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Aliases for DEPDC4 Gene

Aliases for DEPDC4 Gene

  • DEP Domain Containing 4 2 3 5
  • DEP Domain-Containing Protein 4 3
  • DEP.4 3

External Ids for DEPDC4 Gene

Previous GeneCards Identifiers for DEPDC4 Gene

  • GC12M099100
  • GC12M099101
  • GC12M100597
  • GC12M097707

Summaries for DEPDC4 Gene

GeneCards Summary for DEPDC4 Gene

DEPDC4 (DEP Domain Containing 4) is a Protein Coding gene. An important paralog of this gene is DEPDC7.

Additional gene information for DEPDC4 Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for DEPDC4 Gene

Genomics for DEPDC4 Gene

GeneHancer (GH) Regulatory Elements for DEPDC4 Gene

Promoters and enhancers for DEPDC4 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
GH12J100266 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 650.7 -0.8 -803 3.6 HDGF PKNOX1 SMAD1 ARNT ZFP64 ARID4B SIN3A DMAP1 ZNF2 YY1 SCYL2 DEPDC4 ACTR6 ENSG00000257325 RN7SL176P GC12M100425
GH12J100185 Enhancer 0.5 Ensembl 10.8 +81.6 81571 0.8 POLR2A RCOR1 EBF1 CHD2 SPI1 UHRF1BP1L SCYL2 DEPDC4 MIR1827 PIR35895 ENSG00000257489
GH12J100271 Promoter 0.5 EPDnew 0.7 -4.0 -3972 0.1 SCYL2 ACTR6 DEPDC4 GC12M100425
GH12J100233 Enhancer 1.1 FANTOM5 Ensembl ENCODE 0.3 +32.7 32654 1.1 CTCF PKNOX1 ESRRA EBF1 RAD21 RFX5 CTBP1 ZNF143 SMC3 FOS ACTR6 ANKS1B GC12P100217 GC12M100428 DEPDC4
GH12J100252 Enhancer 0.6 ENCODE 0.4 +15.0 15024 0.2 FOXA2 NFIA YY1 SP1 JUND PRDM6 HNF1A HNF4A MAFK GC12M100428 SLC17A8 DEPDC4 GC12P100217
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around DEPDC4 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the DEPDC4 gene promoter:

Genomic Locations for DEPDC4 Gene

Genomic Locations for DEPDC4 Gene
chr12:100,203,669-100,267,172
(GRCh38/hg38)
Size:
63,504 bases
Orientation:
Minus strand
chr12:100,597,447-100,660,857
(GRCh37/hg19)

Genomic View for DEPDC4 Gene

Genes around DEPDC4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
DEPDC4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for DEPDC4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for DEPDC4 Gene

Proteins for DEPDC4 Gene

  • Protein details for DEPDC4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8N2C3-DEPD4_HUMAN
    Recommended name:
    DEP domain-containing protein 4
    Protein Accession:
    Q8N2C3
    Secondary Accessions:
    • Q496C8
    • Q96BW0

    Protein attributes for DEPDC4 Gene

    Size:
    294 amino acids
    Molecular mass:
    33694 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for DEPDC4 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for DEPDC4 Gene

Post-translational modifications for DEPDC4 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for DEPDC4 Gene

Domains & Families for DEPDC4 Gene

Gene Families for DEPDC4 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for DEPDC4 Gene

Suggested Antigen Peptide Sequences for DEPDC4 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with DEPDC4: view

No data available for UniProtKB/Swiss-Prot for DEPDC4 Gene

Function for DEPDC4 Gene

genes like me logo Genes that share phenotypes with DEPDC4: view

Animal Model Products

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for DEPDC4 Gene

Localization for DEPDC4 Gene

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 DEPDC4 gene
Compartment Confidence
cytoskeleton 3
nucleus 2
cytosol 2
extracellular 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for DEPDC4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005622 intracellular IEA --
genes like me logo Genes that share ontologies with DEPDC4: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for DEPDC4 Gene

Pathways & Interactions for DEPDC4 Gene

SuperPathways for DEPDC4 Gene

No Data Available

Interacting Proteins for DEPDC4 Gene

STRING Interaction Network Preview (showing 1 interactants - click image to see details)
http://version10.5.string-db.org/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000367490%0d%0a9606.ENSP00000368401%0d%0a
Selected Interacting proteins: ENSP00000367490 for DEPDC4 Gene via STRING

Symbol External ID(s) Details
PAX6

Gene Ontology (GO) - Biological Process for DEPDC4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007165 signal transduction IBA --
GO:0035556 intracellular signal transduction IEA --
genes like me logo Genes that share ontologies with DEPDC4: view

No data available for Pathways by source and SIGNOR curated interactions for DEPDC4 Gene

Drugs & Compounds for DEPDC4 Gene

No Compound Related Data Available

Transcripts for DEPDC4 Gene

mRNA/cDNA for DEPDC4 Gene

(10) Selected AceView cDNA sequences:
(7) Additional mRNA sequences :
(11) REFSEQ mRNAs :
(10) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for DEPDC4 Gene

DEP domain containing 4:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for DEPDC4 Gene

ExUns: 1a · 1b · 1c ^ 2a · 2b ^ 3a · 3b ^ 4 ^ 5a · 5b ^ 6 ^ 7a · 7b · 7c
SP1: - -
SP2: - - - -
SP3: - - -
SP4: - - - - -
SP5: -
SP6: - -

Relevant External Links for DEPDC4 Gene

GeneLoc Exon Structure for
DEPDC4
ECgene alternative splicing isoforms for
DEPDC4

Expression for DEPDC4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for DEPDC4 Gene

mRNA differential expression in normal tissues according to GTEx for DEPDC4 Gene

This gene is overexpressed in Testis (x5.8).

Protein differential expression in normal tissues from HIPED for DEPDC4 Gene

This gene is overexpressed in Platelet (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for DEPDC4 Gene



Protein tissue co-expression partners for DEPDC4 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of DEPDC4 Gene:

DEPDC4

SOURCE GeneReport for Unigene cluster for DEPDC4 Gene:

Hs.653118

Evidence on tissue expression from TISSUES for DEPDC4 Gene

  • Nervous system(4.1)
genes like me logo Genes that share expression patterns with DEPDC4: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for DEPDC4 Gene

Orthologs for DEPDC4 Gene

This gene was present in the common ancestor of chordates.

Orthologs for DEPDC4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia DEPDC4 34 33
  • 96.77 (n)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia DEPDC4 34
  • 31 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia DEPDC4 34
  • 25 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii DEPDC4 34
  • 24 (a)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 10 (a)
OneToMany
Species where no ortholog for DEPDC4 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya 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)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • cow (Bos Taurus)
  • dog (Canis familiaris)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • mouse (Mus musculus)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • 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 DEPDC4 Gene

ENSEMBL:
Gene Tree for DEPDC4 (if available)
TreeFam:
Gene Tree for DEPDC4 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for DEPDC4: view image

Paralogs for DEPDC4 Gene

Paralogs for DEPDC4 Gene

(1) SIMAP similar genes for DEPDC4 Gene using alignment to 6 proteins:

  • DEPD4_HUMAN
  • A4FU15_HUMAN
  • E9PGM3_HUMAN
  • H0YI71_HUMAN
  • H0YIL0_HUMAN
  • Q3ZCN8_HUMAN
genes like me logo Genes that share paralogs with DEPDC4: view

Variants for DEPDC4 Gene

Sequence variations from dbSNP and Humsavar for DEPDC4 Gene

SNP ID Clin Chr 12 pos Variation AA Info Type
rs1000044384 -- 100,253,109(-) G/C genic_downstream_transcript_variant, intron_variant
rs1000061488 -- 100,244,852(-) T/G genic_downstream_transcript_variant, intron_variant
rs1000064368 -- 100,246,674(-) T/C genic_downstream_transcript_variant, intron_variant
rs1000070133 -- 100,266,201(-) C/T intron_variant
rs1000093090 -- 100,215,528(-) T/C genic_downstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for DEPDC4 Gene

Variant ID Type Subtype PubMed ID
esv2746276 CNV deletion 23290073
nsv559964 CNV gain 21841781

Variation tolerance for DEPDC4 Gene

Residual Variation Intolerance Score: 40.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.93; 59.55% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for DEPDC4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
DEPDC4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for DEPDC4 Gene

Disorders for DEPDC4 Gene

Additional Disease Information for DEPDC4

No disorders were found for DEPDC4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for DEPDC4 Gene

Publications for DEPDC4 Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg RL … Mammalian Gene Collection Program Team (Proceedings of the National Academy of Sciences of the United States of America 2002) 2 3 58
  3. Association mapping of the high-grade myopia MYP3 locus reveals novel candidates UHRF1BP1L, PTPRR, and PPFIA2. (PMID: 23422819) Hawthorne F … Young TL (Investigative ophthalmology & visual science 2013) 3 58
  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) 4 58
  5. Shotgun sequencing of the human transcriptome with ORF expressed sequence tags. (PMID: 10737800) Dias Neto E … Simpson AJ (Proceedings of the National Academy of Sciences of the United States of America 2000) 3 58

Products for DEPDC4 Gene

Sources for DEPDC4 Gene

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