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Aliases for DENND5B Gene

Aliases for DENND5B Gene

  • DENN Domain Containing 5B 2 3 5
  • DENN/MADD Domain Containing 5B 2
  • Rab6IP1-Like Protein 4

External Ids for DENND5B Gene

Previous GeneCards Identifiers for DENND5B Gene

  • GC12M031426
  • GC12M031535
  • GC12M031287
  • GC12M031384
  • GC12M031385
  • GC12M031386
  • GC12M031387

Summaries for DENND5B Gene

GeneCards Summary for DENND5B Gene

DENND5B (DENN Domain Containing 5B) is a Protein Coding gene. Among its related pathways are Vesicle-mediated transport. GO annotations related to this gene include calcium channel activity and Rab guanyl-nucleotide exchange factor activity. An important paralog of this gene is DENND5A.

UniProtKB/Swiss-Prot for DENND5B Gene

  • Guanine nucleotide exchange factor (GEF) which may activate RAB39A and/or RAB39B. 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 , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for DENND5B Gene

Genomics for DENND5B Gene

Regulatory Elements for DENND5B Gene

Enhancers for DENND5B 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
GH12F031558 0.5 Ensembl 16.5 +32.5 32499 0.8 MAFK NFE2L2 DENND5B DENND5B-AS1 RNU5F-4P ENSG00000225349
GH12F031516 1.1 Ensembl ENCODE 16.5 +70.8 70798 6.6 TBP PKNOX1 ZNF133 INSM2 SIN3A FEZF1 BRCA1 ZNF2 RAD21 ZEB1 DENND5B DENND5B-AS1 RNU5F-4P RNU6-618P ETFBKMT AK4P3 ENSG00000201228 ENSG00000225349 GC12M031506
GH12F031506 1.1 Ensembl ENCODE 15.5 +83.1 83123 3.3 HDGF PKNOX1 ARNT CREB3L1 ARID4B SIN3A ZNF2 YY1 ZNF143 ZNF207 DENND5B DENND5B-AS1 RNU5F-4P AK4P3 ENSG00000201228 GC12M031506 ENSG00000225349
GH12F031368 0.8 FANTOM5 ENCODE 15.4 +220.7 220748 3.7 PKNOX1 CREB3L1 ARID4B FEZF1 ZNF121 KLF7 ZNF263 JUNB REST TSHZ1 DENND5B DENND5B-AS1 RNU5F-4P FAM60A AK4P3 DDX11 ETFBKMT LOC101929027 GC12M031383
GH12F031524 0.8 Ensembl ENCODE 15.3 +65.7 65725 2.7 RARA RFX5 ZNF664 NR2F6 CREM HOMEZ ZNF652 TCF7L2 SOX5 ZNF680 DENND5B DENND5B-AS1 RNU5F-4P RNU6-618P ETFBKMT AK4P3 ENSG00000225349 ENSG00000201228 GC12M031506
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around DENND5B on UCSC Golden Path with GeneCards custom track

Promoters for DENND5B Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001462613 796 3400 PKNOX1 ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 FOS ZNF263 SP3

Genomic Location for DENND5B Gene

Chromosome:
12
Start:
31,382,223 bp from pter
End:
31,591,097 bp from pter
Size:
208,875 bases
Orientation:
Minus strand

Genomic View for DENND5B Gene

Genes around DENND5B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
DENND5B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for DENND5B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for DENND5B Gene

Proteins for DENND5B Gene

  • Protein details for DENND5B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q6ZUT9-DEN5B_HUMAN
    Recommended name:
    DENN domain-containing protein 5B
    Protein Accession:
    Q6ZUT9
    Secondary Accessions:
    • B5ME75
    • Q59FW8
    • Q68CZ7
    • Q6NUJ0
    • Q7Z3F9
    • Q8N973
    • Q8WUC8

    Protein attributes for DENND5B Gene

    Size:
    1274 amino acids
    Molecular mass:
    145020 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAC04583.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for DENND5B Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for DENND5B Gene

Post-translational modifications for DENND5B Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for DENND5B Gene

Domains & Families for DENND5B Gene

Gene Families for DENND5B Gene

Protein Domains for DENND5B Gene

Suggested Antigen Peptide Sequences for DENND5B Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q6ZUT9

UniProtKB/Swiss-Prot:

DEN5B_HUMAN :
  • Contains 1 dDENN domain.
  • Belongs to the RAB6IP1 family.
Domain:
  • Contains 1 dDENN domain.
  • Contains 1 DENN domain.
  • Contains 1 PLAT domain.
  • Contains 2 RUN domains.
  • Contains 1 uDENN domain.
Family:
  • Belongs to the RAB6IP1 family.
genes like me logo Genes that share domains with DENND5B: view

Function for DENND5B Gene

Molecular function for DENND5B Gene

UniProtKB/Swiss-Prot Function:
Guanine nucleotide exchange factor (GEF) which may activate RAB39A and/or RAB39B. 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 DENND5B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005262 calcium channel activity IBA --
GO:0017112 Rab guanyl-nucleotide exchange factor activity IDA 20937701
genes like me logo Genes that share ontologies with DENND5B: view
genes like me logo Genes that share phenotypes with DENND5B: view

Animal Model Products

miRNA for DENND5B Gene

miRTarBase miRNAs that target DENND5B

Inhibitory RNA Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for DENND5B Gene

Localization for DENND5B Gene

Subcellular locations from UniProtKB/Swiss-Prot for DENND5B Gene

Membrane; Single-pass membrane protein.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for DENND5B Gene COMPARTMENTS Subcellular localization image for DENND5B gene
Compartment Confidence
cytoskeleton 2
cytosol 2
nucleus 2
endoplasmic reticulum 1
mitochondrion 1
peroxisome 1
plasma membrane 1

Gene Ontology (GO) - Cellular Components for DENND5B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016020 membrane IEA,IBA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with DENND5B: view

Pathways & Interactions for DENND5B Gene

SuperPathways for DENND5B Gene

genes like me logo Genes that share pathways with DENND5B: view

Pathways by source for DENND5B Gene

2 Reactome pathways for DENND5B Gene

Interacting Proteins for DENND5B Gene

Gene Ontology (GO) - Biological Process for DENND5B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0043547 positive regulation of GTPase activity IEA --
GO:0050982 detection of mechanical stimulus IBA --
GO:0070588 calcium ion transmembrane transport IEA --
genes like me logo Genes that share ontologies with DENND5B: view

No data available for SIGNOR curated interactions for DENND5B Gene

Transcripts for DENND5B Gene

Unigene Clusters for DENND5B Gene

DENN/MADD domain containing 5B:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for DENND5B Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8a · 8b ^ 9 ^ 10 ^ 11a · 11b ^ 12a · 12b ^ 13a · 13b ^ 14 ^ 15 ^ 16 ^ 17 ^ 18 ^ 19 ^ 20 ^ 21 ^
SP1: - - -
SP2: - - -
SP3:
SP4:

ExUns: 22 ^ 23 ^ 24
SP1:
SP2:
SP3:
SP4:

Relevant External Links for DENND5B Gene

GeneLoc Exon Structure for
DENND5B
ECgene alternative splicing isoforms for
DENND5B

Expression for DENND5B Gene

mRNA expression in normal human tissues for DENND5B Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for DENND5B Gene

This gene is overexpressed in Breast (60.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for DENND5B Gene



NURSA nuclear receptor signaling pathways regulating expression of DENND5B Gene:

DENND5B

SOURCE GeneReport for Unigene cluster for DENND5B Gene:

Hs.118166
genes like me logo Genes that share expression patterns with DENND5B: view

Primer Products

No data available for mRNA differential expression in normal tissues , Protein tissue co-expression partners and mRNA Expression by UniProt/SwissProt for DENND5B Gene

Orthologs for DENND5B Gene

This gene was present in the common ancestor of animals.

Orthologs for DENND5B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia DENND5B 34 35
  • 99.84 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia DENND5B 35
  • 97 (a)
OneToOne
cow
(Bos Taurus)
Mammalia DENND5B 34 35
  • 92.75 (n)
dog
(Canis familiaris)
Mammalia DENND5B 34 35
  • 92.61 (n)
mouse
(Mus musculus)
Mammalia Dennd5b 34 16 35
  • 90.66 (n)
rat
(Rattus norvegicus)
Mammalia Dennd5b 34
  • 89.13 (n)
oppossum
(Monodelphis domestica)
Mammalia DENND5B 35
  • 88 (a)
OneToOne
chicken
(Gallus gallus)
Aves DENND5B 34 35
  • 80.51 (n)
lizard
(Anolis carolinensis)
Reptilia DENND5B 35
  • 91 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia dennd5b 34
  • 74.99 (n)
Str.10985 34
zebrafish
(Danio rerio)
Actinopterygii dennd5b 34 35
  • 68.15 (n)
wufb96b01 34
fruit fly
(Drosophila melanogaster)
Insecta CG7852 34 35
  • 52.03 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP011351 34
  • 50.78 (n)
worm
(Caenorhabditis elegans)
Secernentea lst-6 35
  • 32 (a)
OneToMany
Species where no ortholog for DENND5B was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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 squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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)

Evolution for DENND5B Gene

ENSEMBL:
Gene Tree for DENND5B (if available)
TreeFam:
Gene Tree for DENND5B (if available)

Paralogs for DENND5B Gene

(8) SIMAP similar genes for DENND5B Gene using alignment to 4 proteins:

genes like me logo Genes that share paralogs with DENND5B: view

Variants for DENND5B Gene

Sequence variations from dbSNP and Humsavar for DENND5B Gene

SNP ID Clin Chr 12 pos Sequence Context AA Info Type
rs1012154 -- 31,474,650(+) GCACA(C/T)GCAAT intron-variant
rs1038066 -- 31,475,139(-) cagtg(A/G)gttag intron-variant
rs10437784 -- 31,465,398(+) aatct(C/T)gctct intron-variant
rs1045041 -- 31,570,849(-) TGTGA(A/G)TTTCA intron-variant
rs10466819 -- 31,545,786(+) catgt(C/T)tacaa intron-variant

Structural Variations from Database of Genomic Variants (DGV) for DENND5B Gene

Variant ID Type Subtype PubMed ID
dgv2473n54 CNV loss 21841781
dgv2474n54 CNV gain+loss 21841781
dgv2475n54 CNV gain 21841781
esv2659095 CNV deletion 23128226
esv2663530 CNV deletion 23128226
esv2751046 CNV gain 17911159
esv2760267 CNV gain+loss 21179565
esv28191 CNV loss 19812545
esv3398944 CNV insertion 20981092
esv3629047 CNV loss 21293372
esv3629048 CNV gain 21293372
esv3629049 CNV loss 21293372
nsv1070522 CNV deletion 25765185
nsv52934 CNV deletion 16902084
nsv558088 CNV loss 21841781
nsv558089 CNV gain+loss 21841781
nsv558090 CNV gain+loss 21841781
nsv558092 CNV gain 21841781
nsv558099 CNV loss 21841781
nsv832364 CNV loss 17160897
nsv832365 CNV loss 17160897

Variation tolerance for DENND5B Gene

Residual Variation Intolerance Score: 8.22% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 15.12; 96.93% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for DENND5B Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
DENND5B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for DENND5B Gene

Disorders for DENND5B Gene

Relevant External Links for DENND5B

Human Genome Epidemiology (HuGE) Navigator
DENND5B
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
DENND5B

No disorders were found for DENND5B Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for DENND5B Gene

Publications for DENND5B Gene

  1. 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
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg R.L. … Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002) 2 3 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. Toward a comprehensive characterization of a human cancer cell phosphoproteome. (PMID: 23186163) Zhou H. … Mohammed S. (J. Proteome Res. 2013) 4 64

Products for DENND5B Gene

Sources for DENND5B Gene

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