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    Dtx4 deltex E3 ubiquitin ligase 4 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 293774, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Dtx4provided by RGD
    Official Full Name
    deltex E3 ubiquitin ligase 4provided by RGD
    Primary source
    RGD:1311767
    See related
    EnsemblRapid:ENSRNOG00000021086 AllianceGenome:RGD:1311767
    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
    LRRGT00037
    Summary
    Predicted to enable ubiquitin protein ligase activity. Predicted to be involved in several processes, including Notch signaling pathway; proteasome-mediated ubiquitin-dependent protein catabolic process; and protein K48-linked ubiquitination. Predicted to be located in cytoplasm. Predicted to be active in centrosome and nucleoplasm. Orthologous to human DTX4 (deltex E3 ubiquitin ligase 4). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Lung (RPKM 168.5), Spleen (RPKM 98.7) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Dtx4 in Genome Data Viewer
    Location:
    1q43
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (218882391..218969837, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (209457719..209545163, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (228729842..228759783, complement)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene pore forming protein-like Neighboring gene macrophage expressed 1 Neighboring gene FAM111A pseudogene Neighboring gene FAM111 trypsin like peptidase A like 1 Neighboring gene FAM111 trypsin like peptidase A

    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. 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

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables metal ion binding 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 ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in Notch signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of innate immune response ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in proteasomal protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in proteasome-mediated ubiquitin-dependent protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein K48-linked ubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein ubiquitination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in centrosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in nucleoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase DTX4
    Names
    deltex 4 homolog
    deltex 4, E3 ubiquitin ligase
    deltex homolog 4
    protein deltex-4
    NP_001041320.1
    NP_001388322.1
    NP_001388323.1
    XP_038964627.1
    XP_038964628.1
    XP_038964629.1
    XP_038964630.1

    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_001047855.1 → NP_001041320.1  E3 ubiquitin-protein ligase DTX4 isoform 3 precursor

      See identical proteins and their annotated locations for NP_001041320.1

      Status: PROVISIONAL

      Source sequence(s)
      AY383692
      UniProtKB/TrEMBL
      A0A8I6AQV0, Q6TXG2
      Related
      ENSRNOP00000028626.5, ENSRNOT00000028626.8
      Conserved Domains (2) summary
      cd09633
      Location:178 → 310
      Deltex_C; Domain found at the C-terminus of deltex-like
      cd00162
      Location:110 → 171
      RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...

    2. NM_001401393.1 → NP_001388322.1  E3 ubiquitin-protein ligase DTX4 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/TrEMBL
      A0A0G2K048
      Related
      ENSRNOP00000106232.1, ENSRNOT00000146682.1

    3. NM_001401394.1 → NP_001388323.1  E3 ubiquitin-protein ligase DTX4 isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/TrEMBL
      A6I0D7

    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_086019.1 Reference GRCr8

      Range
      218882391..218969837 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039108701.2 → XP_038964629.1  E3 ubiquitin-protein ligase DTX4 isoform X2

      UniProtKB/TrEMBL
      A6I0D7
      Conserved Domains (4) summary
      PHA03201
      Location:102 → 172
      PHA03201; uracil DNA glycosylase; Provisional
      cd16671
      Location:300 → 366
      RING-H2_DTX1_4; RING finger, H2 subclass, found in E3 ubiquitin-protein ligase deltex1 (DTX1), deltex4 (DTX4), and similar proteins
      pfam02825
      Location:1 → 38
      WWE; WWE domain
      pfam18102
      Location:369 → 503
      DTC; Deltex C-terminal domain

    2. XM_039108702.2 → XP_038964630.1  E3 ubiquitin-protein ligase DTX4 isoform X2

      UniProtKB/TrEMBL
      A6I0D7
      Conserved Domains (4) summary
      PHA03201
      Location:102 → 172
      PHA03201; uracil DNA glycosylase; Provisional
      cd16671
      Location:300 → 366
      RING-H2_DTX1_4; RING finger, H2 subclass, found in E3 ubiquitin-protein ligase deltex1 (DTX1), deltex4 (DTX4), and similar proteins
      pfam02825
      Location:1 → 38
      WWE; WWE domain
      pfam18102
      Location:369 → 503
      DTC; Deltex C-terminal domain

    3. XM_039108699.2 → XP_038964627.1  E3 ubiquitin-protein ligase DTX4 isoform X1

      Conserved Domains (4) summary
      PHA03201
      Location:143 → 213
      PHA03201; uracil DNA glycosylase; Provisional
      cd16671
      Location:341 → 407
      RING-H2_DTX1_4; RING finger, H2 subclass, found in E3 ubiquitin-protein ligase deltex1 (DTX1), deltex4 (DTX4), and similar proteins
      pfam02825
      Location:28 → 79
      WWE; WWE domain
      pfam18102
      Location:410 → 544
      DTC; Deltex C-terminal domain

    4. XM_039108700.2 → XP_038964628.1  E3 ubiquitin-protein ligase DTX4 isoform X1

      Conserved Domains (4) summary
      PHA03201
      Location:143 → 213
      PHA03201; uracil DNA glycosylase; Provisional
      cd16671
      Location:341 → 407
      RING-H2_DTX1_4; RING finger, H2 subclass, found in E3 ubiquitin-protein ligase deltex1 (DTX1), deltex4 (DTX4), and similar proteins
      pfam02825
      Location:28 → 79
      WWE; WWE domain
      pfam18102
      Location:410 → 544
      DTC; Deltex C-terminal domain
    Nucleotide Protein Strain
    Heading Accession and Version

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