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    Ubr3 ubiquitin protein ligase E3 component n-recognin 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 311115, updated on 30-Mar-2024

    Summary

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    Official Symbol
    Ubr3provided by RGD
    Official Full Name
    ubiquitin protein ligase E3 component n-recognin 3provided by RGD
    Primary source
    RGD:1565257
    See related
    Ensembl:ENSRNOG00000008616 AllianceGenome:RGD:1565257
    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
    RGD1565257
    Summary
    Predicted to enable ubiquitin protein ligase activity. Predicted to be involved in cellular protein metabolic process; embryo development; and sensory perception of smell. Predicted to act upstream of or within in utero embryonic development; olfactory behavior; and suckling behavior. Predicted to be part of ubiquitin ligase complex. Predicted to be active in cytoplasm. Orthologous to human UBR3 (ubiquitin protein ligase E3 component n-recognin 3). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Muscle (RPKM 341.4), Heart (RPKM 226.8) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ubr3 in Genome Data Viewer
    Location:
    3q21-q22
    Exon count:
    41
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (75057615..75214581)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (54649803..54806779)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (56125927..56283908)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA U13 Neighboring gene methyltransferase 5, N6-adenosine Neighboring gene small RNA binding exonuclease protection factor La Neighboring gene heterogeneous nuclear ribonucleoprotein C, pseudogene 5 Neighboring gene uncharacterized LOC134486377 Neighboring gene myosin IIIB Neighboring gene uncharacterized LOC134486378

    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. Modulation of Ca(2+)-induced Ca(2+) release by ubiquitin protein ligase E3 component n-recognin UBR3 and 6 in cardiac myocytes. Ma XE, et al. Channels (Austin), 2020 Dec. PMID 32988261, Free PMC Article
    2. Cardiac Nav 1.5 is modulated by ubiquitin protein ligase E3 component n-recognin UBR3 and 6. Zhao C, et al. J Cell Mol Med, 2015 Sep. PMID 26059563, Free PMC Article
    3. Biochemical and genetic studies of UBR3, a ubiquitin ligase with a function in olfactory and other sensory systems. Tasaki T, et al. J Biol Chem, 2007 Jun 22. PMID 17462990
    4. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
    5. 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

    What's a GeneRIF?
    1. Modulation of Ca(2+)-induced Ca(2+) release by ubiquitin protein ligase E3 component n-recognin UBR3 and 6 in cardiac myocytes.
      Title: Modulation of Ca(2+)-induced Ca(2+) release by ubiquitin protein ligase E3 component n-recognin UBR3 and 6 in cardiac myocytes.
    2. UBR3/6 regulate cardiomyocyte Nav 1.5 channel protein levels via the ubiquitin-proteasome pathway.
      Title: Cardiac Nav 1.5 is modulated by ubiquitin protein ligase E3 component n-recognin UBR3 and 6.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    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
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in embryo development ending in birth or egg hatching ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within in utero embryonic development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of calcium ion transmembrane transport via high voltage-gated calcium channel IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within olfactory behavior ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of protein catabolic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in protein ubiquitination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein ubiquitination IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in sensory perception of smell ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within suckling behavior ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in ubiquitin-dependent protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in ubiquitin-dependent protein catabolic process via the N-end rule pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of ubiquitin ligase complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase UBR3
    NP_001128022.2
    XP_038960775.1
    XP_038960776.1
    XP_038960777.1
    XP_038960778.1
    XP_038960779.1

    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_001134550.3 → NP_001128022.2  E3 ubiquitin-protein ligase UBR3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000003
      UniProtKB/TrEMBL
      D4A7F0
      Conserved Domains (2) summary
      cd16483
      Location:1231 → 1369
      RING-H2_UBR3; RING finger, H2 subclass, found in ubiquitin-protein ligase E3-alpha-3 (UBR3) and similar proteins
      pfam02207
      Location:116 → 184
      zf-UBR; Putative zinc finger in N-recognin (UBR box)

    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_086021.1 Reference GRCr8

      Range
      75057615..75214581
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039104847.2 → XP_038960775.1  E3 ubiquitin-protein ligase UBR3 isoform X1

      UniProtKB/TrEMBL
      D4A7F0
      Conserved Domains (3) summary
      cd16483
      Location:1242 → 1380
      RING-H2_UBR3; RING finger, H2 subclass, found in ubiquitin-protein ligase E3-alpha-3 (UBR3) and similar proteins
      pfam02207
      Location:117 → 184
      zf-UBR; Putative zinc finger in N-recognin (UBR box)
      pfam18995
      Location:1438 → 1884
      PRT6_C; Proteolysis_6 C-terminal

    2. XM_039104849.2 → XP_038960777.1  E3 ubiquitin-protein ligase UBR3 isoform X3

      UniProtKB/TrEMBL
      D4A7F0
      Conserved Domains (3) summary
      cd16483
      Location:1242 → 1380
      RING-H2_UBR3; RING finger, H2 subclass, found in ubiquitin-protein ligase E3-alpha-3 (UBR3) and similar proteins
      pfam02207
      Location:117 → 184
      zf-UBR; Putative zinc finger in N-recognin (UBR box)
      pfam18995
      Location:1434 → 1880
      PRT6_C; Proteolysis_6 C-terminal

    3. XM_039104850.2 → XP_038960778.1  E3 ubiquitin-protein ligase UBR3 isoform X4

      UniProtKB/TrEMBL
      D4A7F0
      Conserved Domains (3) summary
      cd16483
      Location:1231 → 1369
      RING-H2_UBR3; RING finger, H2 subclass, found in ubiquitin-protein ligase E3-alpha-3 (UBR3) and similar proteins
      pfam02207
      Location:117 → 184
      zf-UBR; Putative zinc finger in N-recognin (UBR box)
      pfam18995
      Location:1423 → 1869
      PRT6_C; Proteolysis_6 C-terminal

    4. XM_039104848.2 → XP_038960776.1  E3 ubiquitin-protein ligase UBR3 isoform X2

      UniProtKB/TrEMBL
      D4A7F0
      Conserved Domains (3) summary
      cd16483
      Location:1241 → 1379
      RING-H2_UBR3; RING finger, H2 subclass, found in ubiquitin-protein ligase E3-alpha-3 (UBR3) and similar proteins
      pfam02207
      Location:117 → 184
      zf-UBR; Putative zinc finger in N-recognin (UBR box)
      pfam18995
      Location:1437 → 1883
      PRT6_C; Proteolysis_6 C-terminal

    5. XM_039104851.2 → XP_038960779.1  E3 ubiquitin-protein ligase UBR3 isoform X5

      UniProtKB/TrEMBL
      D4A7F0
      Related
      ENSRNOP00000011380.8
      Conserved Domains (3) summary
      cd16483
      Location:1230 → 1368
      RING-H2_UBR3; RING finger, H2 subclass, found in ubiquitin-protein ligase E3-alpha-3 (UBR3) and similar proteins
      pfam02207
      Location:117 → 184
      zf-UBR; Putative zinc finger in N-recognin (UBR box)
      pfam18995
      Location:1426 → 1872
      PRT6_C; Proteolysis_6 C-terminal

    RNA

    1. XR_005501856.2 RNA Sequence

    2. XR_005501857.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

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