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Aliases for DENND4A Gene

Aliases for DENND4A Gene

  • DENN Domain Containing 4A 2 3 5
  • DENN Domain-Containing Protein 4A 3 4
  • C-Myc Promoter Binding Protein 2 3
  • DENN/MADD Domain Containing 4A 2 3
  • MYCPBP 3 4
  • IRLB 3 4
  • C-Myc Promoter-Binding Protein 3

External Ids for DENND4A Gene

Previous HGNC Symbols for DENND4A Gene

  • MYCPBP

Previous GeneCards Identifiers for DENND4A Gene

  • GC15M063741
  • GC15M065952
  • GC15M042779

Summaries for DENND4A Gene

Entrez Gene Summary for DENND4A Gene

  • This gene encodes a DENN domain-containing protein that may function as a guanine nucleotide exchange factor that specifically activates ras-related protein Rab-10. This protein also contains a interferon stimulated response element-binding domain and may be involved in regulating the v-myc avian myelocytomatosis viral (MYC) oncogene. Alternate splicing results in multiple transcript variants. A pseudogene of this gene is found on chromosome 8. [provided by RefSeq, Mar 2016]

GeneCards Summary for DENND4A Gene

DENND4A (DENN Domain Containing 4A) is a Protein Coding gene. Among its related pathways are RAB GEFs exchange GTP for GDP on RABs and Vesicle-mediated transport. GO annotations related to this gene include Rab guanyl-nucleotide exchange factor activity. An important paralog of this gene is DENND4C.

UniProtKB/Swiss-Prot for DENND4A Gene

  • Probable 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. According to PubMed:8056341, it may bind to ISRE-like element (interferon-stimulated response element) of MYC P2 promoter.

Gene Wiki entry for DENND4A Gene

Additional gene information for DENND4A Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for DENND4A Gene

Genomics for DENND4A Gene

Regulatory Elements for DENND4A Gene

Enhancers for DENND4A 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
GH15H065817 1.9 FANTOM5 Ensembl ENCODE dbSUPER 30.4 -27.8 -27840 4 HDGF PKNOX1 ARNT TCF12 GATA2 ELK1 ATF7 RUNX3 NCOA1 JUNB DENND4A ZWILCH INTS14 PDCD7 SLC24A1 ENSG00000260773 TIPIN MTFMT RAB11A SNORD13E
GH15H065831 1.6 Ensembl ENCODE dbSUPER 25.6 -41.0 -41000 3 PKNOX1 FOXA2 MLX ARNT ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 INTS14 SLC24A1 DENND4A ENSG00000260773 PDCD7 PARP16 LOC646358 RAB11A HACD3 IGDCC4
GH15H065295 1.7 FANTOM5 ENCODE dbSUPER 19.4 +494.9 494927 4 HNRNPUL1 PKNOX1 MLX ARNT ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 PARP16 INTS14 ZNF609 TRIP4 ENSG00000264937 PDCD7 ENSG00000259635 MTFMT ENSG00000265967 CSNK1G1
GH15H065827 1.6 FANTOM5 Ensembl ENCODE dbSUPER 19.9 -36.2 -36174 2 DRAP1 CTCF PKNOX1 ETV1 RAD21 RFX5 GATA3 ZBTB48 FOXK2 ZSCAN5C DENND4A RAB11A IGDCC4 DPP8 DIS3L HNRNPA1P44 ENSG00000283249
GH15H065609 1.2 ENCODE 17.2 +180.9 180881 3 MLX ZFP64 FEZF1 DMAP1 YY1 SLC30A9 ZNF416 ZNF143 ZNF548 SP3 INTS14 PARP16 ENSG00000260773 SNORD16 PDCD7 RPL35AP32 ENSG00000264937 ENSG00000259635 SLC24A1 TIPIN
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around DENND4A on UCSC Golden Path with GeneCards custom track

Promoters for DENND4A Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000078114 493 2801 MLX YY1 SLC30A9 ZNF416 ZNF143 SP3 NFYC SSRP1 ZNF610 GLIS1

Genomic Location for DENND4A Gene

Chromosome:
15
Start:
65,658,046 bp from pter
End:
65,792,293 bp from pter
Size:
134,248 bases
Orientation:
Minus strand

Genomic View for DENND4A Gene

Genes around DENND4A on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
DENND4A Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for DENND4A Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for DENND4A Gene

Proteins for DENND4A Gene

  • Protein details for DENND4A Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q7Z401-MYCPP_HUMAN
    Recommended name:
    C-myc promoter-binding protein
    Protein Accession:
    Q7Z401
    Secondary Accessions:
    • E7EPL3
    • Q14655
    • Q86T77
    • Q8IVX2
    • Q8NB93

    Protein attributes for DENND4A Gene

    Size:
    1863 amino acids
    Molecular mass:
    209244 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AL833317; Type=Frameshift; Positions=1774; Evidence={ECO:0000305};

    Alternative splice isoforms for DENND4A Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for DENND4A Gene

Post-translational modifications for DENND4A Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for DENND4A Gene

Domains & Families for DENND4A Gene

Gene Families for DENND4A Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for DENND4A Gene

Suggested Antigen Peptide Sequences for DENND4A Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with DENND4A: view

No data available for UniProtKB/Swiss-Prot for DENND4A Gene

Function for DENND4A Gene

Molecular function for DENND4A Gene

UniProtKB/Swiss-Prot Function:
Probable 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. According to PubMed:8056341, it may bind to ISRE-like element (interferon-stimulated response element) of MYC P2 promoter.
UniProtKB/Swiss-Prot Induction:
By serum in low-passage fibroblasts.

Phenotypes From GWAS Catalog for DENND4A Gene

Gene Ontology (GO) - Molecular Function for DENND4A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding NAS 8056341
GO:0005085 guanyl-nucleotide exchange factor activity IEA --
GO:0005515 protein binding IPI 15324660
GO:0017112 Rab guanyl-nucleotide exchange factor activity TAS --
genes like me logo Genes that share ontologies with DENND4A: view
genes like me logo Genes that share phenotypes with DENND4A: view

Animal Model Products

CRISPR Products

miRNA for DENND4A Gene

miRTarBase miRNAs that target DENND4A

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for DENND4A
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for DENND4A Gene

Localization for DENND4A Gene

Subcellular locations from UniProtKB/Swiss-Prot for DENND4A 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 DENND4A gene
Compartment Confidence
cytosol 5
nucleus 4
mitochondrion 1
peroxisome 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleoli (2)
  • Nucleus (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for DENND4A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with DENND4A: view

Pathways & Interactions for DENND4A Gene

genes like me logo Genes that share pathways with DENND4A: view

Pathways by source for DENND4A Gene

Gene Ontology (GO) - Biological Process for DENND4A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated NAS 8056341
GO:0043547 positive regulation of GTPase activity IEA --
GO:0061024 membrane organization TAS --
genes like me logo Genes that share ontologies with DENND4A: view

No data available for SIGNOR curated interactions for DENND4A Gene

Drugs & Compounds for DENND4A Gene

No Compound Related Data Available

Transcripts for DENND4A Gene

Unigene Clusters for DENND4A Gene

DENN/MADD domain containing 4A:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for DENND4A
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

Alternative Splicing Database (ASD) splice patterns (SP) for DENND4A Gene

ExUns: 1a · 1b ^ 2a · 2b ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15a · 15b ^ 16 ^ 17 ^ 18 ^ 19 ^ 20 ^ 21a · 21b ^ 22 ^
SP1: -
SP2: - - -
SP3: - -
SP4:
SP5:
SP6:

ExUns: 23a · 23b ^ 24 ^ 25 ^ 26 ^ 27 ^ 28 ^ 29 ^ 30 ^ 31 ^ 32a · 32b ^ 33 ^ 34a · 34b · 34c
SP1: - -
SP2: - -
SP3:
SP4:
SP5:
SP6:

Relevant External Links for DENND4A Gene

GeneLoc Exon Structure for
DENND4A
ECgene alternative splicing isoforms for
DENND4A

Expression for DENND4A Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for DENND4A Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for DENND4A Gene

This gene is overexpressed in Esophagus (14.5), Peripheral blood mononuclear cells (10.1), Plasma (8.6), Retina (8.2), and Pancreas (7.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for DENND4A Gene



Protein tissue co-expression partners for DENND4A Gene

NURSA nuclear receptor signaling pathways regulating expression of DENND4A Gene:

DENND4A

SOURCE GeneReport for Unigene cluster for DENND4A Gene:

Hs.654567

mRNA Expression by UniProt/SwissProt for DENND4A Gene:

Q7Z401-MYCPP_HUMAN
Tissue specificity: Expressed ubiquitously. Highest expression in bone marrow, medium in peripheral blood lymphocytes and lowest in spleen. In brain, breast, and prostate, higher expression was seen in normal cells than in tumor cells. Expression is regulated in a growth- and cell cycle-dependent manner.

Evidence on tissue expression from TISSUES for DENND4A Gene

  • Nervous system(4.3)
  • Bone marrow(4.2)
  • Liver(4.2)
genes like me logo Genes that share expression patterns with DENND4A: view

Primer Products

No data available for mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for DENND4A Gene

Orthologs for DENND4A Gene

This gene was present in the common ancestor of animals.

Orthologs for DENND4A Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia DENND4A 33 34
  • 99.83 (n)
dog
(Canis familiaris)
Mammalia DENND4A 33 34
  • 93.32 (n)
cow
(Bos Taurus)
Mammalia DENND4A 33 34
  • 92.42 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia DENND4A 34
  • 90 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Dennd4a 33
  • 89.33 (n)
mouse
(Mus musculus)
Mammalia Dennd4a 33 16 34
  • 89.13 (n)
oppossum
(Monodelphis domestica)
Mammalia DENND4A 34
  • 86 (a)
OneToOne
chicken
(Gallus gallus)
Aves DENND4A 33 34
  • 77.06 (n)
lizard
(Anolis carolinensis)
Reptilia DENND4A 34
  • 76 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia dennd4a 33
  • 67.87 (n)
Str.19491 33
zebrafish
(Danio rerio)
Actinopterygii dennd4a 33 34
  • 61.84 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP001102 33
  • 52.84 (n)
fruit fly
(Drosophila melanogaster)
Insecta Crag 33 34
  • 48.73 (n)
worm
(Caenorhabditis elegans)
Secernentea denn-4 34
  • 33 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea CSA.1014 34
  • 40 (a)
OneToMany
Species where no ortholog for DENND4A 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 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 DENND4A Gene

ENSEMBL:
Gene Tree for DENND4A (if available)
TreeFam:
Gene Tree for DENND4A (if available)

Paralogs for DENND4A Gene

(2) SIMAP similar genes for DENND4A Gene using alignment to 4 proteins:

Pseudogenes.org Pseudogenes for DENND4A Gene

genes like me logo Genes that share paralogs with DENND4A: view

Variants for DENND4A Gene

Sequence variations from dbSNP and Humsavar for DENND4A Gene

SNP ID Clin Chr 15 pos Sequence Context AA Info Type
rs1000005880 -- 65,677,989(+) GTGGC(A/G)TGATC intron-variant
rs1000009203 -- 65,768,883(+) CAGGT(A/C)CTCGG intron-variant
rs1000060071 -- 65,732,518(+) AAAAT(G/T)TCTAC intron-variant
rs1000063275 -- 65,768,694(+) AATAC(A/T)CAATT intron-variant
rs1000074725 -- 65,727,086(+) AGGGG(-/GGA)GGATC intron-variant, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for DENND4A Gene

Variant ID Type Subtype PubMed ID
esv2749787 CNV deletion 23290073
esv5701 OTHER inversion 19470904
nsv1108963 CNV deletion 24896259
nsv819095 CNV loss 19587683
nsv833043 CNV loss 17160897
nsv833044 CNV loss 17160897
nsv984086 CNV duplication 23825009

Variation tolerance for DENND4A Gene

Residual Variation Intolerance Score: 6.24% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.95; 59.73% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for DENND4A Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
DENND4A

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for DENND4A Gene

Disorders for DENND4A Gene

Relevant External Links for DENND4A

Genetic Association Database (GAD)
DENND4A
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
DENND4A

No disorders were found for DENND4A Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for DENND4A Gene

Publications for DENND4A 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 22 60
  2. Cloning of a cDNA encoding a human protein which binds a sequence in the c-myc gene similar to the interferon-stimulated response element. (PMID: 8056341) Stasiv YZ … Kisselev LL (Gene 1994) 2 3 4 22 60
  3. Family-wide characterization of the DENN domain Rab GDP-GTP exchange factors. (PMID: 20937701) Yoshimura S … Barr FA (The Journal of cell biology 2010) 3 4 60
  4. Genome-wide association study of hematological and biochemical traits in a Japanese population. (PMID: 20139978) Kamatani Y … Kamatani N (Nature genetics 2010) 3 45 60
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 60

Products for DENND4A Gene

Sources for DENND4A Gene

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