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

Gene ID: 293774, updated on 10-Oct-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 Notch signaling pathway and protein ubiquitination. Predicted to be located in cytoplasm. Predicted to be active in nucleoplasm. Orthologous to human DTX4 (deltex E3 ubiquitin ligase 4). [provided by Alliance of Genome Resources, Apr 2022]
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 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

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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