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Aliases for DEPDC1B Gene

Aliases for DEPDC1B Gene

  • DEP Domain Containing 1B 2 3 5
  • HBV X-Transactivated Gene 8 Protein 3 4
  • HBV XAg-Transactivated Protein 8 3 4
  • Breast Cancer Cell 3 2 3
  • DEP Domain-Containing Protein 1B 3
  • HBxAg Transactivated Protein 1 3
  • BRCC3 3
  • XTP1 3
  • XTP8 4

External Ids for DEPDC1B Gene

Previous GeneCards Identifiers for DEPDC1B Gene

  • GC05M059909
  • GC05M059928
  • GC05M056850
  • GC05M059892

Summaries for DEPDC1B Gene

GeneCards Summary for DEPDC1B Gene

DEPDC1B (DEP Domain Containing 1B) is a Protein Coding gene. Among its related pathways are p75 NTR receptor-mediated signalling and Signaling by Rho GTPases. Gene Ontology (GO) annotations related to this gene include GTPase activator activity. An important paralog of this gene is DEPDC1.

Additional gene information for DEPDC1B 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 DEPDC1B Gene

Genomics for DEPDC1B Gene

GeneHancer (GH) Regulatory Elements for DEPDC1B Gene

Promoters and enhancers for DEPDC1B 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
GH05J060698 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 657.3 -0.1 -139 4 PKNOX1 FOXA2 ZFP64 ARID4B SIN3A FEZF1 DMAP1 ZNF2 ZBTB7B YY1 DEPDC1B ELOVL7 KRT8P31
GH05J060943 Promoter/Enhancer 2.3 EPDnew FANTOM5 Ensembl ENCODE 650.1 -244.8 -244838 3.2 HDGF PKNOX1 ARID4B SIN3A ZNF2 YY1 POLR2B ZNF766 ZNF548 FOS ERCC8 NDUFAF2 DEPDC1B CAB39P1 ENSG00000248199 ZSWIM6 ELOVL7 LOC105378991
GH05J060676 Enhancer 1.1 Ensembl ENCODE dbSUPER 18 +22.8 22773 1.9 CTCF PKNOX1 FOXA2 SAP130 BATF RAD21 ZNF143 SMC3 ZNF444 HOMEZ DEPDC1B PIR55567
GH05J060540 Promoter/Enhancer 2.1 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 5.3 +158.6 158559 1.7 FOXA2 SMAD1 STAT5A BMI1 BATF RAD21 IRF4 RARA ZNF143 ATF7 PDE4D ELOVL7 RPL31P8 ERCC8 DEPDC1B ENSG00000276233 PART1
GH05J060687 Enhancer 1.3 Ensembl ENCODE dbSUPER 6.5 +12.0 12037 2.1 ELF3 PKNOX1 ATF1 FOXA2 ARID4B BATF IRF4 DNMT3B ZNF766 FOS DEPDC1B ERCC8 PIR55567
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around DEPDC1B on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the DEPDC1B gene promoter:
  • Hand1
  • E47
  • p300
  • XBP-1
  • POU2F1a
  • POU2F1
  • Max1
  • c-Myc
  • Meis-1b

Genomic Locations for DEPDC1B Gene

Genomic Locations for DEPDC1B Gene
chr5:60,596,912-60,700,190
(GRCh38/hg38)
Size:
103,279 bases
Orientation:
Minus strand
chr5:59,892,739-59,996,017
(GRCh37/hg19)
Size:
103,279 bases
Orientation:
Minus strand

Genomic View for DEPDC1B Gene

Genes around DEPDC1B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
DEPDC1B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for DEPDC1B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for DEPDC1B Gene

Proteins for DEPDC1B Gene

  • Protein details for DEPDC1B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8WUY9-DEP1B_HUMAN
    Recommended name:
    DEP domain-containing protein 1B
    Protein Accession:
    Q8WUY9
    Secondary Accessions:
    • A8K3R9
    • B4DUT4
    • Q86WJ3
    • Q8IZY6
    • Q9NUN3
    • Q9NW57

    Protein attributes for DEPDC1B Gene

    Size:
    529 amino acids
    Molecular mass:
    61771 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAH10904.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=BAA91529.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for DEPDC1B Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for DEPDC1B Gene

Post-translational modifications for DEPDC1B Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for DEPDC1B Gene

No data available for DME Specific Peptides for DEPDC1B Gene

Domains & Families for DEPDC1B Gene

Gene Families for DEPDC1B Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Suggested Antigen Peptide Sequences for DEPDC1B Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with DEPDC1B: view

No data available for UniProtKB/Swiss-Prot for DEPDC1B Gene

Function for DEPDC1B Gene

Phenotypes From GWAS Catalog for DEPDC1B Gene

Gene Ontology (GO) - Molecular Function for DEPDC1B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005096 GTPase activator activity TAS --
genes like me logo Genes that share ontologies with DEPDC1B: view
genes like me logo Genes that share phenotypes with DEPDC1B: view

Animal Model Products

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for DEPDC1B Gene

Localization for DEPDC1B 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 DEPDC1B gene
Compartment Confidence
cytosol 5
nucleus 3
golgi apparatus 2
mitochondrion 1
peroxisome 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Golgi apparatus (2)
  • Nucleoplasm (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for DEPDC1B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with DEPDC1B: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for DEPDC1B Gene

Pathways & Interactions for DEPDC1B Gene

genes like me logo Genes that share pathways with DEPDC1B: view

Pathways by source for DEPDC1B Gene

3 Reactome pathways for DEPDC1B Gene

Interacting Proteins for DEPDC1B Gene

Gene Ontology (GO) - Biological Process for DEPDC1B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007165 signal transduction IEA --
GO:0016477 cell migration IMP 24971537
GO:0030177 positive regulation of Wnt signaling pathway IMP 24971537
GO:0035556 intracellular signal transduction IEA --
GO:0043547 positive regulation of GTPase activity IEA --
genes like me logo Genes that share ontologies with DEPDC1B: view

No data available for SIGNOR curated interactions for DEPDC1B Gene

Drugs & Compounds for DEPDC1B Gene

No Compound Related Data Available

Transcripts for DEPDC1B Gene

Unigene Clusters for DEPDC1B Gene

DEP domain containing 1B:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for DEPDC1B Gene

No ASD Table

Relevant External Links for DEPDC1B Gene

GeneLoc Exon Structure for
DEPDC1B
ECgene alternative splicing isoforms for
DEPDC1B

Expression for DEPDC1B Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for DEPDC1B Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for DEPDC1B Gene

This gene is overexpressed in Testis (x5.6).

Protein differential expression in normal tissues from HIPED for DEPDC1B Gene

This gene is overexpressed in Plasma (58.2) and Placenta (10.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for DEPDC1B Gene



Protein tissue co-expression partners for DEPDC1B Gene

NURSA nuclear receptor signaling pathways regulating expression of DEPDC1B Gene:

DEPDC1B

SOURCE GeneReport for Unigene cluster for DEPDC1B Gene:

Hs.482233

Evidence on tissue expression from TISSUES for DEPDC1B Gene

  • Pancreas(4.2)
genes like me logo Genes that share expression patterns with DEPDC1B: view

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for DEPDC1B Gene

Orthologs for DEPDC1B Gene

This gene was present in the common ancestor of chordates.

Orthologs for DEPDC1B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia DEPDC1B 34 33
  • 99.56 (n)
OneToOne
dog
(Canis familiaris)
Mammalia DEPDC1B 34 33
  • 92.14 (n)
OneToOne
cow
(Bos Taurus)
Mammalia DEPDC1B 34 33
  • 91.72 (n)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia -- 34
  • 89 (a)
OneToMany
-- 34
  • 88 (a)
OneToMany
rat
(Rattus norvegicus)
Mammalia Depdc1b 33
  • 87.08 (n)
mouse
(Mus musculus)
Mammalia Depdc1b 16 34 33
  • 86.45 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia DEPDC1B 34
  • 61 (a)
OneToOne
chicken
(Gallus gallus)
Aves DEPDC1B 34 33
  • 74.35 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia DEPDC1B 34
  • 75 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia depdc1b 33
  • 67.23 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.13922 33
zebrafish
(Danio rerio)
Actinopterygii depdc1b 34
  • 56 (a)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea CSA.8846 34
  • 36 (a)
ManyToMany
-- 34
  • 27 (a)
ManyToMany
Species where no ortholog for DEPDC1B was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya 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 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 DEPDC1B Gene

ENSEMBL:
Gene Tree for DEPDC1B (if available)
TreeFam:
Gene Tree for DEPDC1B (if available)
Aminode:
Evolutionary constrained regions (ECRs) for DEPDC1B: view image

Paralogs for DEPDC1B Gene

Paralogs for DEPDC1B Gene

(2) SIMAP similar genes for DEPDC1B Gene using alignment to 4 proteins:

  • DEP1B_HUMAN
  • D6RDV9_HUMAN
  • D6RIB0_HUMAN
  • F5H072_HUMAN
genes like me logo Genes that share paralogs with DEPDC1B: view

Variants for DEPDC1B Gene

Sequence variations from dbSNP and Humsavar for DEPDC1B Gene

SNP ID Clin Chr 05 pos Variation AA Info Type
rs1000096413 -- 60,640,702(-) T/A/C intron_variant
rs1000151928 -- 60,663,871(-) A/G intron_variant
rs1000193614 -- 60,666,692(-) G/T intron_variant
rs1000205606 -- 60,623,449(-) T/C genic_downstream_transcript_variant, intron_variant
rs1000224463 -- 60,616,032(-) G/A genic_downstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for DEPDC1B Gene

Variant ID Type Subtype PubMed ID
esv2658588 CNV deletion 23128226
esv2662567 CNV deletion 23128226
esv2675953 CNV deletion 23128226
esv2730238 CNV deletion 23290073
esv2730240 CNV deletion 23290073
esv2730241 CNV deletion 23290073
esv3565976 CNV deletion 23714750
esv3565977 CNV deletion 23714750
esv3565978 CNV deletion 23714750
esv3605192 CNV loss 21293372
esv3605193 CNV loss 21293372
esv3894195 CNV loss 25118596
esv5002 CNV loss 18987735
nsv1018614 CNV loss 25217958
nsv1023403 CNV gain 25217958
nsv1109701 CNV deletion 24896259
nsv1132608 CNV duplication 24896259
nsv328716 CNV deletion 16902084
nsv436477 CNV deletion 17901297
nsv4850 CNV deletion 18451855
nsv508362 CNV deletion 20534489
nsv598288 CNV loss 21841781
nsv598298 CNV loss 21841781
nsv968916 CNV duplication 23825009

Variation tolerance for DEPDC1B Gene

Residual Variation Intolerance Score: 7.13% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.30; 25.94% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for DEPDC1B Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
DEPDC1B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for DEPDC1B Gene

Disorders for DEPDC1B Gene

Additional Disease Information for DEPDC1B

No disorders were found for DEPDC1B Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for DEPDC1B Gene

Publications for DEPDC1B Gene

  1. DEPDC1B coordinates de-adhesion events and cell-cycle progression at mitosis. (PMID: 25458010) Marchesi S … Nicassio F (Developmental cell 2014) 2 3 58
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  3. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58
  4. An organelle-specific protein landscape identifies novel diseases and molecular mechanisms. (PMID: 27173435) Boldt K … UK10K Rare Diseases Group (Nature communications 2016) 3 58
  5. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin EL … Gygi SP (Cell 2015) 3 58

Products for DEPDC1B Gene

Sources for DEPDC1B Gene

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