Aliases for DTX4 Gene

Aliases for DTX4 Gene

  • Deltex E3 Ubiquitin Ligase 4 2 3 5
  • RNF155 2 3 4
  • RING-Type E3 Ubiquitin Transferase DTX4 3 4
  • E3 Ubiquitin-Protein Ligase DTX4 3 4
  • RING Finger Protein 155 3 4
  • Protein Deltex-4 3 4
  • KIAA0937 2 4
  • Deltex4 3 4
  • Deltex Homolog 4 (Drosophila) 2
  • Deltex 4, E3 Ubiquitin Ligase 3
  • Deltex 4 Homolog 3
  • Deltex Homolog 4 3
  • EC 2.3.2.27 4
  • DTX4 5

External Ids for DTX4 Gene

Previous GeneCards Identifiers for DTX4 Gene

  • GC11P058715
  • GC11P058695
  • GC11P058939
  • GC11P055285

Summaries for DTX4 Gene

GeneCards Summary for DTX4 Gene

DTX4 (Deltex E3 Ubiquitin Ligase 4) is a Protein Coding gene. Among its related pathways are Signaling by GPCR and Cytosolic sensors of pathogen-associated DNA. Gene Ontology (GO) annotations related to this gene include ligase activity. An important paralog of this gene is DTX1.

UniProtKB/Swiss-Prot Summary for DTX4 Gene

  • Regulator of Notch signaling, a signaling pathway involved in cell-cell communications that regulates a broad spectrum of cell-fate determinations (By similarity). Functions as a ubiquitin ligase protein in vivo, mediating 'Lys48'-linked polyubiquitination and promoting degradation of TBK1, targeting to TBK1 requires interaction with NLRP4.

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for DTX4 Gene

Genomics for DTX4 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for DTX4 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH11J059171 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 613.1 +2.8 2779 6.3 CEBPG SP1 GATAD2A CTCF ATF7 TEAD4 PRDM10 ZNF629 SOX13 ZNF692 DTX4 HSALNG0084392 FAM111A OR5A2 OR4D6 OR5A1 MPEG1
GH11J059193 Enhancer 1.4 FANTOM5 Ensembl ENCODE dbSUPER 26.7 +27.7 27670 6.2 CTCF BACH1 RELA NR2C1 RAD21 TCF12 IKZF2 SP1 TRIM22 YY1 DTX4 OR4D6 OR5A2 OR5A1 OR5AN1 MPEG1 PATL1 FAM111A piR-39483 lnc-MPEG1-4
GH11J059182 Enhancer 1.1 Ensembl ENCODE dbSUPER 17.8 +17.3 17314 12.9 CTCF POLR2A ZNF143 SP1 TRIM22 YY1 SCRT2 CEBPB RUNX3 ZNF316 DTX4 MPEG1 OR5A2 OR5A1 OR4D6 lnc-MPEG1-4 HSALNG0084392
GH11J059220 Promoter/Enhancer 1.4 FANTOM5 Ensembl ENCODE dbSUPER 13.9 +51.4 51386 4.7 ZNF512 IKZF2 SP1 CTCF DPF2 CEBPB RUNX3 JUN NR2C2 FOS lnc-MPEG1-8 PATL1 MPEG1 DTX4 OR4D6 OR5A2 OR5A1 OR5AN1 FAM111A OSBP
GH11J059206 Promoter/Enhancer 1.4 Ensembl ENCODE dbSUPER 14.3 +38.9 38927 6.9 CTCF POLR2A FOXA1 ZNF143 RELA REST SMAD5 RAD21 TCF12 IKZF2 DTX4 MPEG1 piR-39483
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around DTX4 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for DTX4

Top Transcription factor binding sites by QIAGEN in the DTX4 gene promoter:
  • AREB6
  • c-Myb
  • E4BP4
  • Hlf
  • LCR-F1
  • MyoD
  • Nkx2-5
  • NRSF form 1
  • NRSF form 2
  • Pax-5

Genomic Locations for DTX4 Gene

Genomic Locations for DTX4 Gene
chr11:59,171,430-59,208,588
(GRCh38/hg38)
Size:
37,159 bases
Orientation:
Plus strand
chr11:58,938,903-58,976,060
(GRCh37/hg19)
Size:
37,158 bases
Orientation:
Plus strand

Genomic View for DTX4 Gene

Genes around DTX4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
DTX4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for DTX4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for DTX4 Gene

Proteins for DTX4 Gene

  • Protein details for DTX4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y2E6-DTX4_HUMAN
    Recommended name:
    E3 ubiquitin-protein ligase DTX4
    Protein Accession:
    Q9Y2E6
    Secondary Accessions:
    • Q0VF38

    Protein attributes for DTX4 Gene

    Size:
    619 amino acids
    Molecular mass:
    67258 Da
    Quaternary structure:
    • Interacts with NLRP4.
    SequenceCaution:
    • Sequence=BAA76781.1; Type=Erroneous initiation; Note=Extended N-terminus.; Evidence={ECO:0000305};

    Alternative splice isoforms for DTX4 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for DTX4 Gene

Post-translational modifications for DTX4 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for DTX4 Gene

No data available for DME Specific Peptides for DTX4 Gene

Domains & Families for DTX4 Gene

Gene Families for DTX4 Gene

HGNC:
Human Protein Atlas (HPA):
  • Enzymes
  • Predicted intracellular proteins

Protein Domains for DTX4 Gene

Suggested Antigen Peptide Sequences for DTX4 Gene

GenScript: Design optimal peptide antigens:
  • RING finger protein 155 (DTX4_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q9Y2E6

UniProtKB/Swiss-Prot:

DTX4_HUMAN :
  • The WWE domains are thought to mediate some protein-protein interaction, and are frequently found in ubiquitin ligases.
  • Belongs to the Deltex family.
Domain:
  • The WWE domains are thought to mediate some protein-protein interaction, and are frequently found in ubiquitin ligases.
Family:
  • Belongs to the Deltex family.
genes like me logo Genes that share domains with DTX4: view

Function for DTX4 Gene

Molecular function for DTX4 Gene

UniProtKB/Swiss-Prot Function:
Regulator of Notch signaling, a signaling pathway involved in cell-cell communications that regulates a broad spectrum of cell-fate determinations (By similarity). Functions as a ubiquitin ligase protein in vivo, mediating 'Lys48'-linked polyubiquitination and promoting degradation of TBK1, targeting to TBK1 requires interaction with NLRP4.
UniProtKB/Swiss-Prot CatalyticActivity:
Reaction=S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + N(6)-ubiquitinyl-[acceptor protein]-L-lysine.; EC=2.3.2.27; Evidence={ECO:0000250|UniProtKB:Q61010};.

Enzyme Numbers (IUBMB) for DTX4 Gene

Phenotypes From GWAS Catalog for DTX4 Gene

Gene Ontology (GO) - Molecular Function for DTX4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004842 ubiquitin-protein transferase activity TAS --
GO:0008270 zinc ion binding IEA --
GO:0016740 transferase activity IEA --
GO:0046872 metal ion binding IEA --
GO:0061630 ubiquitin protein ligase activity IBA 21873635
genes like me logo Genes that share ontologies with DTX4: view
genes like me logo Genes that share phenotypes with DTX4: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for DTX4

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for DTX4 Gene

Localization for DTX4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for DTX4 Gene

Cytoplasm.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for DTX4 gene
Compartment Confidence
cytosol 5
nucleus 4
extracellular 2
plasma membrane 1
cytoskeleton 1
mitochondrion 1
peroxisome 1
endosome 1
lysosome 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for DTX4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005654 nucleoplasm IBA 21873635
GO:0005737 cytoplasm IEA --
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with DTX4: view

Pathways & Interactions for DTX4 Gene

genes like me logo Genes that share pathways with DTX4: view

UniProtKB/Swiss-Prot Q9Y2E6-DTX4_HUMAN

  • Pathway: Protein modification; protein ubiquitination.

SIGNOR curated interactions for DTX4 Gene

Inactivates:

Gene Ontology (GO) - Biological Process for DTX4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007219 Notch signaling pathway IBA 21873635
GO:0016567 protein ubiquitination IBA,IEA --
GO:0032479 regulation of type I interferon production TAS --
genes like me logo Genes that share ontologies with DTX4: view

Drugs & Compounds for DTX4 Gene

No Compound Related Data Available

Transcripts for DTX4 Gene

mRNA/cDNA for DTX4 Gene

2 REFSEQ mRNAs :
6 NCBI additional mRNA sequence :
4 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for DTX4

Alternative Splicing Database (ASD) splice patterns (SP) for DTX4 Gene

No ASD Table

Relevant External Links for DTX4 Gene

GeneLoc Exon Structure for
DTX4

Expression for DTX4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for DTX4 Gene

mRNA differential expression in normal tissues according to GTEx for DTX4 Gene

This gene is overexpressed in Brain - Spinal cord (cervical c-1) (x4.7).

Protein differential expression in normal tissues from HIPED for DTX4 Gene

This gene is overexpressed in Pancreatic juice (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for DTX4 Gene



Protein tissue co-expression partners for DTX4 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for DTX4

SOURCE GeneReport for Unigene cluster for DTX4 Gene:

Hs.523696

Evidence on tissue expression from TISSUES for DTX4 Gene

  • Nervous system(4.6)
genes like me logo Genes that share expression patterns with DTX4: view

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for DTX4 Gene

Orthologs for DTX4 Gene

This gene was present in the common ancestor of animals.

Orthologs for DTX4 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia DTX4 30 31
  • 99.84 (n)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia DTX4 31
  • 93 (a)
OneToOne
Dog
(Canis familiaris)
Mammalia DTX4 30 31
  • 88.93 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Dtx4 30
  • 88.44 (n)
Cow
(Bos Taurus)
Mammalia DTX4 30 31
  • 87.9 (n)
OneToOne
Mouse
(Mus musculus)
Mammalia Dtx4 30 17 31
  • 87.72 (n)
OneToOne
Oppossum
(Monodelphis domestica)
Mammalia DTX4 31
  • 84 (a)
OneToOne
Chicken
(Gallus gallus)
Aves DTX4 30 31
  • 76.99 (n)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia DTX4 31
  • 84 (a)
OneToOne
Zebrafish
(Danio rerio)
Actinopterygii dtx1 30
  • 68.19 (n)
DTX4 (1 of 2) 31
  • 61 (a)
OneToMany
DTX4 (2 of 2) 31
  • 58 (a)
OneToMany
Fruit Fly
(Drosophila melanogaster)
Insecta dx 31
  • 23 (a)
OneToMany
Sea Squirt
(Ciona savignyi)
Ascidiacea CSA.7641 31
  • 29 (a)
OneToMany
Species where no ortholog for DTX4 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Tropical Clawed Frog (Silurana tropicalis)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)

Evolution for DTX4 Gene

ENSEMBL:
Gene Tree for DTX4 (if available)
TreeFam:
Gene Tree for DTX4 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for DTX4: view image

Paralogs for DTX4 Gene

Paralogs for DTX4 Gene

(3) SIMAP similar genes for DTX4 Gene using alignment to 1 proteins:

  • DTX4_HUMAN
genes like me logo Genes that share paralogs with DTX4: view

Variants for DTX4 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for DTX4 Gene

SNP ID Clinical significance and condition Chr 11 pos Variation AA Info Type
713492 Benign: not provided 59,189,229(+) C/T SYNONYMOUS_VARIANT
716947 Benign: not provided 59,182,297(+) T/G MISSENSE_VARIANT
716948 Benign: not provided 59,189,190(+) G/A SYNONYMOUS_VARIANT
787910 Benign: not provided 59,182,379(+) C/T SYNONYMOUS_VARIANT

Additional dbSNP identifiers (rs#s) for DTX4 Gene

Structural Variations from Database of Genomic Variants (DGV) for DTX4 Gene

Variant ID Type Subtype PubMed ID
esv2759830 CNV gain 17122850
nsv1050013 CNV gain 25217958

Variation tolerance for DTX4 Gene

Residual Variation Intolerance Score: 15.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.58; 30.56% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for DTX4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
DTX4

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for DTX4 Gene

Disorders for DTX4 Gene

No disorders were found for DTX4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for DTX4 Gene

Publications for DTX4 Gene

  1. NLRP4 negatively regulates type I interferon signaling by targeting the kinase TBK1 for degradation via the ubiquitin ligase DTX4. (PMID: 22388039) Cui J … Wang RF (Nature immunology 2012) 2 3 4
  2. Prediction of the coding sequences of unidentified human genes. XIII. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PMID: 10231032) Nagase T … Ohara O (DNA research : an international journal for rapid publication of reports on genes and genomes 1999) 2 3 4
  3. Normal immune system development in mice lacking the Deltex-1 RING finger domain. (PMID: 15684394) Storck S … Reynaud CA (Molecular and cellular biology 2005) 3 4
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4
  5. VIRMA mediates preferential m6A mRNA methylation in 3'UTR and near stop codon and associates with alternative polyadenylation. (PMID: 29507755) Yue Y … Liu J (Cell discovery 2018) 3

Products for DTX4 Gene

Sources for DTX4 Gene