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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
  • DENN/MADD Domain Containing 4A 2 3
  • C-Myc Promoter Binding Protein 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. Gene Ontology (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

GeneHancer (GH) Regulatory Elements for DENND4A Gene

Promoters and enhancers for DENND4A 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
GH15J065786 Promoter/Enhancer 2.5 EPDnew Ensembl ENCODE dbSUPER 659.5 +2.2 2174 7.7 CLOCK MLX FEZF1 DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 ZNF416 DENND4A PARP16 INTS14 SLC24A1 ENSG00000260773 PDCD7 SNORD16 RPL35AP32 ZWILCH MTFMT
GH15J065803 Promoter/Enhancer 1.9 EPDnew Ensembl ENCODE dbSUPER 659 -13.0 -13033 3.4 PKNOX1 SMAD1 FOXA2 ARNT ARID4B DMAP1 YY1 ZNF766 JUNB REST DENND4A SLC24A1 LOC105370866 HNRNPA1P44 RAB11A
GH15J065772 Promoter/Enhancer 0.7 EPDnew dbSUPER 650.3 +20.1 20121 0.1 LOC646358 DENND4A RAB11A
GH15J065609 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE 26.3 +180.9 180881 3.8 MLX ZFP64 FEZF1 DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 ZNF416 INTS14 SLC24A1 ENSG00000260773 PARP16 SNORD16 RPL35AP32 PDCD7 ENSG00000264937 ENSG00000259635 TIPIN
GH15J065817 Enhancer 1.7 FANTOM5 Ensembl ENCODE dbSUPER 30.4 -27.8 -27840 4.7 HDGF PKNOX1 SMAD1 ARNT IRF4 TCF12 GATA2 ATF7 RUNX3 KDM4B INTS14 DENND4A ZWILCH PDCD7 SLC24A1 PARP16 MTFMT ENSG00000260773 TIPIN RAB11A
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around DENND4A on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the DENND4A gene promoter:
  • AREB6
  • Sp1
  • RORalpha2
  • HOXA3
  • AML1a
  • aMEF-2
  • MEF-2
  • MEF-2A

Genomic Locations for DENND4A Gene

Genomic Locations for DENND4A Gene
chr15:65,658,046-65,792,293
(GRCh38/hg38)
Size:
134,248 bases
Orientation:
Minus strand
chr15:65,950,384-66,084,631
(GRCh37/hg19)
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

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

miRNA for DENND4A Gene

miRTarBase miRNAs that target DENND4A

Clone Products

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:0065009 regulation of molecular function IEA --
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:

Clone Products

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, 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

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 34 33
  • 99.83 (n)
OneToOne
dog
(Canis familiaris)
Mammalia DENND4A 34 33
  • 93.32 (n)
OneToOne
cow
(Bos Taurus)
Mammalia DENND4A 34 33
  • 92.42 (n)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia DENND4A 34
  • 90 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Dennd4a 33
  • 89.33 (n)
mouse
(Mus musculus)
Mammalia Dennd4a 16 34 33
  • 89.13 (n)
oppossum
(Monodelphis domestica)
Mammalia DENND4A 34
  • 86 (a)
OneToOne
chicken
(Gallus gallus)
Aves DENND4A 34 33
  • 77.06 (n)
OneToOne
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 34 33
  • 61.84 (n)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP001102 33
  • 52.84 (n)
fruit fly
(Drosophila melanogaster)
Insecta Crag 34 33
  • 48.73 (n)
OneToMany
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)
Aminode:
Evolutionary constrained regions (ECRs) for DENND4A: view image

Paralogs for DENND4A Gene

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

  • MYCPP_HUMAN
  • H3BSA0_HUMAN
  • H3BTW5_HUMAN
  • Q05C90_HUMAN

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 Variation AA Info Type
rs1000005880 -- 65,677,989(-) A/G genic_downstream_transcript_variant, intron_variant
rs1000009203 -- 65,768,883(-) A/C genic_upstream_transcript_variant, intron_variant
rs1000060071 -- 65,732,518(-) G/T genic_upstream_transcript_variant, intron_variant
rs1000063275 -- 65,768,694(-) A/T genic_upstream_transcript_variant, intron_variant
rs1000074725 -- 65,727,086(-) GGAGGA/GGA genic_upstream_transcript_variant, intron_variant, upstream_transcript_variant

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)

Additional Variant Information 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

Additional Disease Information for 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 58
  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 58
  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 58
  4. Genome-wide association study of hematological and biochemical traits in a Japanese population. (PMID: 20139978) Kamatani Y … Kamatani N (Nature genetics 2010) 3 44 58
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58

Products for DENND4A Gene

Sources for DENND4A Gene

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