00000010802 AllianceGenome:RGD:1306773
    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
    Also known as
    Ube2cbp; RGD1306773
    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 membrane. 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
    Biased expression in Lung (RPKM 23.7), Kidney (RPKM 21.8) and 9 other tissues See more
    Orthologs
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    Genomic context

    See Ube3d in Genome Data Viewer
    Location:
    8q31
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (96125609..96293122, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (87245503..87413104, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (93948689..94120477, complement)

    Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120094219 Neighboring gene trophoblast glycoprotein Neighboring gene uncharacterized LOC134480084 Neighboring gene stathmin-like Neighboring gene DOP1 leucine zipper like protein A Neighboring gene phosphoglucomutase 3

    Genomic regions, transcripts, and products

    Expression

    • 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

    General gene information

    Markers

    Clone Names

    • MGC124836

    Gene Ontology Provided by RGD

    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
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    is_active_in cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    located_in membrane IEA
    Inferred from Electronic Annotation
    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

    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_001034699.1
    XP_006243541.1
    XP_038937459.1
    XP_038937460.1
    XP_063121630.1

    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_001039610.2NP_001034699.1  E3 ubiquitin-protein ligase E3D isoform 1

      See identical proteins and their annotated locations for NP_001034699.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008
      UniProtKB/Swiss-Prot
      Q3T1H6
      UniProtKB/TrEMBL
      A0A0G2JZS6
      Related
      ENSRNOP00000014600.4, ENSRNOT00000014600.7
      Conserved Domains (1) summary
      pfam09814
      Location:13358
      HECT_2; HECT-like Ubiquitin-conjugating enzyme (E2)-binding
    2. NM_001433776.1NP_001420705.1  E3 ubiquitin-protein ligase E3D isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008
      UniProtKB/TrEMBL
      A0A0G2JZS6
    3. NM_001433777.1NP_001420706.1  E3 ubiquitin-protein ligase E3D isoform 3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008
    4. NM_001433778.1NP_001420707.1  E3 ubiquitin-protein ligase E3D isoform 4

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008

    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_086026.1 Reference GRCr8

      Range
      96125609..96293122 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063265560.1XP_063121630.1  E3 ubiquitin-protein ligase E3D isoform X2

    2. XM_006243479.5XP_006243541.1  E3 ubiquitin-protein ligase E3D isoform X1

      Related
      ENSRNOP00000110873.1, ENSRNOT00000134165.1
      Conserved Domains (1) summary
      pfam09814
      Location:13358
      HECT_2; HECT-like Ubiquitin-conjugating enzyme (E2)-binding
    3. XM_039081532.2XP_038937460.1  E3 ubiquitin-protein ligase E3D isoform X3

      UniProtKB/TrEMBL
      A6I1U0
      Conserved Domains (1) summary
      cl19900
      Location:73179
      HECT_2; HECT-like Ubiquitin-conjugating enzyme (E2)-binding
    4. XM_039081531.2XP_038937459.1  E3 ubiquitin-protein ligase E3D isoform X3

      UniProtKB/TrEMBL
      A6I1U0
      Conserved Domains (1) summary
      cl19900
      Location:73179
      HECT_2; HECT-like Ubiquitin-conjugating enzyme (E2)-binding

    RNA

    1. XR_005487834.2 RNA Sequence

    2. XR_005487832.2 RNA Sequence

    3. XR_005487831.2 RNA Sequence

    4. XR_001839187.3 RNA Sequence