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Aliases for DENND4B Gene

Aliases for DENND4B Gene

  • DENN Domain Containing 4B 2 3 5
  • KIAA0476 2 3 4
  • DENN/MADD Domain Containing 4B 2 3
  • DENN Domain-Containing Protein 4B 3

External Ids for DENND4B Gene

Previous HGNC Symbols for DENND4B Gene

  • KIAA0476

Previous GeneCards Identifiers for DENND4B Gene

  • GC01M150716
  • GC01M152168
  • GC01M125264

Summaries for DENND4B Gene

GeneCards Summary for DENND4B Gene

DENND4B (DENN Domain Containing 4B) is a Protein Coding gene. Among its related pathways are Vesicle-mediated transport and RAB GEFs exchange GTP for GDP on RABs. GO annotations related to this gene include Rab guanyl-nucleotide exchange factor activity. An important paralog of this gene is DENND4A.

UniProtKB/Swiss-Prot for DENND4B Gene

  • Guanine nucleotide exchange factor (GEF) which may activate RAB10. Promotes the exchange of GDP to GTP, converting inactive GDP-bound Rab proteins into their active GTP-bound form.

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for DENND4B Gene

Genomics for DENND4B Gene

Regulatory Elements for DENND4B Gene

Enhancers for DENND4B Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH01G153975 1.1 ENCODE 15.6 -30.8 -30784 3.4 HDGF CREB3L1 ARID4B SIN3A DMAP1 YY1 ZNF766 ZNF207 ZNF143 KLF13 DENND4B GATAD2B CREB3L4 ENSG00000243613 ENSG00000233222 ENSG00000272654 SLC39A1
GH01G153741 1.5 FANTOM5 ENCODE dbSUPER 11.3 +202.2 202210 5.4 HNRNPUL1 FOXA2 WRNIP1 YY1 ETS1 FOS JUNB TBX21 KAT8 NBN S100A1 DENND4B ENSG00000272030 SLC27A3 INTS3 PGLYRP3 ENSG00000243613
GH01G153919 1.1 ENCODE 12.2 +24.9 24904 5.4 PKNOX1 CREB3L1 ARNT ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF766 ZNF207 CREB3L4 DENND4B CRTC2 ENSG00000233222 ENSG00000243613 HAX1 LOC101928059 ENSG00000236327
GH01G153727 1.3 ENCODE dbSUPER 10.2 +217.2 217217 4.2 HDGF PKNOX1 FOXA2 CREB3L1 WRNIP1 ARID4B SIN3A FEZF1 DMAP1 ZNF2 S100A1 SLC27A3 ILF2 NPR1 ENSG00000243613 ENSG00000233222 CHTOP SNAPIN DENND4B C1orf189
GH01G153888 1 Ensembl ENCODE 11 +58.1 58057 1.1 GATAD2A ELF3 IRF2 RNF2 TAL1 BHLHE40 ZNF7 RARA POLR2H ZNF121 GATAD2B CREB3L4 SLC39A1 DENND4B CRTC2 JTB RAB13 RPS27 RPL34P5 SLC27A3
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around DENND4B on UCSC Golden Path with GeneCards custom track

Promoters for DENND4B Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000254552 696 1601 HDGF PKNOX1 AGO1 ARID4B SIN3A DMAP1 YBX1 ZNF2 SLC30A9 ZNF143
ENSR00000013861 1796 201 ATF1 ZBTB21 ARNT JUN GATA3 POLR2A CREM ZNF740 NCOA1 ELF1

Genomic Location for DENND4B Gene

Chromosome:
1
Start:
153,929,501 bp from pter
End:
153,946,696 bp from pter
Size:
17,196 bases
Orientation:
Minus strand

Genomic View for DENND4B Gene

Genes around DENND4B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
DENND4B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for DENND4B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for DENND4B Gene

Proteins for DENND4B Gene

  • Protein details for DENND4B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O75064-DEN4B_HUMAN
    Recommended name:
    DENN domain-containing protein 4B
    Protein Accession:
    O75064
    Secondary Accessions:
    • Q5T4K0

    Protein attributes for DENND4B Gene

    Size:
    1496 amino acids
    Molecular mass:
    163847 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAA32321.3; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=CAI14016.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305}; Sequence=EAW53268.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

neXtProt entry for DENND4B Gene

Post-translational modifications for DENND4B Gene

  • Ubiquitination at Lys610
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for DENND4B Gene

Domains & Families for DENND4B Gene

Gene Families for DENND4B Gene

Suggested Antigen Peptide Sequences for DENND4B Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with DENND4B: view

No data available for UniProtKB/Swiss-Prot for DENND4B Gene

Function for DENND4B Gene

Molecular function for DENND4B Gene

UniProtKB/Swiss-Prot Function:
Guanine nucleotide exchange factor (GEF) which may activate RAB10. Promotes the exchange of GDP to GTP, converting inactive GDP-bound Rab proteins into their active GTP-bound form.

Gene Ontology (GO) - Molecular Function for DENND4B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0017112 Rab guanyl-nucleotide exchange factor activity TAS --
genes like me logo Genes that share ontologies with DENND4B: view
genes like me logo Genes that share phenotypes with DENND4B: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for DENND4B Gene

Localization for DENND4B Gene

Subcellular locations from UniProtKB/Swiss-Prot for DENND4B Gene

Golgi apparatus.

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 DENND4B gene
Compartment Confidence
nucleus 5
golgi apparatus 5
cytosol 4
plasma membrane 3
extracellular 2
peroxisome 2

Gene Ontology (GO) - Cellular Components for DENND4B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA --
GO:0005794 Golgi apparatus IEA,IDA 20937701
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with DENND4B: view

Pathways & Interactions for DENND4B Gene

genes like me logo Genes that share pathways with DENND4B: view

Pathways by source for DENND4B Gene

Interacting Proteins for DENND4B Gene

STRING Interaction Network Preview (showing 1 interactants - click image to see details)
http://string-db.org/version_10/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000354597%0d%0a9606.ENSP00000391723%0d%0a
Selected Interacting proteins: ENSP00000354597 for DENND4B Gene via STRING

Symbol External ID(s) Details
PUM1

Gene Ontology (GO) - Biological Process for DENND4B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0032483 regulation of Rab protein signal transduction IDA 20937701
GO:0043547 positive regulation of GTPase activity IEA --
GO:0061024 membrane organization TAS --
genes like me logo Genes that share ontologies with DENND4B: view

No data available for SIGNOR curated interactions for DENND4B Gene

Transcripts for DENND4B Gene

Unigene Clusters for DENND4B Gene

DENN/MADD domain containing 4B:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for DENND4B Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4a · 4b ^ 5a · 5b ^ 6 ^ 7 ^ 8 ^ 9a · 9b ^ 10a · 10b ^ 11 ^ 12a · 12b ^ 13a · 13b ^ 14a · 14b ^ 15 ^ 16a · 16b ^
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:
SP12:
SP13:
SP14: - - -
SP15:
SP16:
SP17:
SP18:

ExUns: 17a · 17b · 17c ^ 18 ^ 19a · 19b ^ 20a · 20b ^ 21a · 21b ^ 22a · 22b · 22c · 22d ^ 23 ^ 24 ^ 25a · 25b ^ 26 ^ 27 ^ 28a · 28b · 28c · 28d
SP1: - -
SP2:
SP3:
SP4: - -
SP5: - -
SP6:
SP7:
SP8:
SP9:
SP10:
SP11: -
SP12:
SP13:
SP14:
SP15:
SP16:
SP17:
SP18:

Relevant External Links for DENND4B Gene

GeneLoc Exon Structure for
DENND4B
ECgene alternative splicing isoforms for
DENND4B

Expression for DENND4B Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for DENND4B Gene

Protein differential expression in normal tissues from HIPED for DENND4B Gene

This gene is overexpressed in Cervix (19.3), Peripheral blood mononuclear cells (14.2), CD8 Tcells (7.1), and Lymph node (6.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for DENND4B Gene



Protein tissue co-expression partners for DENND4B Gene

NURSA nuclear receptor signaling pathways regulating expression of DENND4B Gene:

DENND4B

SOURCE GeneReport for Unigene cluster for DENND4B Gene:

Hs.744878

Evidence on tissue expression from TISSUES for DENND4B Gene

  • Nervous system(4.4)
  • Liver(4.1)
genes like me logo Genes that share expression patterns with DENND4B: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for DENND4B Gene

Orthologs for DENND4B Gene

This gene was present in the common ancestor of animals.

Orthologs for DENND4B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia DENND4B 34 35
  • 99.69 (n)
cow
(Bos Taurus)
Mammalia DENND4B 34 35
  • 89.96 (n)
dog
(Canis familiaris)
Mammalia DENND4B 34 35
  • 89.06 (n)
mouse
(Mus musculus)
Mammalia Dennd4b 34 16 35
  • 88.71 (n)
rat
(Rattus norvegicus)
Mammalia Dennd4b 34
  • 88.61 (n)
oppossum
(Monodelphis domestica)
Mammalia DENND4B 35
  • 88 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 31 (a)
ManyToMany
lizard
(Anolis carolinensis)
Reptilia DENND4B 35
  • 64 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii LOC798528 34
  • 61.12 (n)
DENND4B 35
  • 56 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta Crag 35
  • 31 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea denn-4 35
  • 30 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea CSA.1014 35
  • 31 (a)
OneToMany
Species where no ortholog for DENND4B 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)
  • 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 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)

Evolution for DENND4B Gene

ENSEMBL:
Gene Tree for DENND4B (if available)
TreeFam:
Gene Tree for DENND4B (if available)

Paralogs for DENND4B Gene

(2) SIMAP similar genes for DENND4B Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with DENND4B: view

Variants for DENND4B Gene

Sequence variations from dbSNP and Humsavar for DENND4B Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs1000021969 -- 153,943,317(+) TTGGC(C/T)TTTGG intron-variant
rs1000054409 -- 153,943,670(+) GAGAC(-/TCTG)TCTAT intron-variant
rs1000595720 -- 153,948,499(+) AACAG(C/T)GGGTC nc-transcript-variant, upstream-variant-2KB, reference, missense
rs1001146282 -- 153,935,070(+) CAGAC(A/T)TCCTG intron-variant, nc-transcript-variant, downstream-variant-500B
rs1001588165 -- 153,947,776(+) GGAGG(A/G)GCTGG nc-transcript-variant, upstream-variant-2KB, utr-variant-3-prime

Variation tolerance for DENND4B Gene

Residual Variation Intolerance Score: 2.04% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 9.11; 87.73% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for DENND4B Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
DENND4B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for DENND4B Gene

Disorders for DENND4B Gene

Relevant External Links for DENND4B

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
DENND4B

No disorders were found for DENND4B Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for DENND4B Gene

Publications for DENND4B Gene

  1. Molecular cloning, structural analysis, and expression of a human IRLB, MYC promoter-binding protein: new DENN domain-containing protein family emerges. (PMID: 12906859) Semova N. … Semov A. (Genomics 2003) 2 3 4 64
  2. Characterization of cDNA clones in size-fractionated cDNA libraries from human brain. (PMID: 9455484) Seki N. … Ohara O. (DNA Res. 1997) 2 3 4 64
  3. Family-wide characterization of the DENN domain Rab GDP-GTP exchange factors. (PMID: 20937701) Yoshimura S. … Barr F.A. (J. Cell Biol. 2010) 3 4 64
  4. An enzyme assisted RP-RPLC approach for in-depth analysis of human liver phosphoproteome. (PMID: 24275569) Bian Y. … Zou H. (J. Proteomics 2014) 4 64
  5. Genome-wide association identifies genetic variants associated with lentiform nucleus volume in Na88=a881345 young and elderly subjects. (PMID: 22903471) Hibar D.P. … Thompson P.M. (Brain Imaging Behav 2013) 3 64

Products for DENND4B Gene

Sources for DENND4B Gene

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