Aliases for DEPDC1 Gene

Aliases for DEPDC1 Gene

  • DEP Domain Containing 1 2 3 5
  • DEPDC1A 2 3 4
  • DEP Domain-Containing Protein 1A 3 4
  • DEP.8 2 3
  • SDP35 2 3
  • Cell Cycle Control Protein SDP35 3
  • DEPDC1-V2 3
  • FLJ20354 2
  • DEPDC1 5

External Ids for DEPDC1 Gene

Previous GeneCards Identifiers for DEPDC1 Gene

  • GC01M068310
  • GC01M068652
  • GC01M068713
  • GC01M068939
  • GC01M067049

Summaries for DEPDC1 Gene

GeneCards Summary for DEPDC1 Gene

DEPDC1 (DEP Domain Containing 1) is a Protein Coding gene. Diseases associated with DEPDC1 include Bladder Cancer. Gene Ontology (GO) annotations related to this gene include GTPase activator activity. An important paralog of this gene is DEPDC1B.

UniProtKB/Swiss-Prot Summary for DEPDC1 Gene

  • May be involved in transcriptional regulation as a transcriptional corepressor. The DEPDC1A-ZNF224 complex may play a critical role in bladder carcinogenesis by repressing the transcription of the A20 gene, leading to transport of NF-KB protein into the nucleus, resulting in suppression of apoptosis of bladder cancer cells.

Additional gene information for DEPDC1 Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for DEPDC1 Gene

Genomics for DEPDC1 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for DEPDC1 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
GH01J068495 Promoter/Enhancer 2 EPDnew Ensembl ENCODE CraniofacialAtlas 600.7 +0.6 605 2.8 SP1 CREB1 PRDM10 TFE3 ZNF692 POLR2A BACH1 LARP7 ZNF143 PHF21A DEPDC1 DEPDC1-AS1 lnc-RPE65-1 RPE65
GH01J068144 Enhancer 0.8 Ensembl ENCODE 5.1 +351.7 351727 3 GABPA SP1 CTBP1 FOXA2 ATF3 YY1 ZBTB33 JUND RAD21 HNF4A MIR1262 RPE65 GNG12 GNG12-AS1 CTBP2P8 DEPDC1 MN308744 lnc-DIRAS3-1 WLS DIRAS3
GH01J068453 Enhancer 0.5 Ensembl ENCODE 0.3 +43.7 43720 0.6 FOS JUND RPE65 ENSG00000233589 DEPDC1
GH01J068479 Enhancer 0.3 FANTOM5 0.4 +17.3 17270 0.3 PRDM1 ENSG00000233589 lnc-RPE65-1 DEPDC1 RPE65
GH01J068476 Enhancer 0.3 Ensembl 0.4 +20.3 20320 1 JUN ENSG00000233589 lnc-RPE65-1 DEPDC1 RPE65
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around DEPDC1 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for DEPDC1

Top Transcription factor binding sites by QIAGEN in the DEPDC1 gene promoter:
  • AML1a
  • ATF-2
  • FOXD3
  • HNF-3beta
  • HSF1 (long)
  • HSF1short
  • POU2F1
  • POU2F1a
  • SRF
  • SRF (504 AA)

Genomic Locations for DEPDC1 Gene

Genomic Locations for DEPDC1 Gene
chr1:68,474,152-68,497,221
(GRCh38/hg38)
Size:
23,070 bases
Orientation:
Minus strand
chr1:68,939,835-68,962,904
(GRCh37/hg19)
Size:
23,070 bases
Orientation:
Minus strand

Genomic View for DEPDC1 Gene

Genes around DEPDC1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
DEPDC1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for DEPDC1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for DEPDC1 Gene

Proteins for DEPDC1 Gene

  • Protein details for DEPDC1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q5TB30-DEP1A_HUMAN
    Recommended name:
    DEP domain-containing protein 1A
    Protein Accession:
    Q5TB30
    Secondary Accessions:
    • A8QXE0
    • A8QXE1
    • Q05DU3
    • Q5TB28
    • Q9H9I3
    • Q9NX21
    • Q9NXZ0

    Protein attributes for DEPDC1 Gene

    Size:
    811 amino acids
    Molecular mass:
    92960 Da
    Quaternary structure:
    • Isoform 2 and isoform 5 can form homodimers and heterodimers. Interacts with ZNF224.
    SequenceCaution:
    • Sequence=AAH03511.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence.; Evidence={ECO:0000305}; Sequence=BAA91201.1; Type=Erroneous initiation; Note=Truncated N-terminus.; Evidence={ECO:0000305}; Sequence=BAB14246.1; Type=Erroneous initiation; Note=Truncated N-terminus.; Evidence={ECO:0000305}; Sequence=BAB14246.1; Type=Miscellaneous discrepancy; Note=Probable cloning artifact.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for DEPDC1 Gene

    Alternative splice isoforms for DEPDC1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for DEPDC1 Gene

Post-translational modifications for DEPDC1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for DEPDC1 Gene

No data available for DME Specific Peptides for DEPDC1 Gene

Domains & Families for DEPDC1 Gene

Gene Families for DEPDC1 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for DEPDC1 Gene

InterPro:
Blocks:
  • RhoGAP domain
ProtoNet:

Suggested Antigen Peptide Sequences for DEPDC1 Gene

GenScript: Design optimal peptide antigens:
  • DEP domain-containing protein 1A (DEP1A_HUMAN)
  • cDNA FLJ20354 fis, clone HEP15013 (Q9NXA5_HUMAN)
genes like me logo Genes that share domains with DEPDC1: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for DEPDC1 Gene

Function for DEPDC1 Gene

Molecular function for DEPDC1 Gene

UniProtKB/Swiss-Prot Function:
May be involved in transcriptional regulation as a transcriptional corepressor. The DEPDC1A-ZNF224 complex may play a critical role in bladder carcinogenesis by repressing the transcription of the A20 gene, leading to transport of NF-KB protein into the nucleus, resulting in suppression of apoptosis of bladder cancer cells.

Phenotypes From GWAS Catalog for DEPDC1 Gene

Gene Ontology (GO) - Molecular Function for DEPDC1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005096 GTPase activator activity IEA --
GO:0005515 protein binding IPI 20587513
genes like me logo Genes that share ontologies with DEPDC1: view
genes like me logo Genes that share phenotypes with DEPDC1: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for DEPDC1

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for DEPDC1 Gene

Localization for DEPDC1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for DEPDC1 Gene

Nucleus. Note=Colocalizes with ZNF224 at the nucleus.

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 DEPDC1 gene
Compartment Confidence
nucleus 5
cytosol 2
plasma membrane 1
extracellular 1
cytoskeleton 1
mitochondrion 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleoli fibrillar center (3)
  • Nucleoplasm (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for DEPDC1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IBA,IDA 20587513
GO:0017053 transcriptional repressor complex IBA,IDA 20587513
genes like me logo Genes that share ontologies with DEPDC1: view

Pathways & Interactions for DEPDC1 Gene

PathCards logo

SuperPathways for DEPDC1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for DEPDC1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007165 signal transduction IEA --
GO:0035556 intracellular signal transduction IEA --
GO:0043547 positive regulation of GTPase activity IEA --
GO:0045892 negative regulation of transcription, DNA-templated IDA 20587513
genes like me logo Genes that share ontologies with DEPDC1: view

No data available for Pathways by source and SIGNOR curated interactions for DEPDC1 Gene

Drugs & Compounds for DEPDC1 Gene

No Compound Related Data Available

Transcripts for DEPDC1 Gene

mRNA/cDNA for DEPDC1 Gene

2 REFSEQ mRNAs :
16 NCBI additional mRNA sequence :
5 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 DEPDC1

Alternative Splicing Database (ASD) splice patterns (SP) for DEPDC1 Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4a · 4b ^ 5 ^ 6 ^ 7a · 7b ^ 8a · 8b ^ 9 ^ 10 ^ 11
SP1:
SP2: - -
SP3:
SP4: -

Relevant External Links for DEPDC1 Gene

GeneLoc Exon Structure for
DEPDC1

Expression for DEPDC1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for DEPDC1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for DEPDC1 Gene

This gene is overexpressed in Testis (x9.2) and Esophagus - Mucosa (x4.9).

Protein differential expression in normal tissues from HIPED for DEPDC1 Gene

This gene is overexpressed in Fetal Brain (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for DEPDC1 Gene



Protein tissue co-expression partners for DEPDC1 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for DEPDC1

SOURCE GeneReport for Unigene cluster for DEPDC1 Gene:

Hs.445098

mRNA Expression by UniProt/SwissProt for DEPDC1 Gene:

Q5TB30-DEP1A_HUMAN
Tissue specificity: Expressed in testis. Up-regulated in bladder cancer cells (at protein level).
genes like me logo Genes that share expression patterns with DEPDC1: view

No data available for Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for DEPDC1 Gene

Orthologs for DEPDC1 Gene

This gene was present in the common ancestor of chordates.

Orthologs for DEPDC1 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia DEPDC1 30 31
  • 99.84 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia DEPDC1 30 31
  • 91.31 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia DEPDC1 30 31
  • 90.51 (n)
OneToOne
Mouse
(Mus musculus)
Mammalia Depdc1a 30 17 31
  • 87.15 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Depdc1 30
  • 86.78 (n)
Oppossum
(Monodelphis domestica)
Mammalia DEPDC1 31
  • 79 (a)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia DEPDC1 31
  • 72 (a)
OneToOne
Chicken
(Gallus gallus)
Aves DEPDC1 30 31
  • 72.67 (n)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia DEPDC1 31
  • 59 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia depdc1 30
  • 63.42 (n)
Str.1808 30
African clawed frog
(Xenopus laevis)
Amphibia Xl.4724 30
Zebrafish
(Danio rerio)
Actinopterygii depdc1a 30 31
  • 55.71 (n)
OneToOne
sbcb41 30
Sea Squirt
(Ciona savignyi)
Ascidiacea CSA.8846 31
  • 38 (a)
ManyToMany
-- 31
  • 33 (a)
ManyToMany
Species where no ortholog for DEPDC1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • Fruit Fly (Drosophila melanogaster)
  • 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)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)

Evolution for DEPDC1 Gene

ENSEMBL:
Gene Tree for DEPDC1 (if available)
TreeFam:
Gene Tree for DEPDC1 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for DEPDC1: view image

Paralogs for DEPDC1 Gene

Paralogs for DEPDC1 Gene

(2) SIMAP similar genes for DEPDC1 Gene using alignment to 4 proteins:

  • DEP1A_HUMAN
  • E9PL61_HUMAN
  • H0YES2_HUMAN
  • Q9NXA5_HUMAN

Pseudogenes.org Pseudogenes for DEPDC1 Gene

genes like me logo Genes that share paralogs with DEPDC1: view

Variants for DEPDC1 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for DEPDC1 Gene

SNP ID Clinical significance and condition Chr 01 pos Variation AA Info Type
691479 Uncertain Significance: Hirschsprung disease 68,482,349(-) A/T MISSENSE_VARIANT,INTRON_VARIANT
718487 Benign: not provided 68,481,450(-) G/A MISSENSE_VARIANT
767677 Benign: not provided 68,476,933(-) T/C SYNONYMOUS_VARIANT
rs3790479 - p.Ile404Arg

Additional dbSNP identifiers (rs#s) for DEPDC1 Gene

Structural Variations from Database of Genomic Variants (DGV) for DEPDC1 Gene

Variant ID Type Subtype PubMed ID
nsv1010367 CNV loss 25217958
nsv945990 CNV duplication 23825009
nsv945991 CNV duplication 23825009

Variation tolerance for DEPDC1 Gene

Residual Variation Intolerance Score: 15.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.26; 62.49% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for DEPDC1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
DEPDC1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for DEPDC1 Gene

Disorders for DEPDC1 Gene

MalaCards: The human disease database

(1) MalaCards diseases for DEPDC1 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
bladder cancer
  • bladder cancer, somatic
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for DEPDC1

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
genes like me logo Genes that share disorders with DEPDC1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for DEPDC1 Gene

Publications for DEPDC1 Gene

  1. Phosphorylation of DEPDC1 at Ser110 is required to maintain centrosome organization during mitosis. (PMID: 28602627) Chen D … Senga T (Experimental cell research 2017) 2 3
  2. Cell-permeable peptide DEPDC1-ZNF224 interferes with transcriptional repression and oncogenicity in bladder cancer cells. (PMID: 20587513) Harada Y … Katagiri T (Cancer research 2010) 3 4
  3. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 41
  4. Involvement of upregulation of DEPDC1 (DEP domain containing 1) in bladder carcinogenesis. (PMID: 17452976) Kanehira M … Katagiri T (Oncogene 2007) 3 4
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4

Products for DEPDC1 Gene

  • Signalway Proteins for DEPDC1

Sources for DEPDC1 Gene