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Aliases for DDX47 Gene

Aliases for DDX47 Gene

  • DEAD-Box Helicase 47 2 3 5
  • DEAD (Asp-Glu-Ala-Asp) Box Polypeptide 47 2 3
  • DEAD Box Protein 47 3 4
  • Probable ATP-Dependent RNA Helicase DDX47 3
  • DEAD Box Polypeptide 47 3
  • E4-DEAD Box Protein 3
  • EC 3.6.4.13 4
  • EC 3.6.1 56
  • MSTP162 3
  • E4-DBP 3
  • HQ0256 3
  • RRP3 3

External Ids for DDX47 Gene

Previous GeneCards Identifiers for DDX47 Gene

  • GC12P012866
  • GC12P012857
  • GC12P012771
  • GC12P012966

Summaries for DDX47 Gene

Entrez Gene Summary for DDX47 Gene

  • This gene encodes a member of the DEAD box protein family. DEAD box proteins, characterized by the conserved motif Asp-Glu-Ala-Asp (DEAD), are putative RNA helicases. They are implicated in a number of cellular processes involving alteration of RNA secondary structure, such as translation initiation, nuclear and mitochondrial splicing, and ribosome and spliceosome assembly. Based on their distribution patterns, some members of this family are believed to be involved in embryogenesis, spermatogenesis, and cellular growth and division. The protein encoded by this gene can shuttle between the nucleus and the cytoplasm, and has an RNA-independent ATPase activity. Two alternatively spliced transcript variants encoding distinct isoforms have been found for this gene. [provided by RefSeq, Jul 2008]

GeneCards Summary for DDX47 Gene

DDX47 (DEAD-Box Helicase 47) is a Protein Coding gene. Among its related pathways are Gene Expression and rRNA processing in the nucleus and cytosol. Gene Ontology (GO) annotations related to this gene include nucleic acid binding and hydrolase activity. An important paralog of this gene is DDX28.

UniProtKB/Swiss-Prot for DDX47 Gene

  • Involved in apoptosis. May have a role in rRNA processing and mRNA splicing. Associates with pre-rRNA precursors.

Gene Wiki entry for DDX47 Gene

Additional gene information for DDX47 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for DDX47 Gene

Genomics for DDX47 Gene

GeneHancer (GH) Regulatory Elements for DDX47 Gene

Promoters and enhancers for DDX47 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
GH12I012812 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE dbSUPER 564.1 +0.3 294 2.9 SMAD1 ARID4B SIN3A DMAP1 IRF4 YY1 ZNF207 ZNF143 DEK ZHX2 DDX47 RPL13AP20 GC12M012814 APOLD1
GH12I012265 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 95.5 -546.8 -546788 3.1 CLOCK FEZF1 DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 ZNF416 ZNF143 LRP6 DDX47 LOC100506248 ENSG00000255670 LOH12CR2 RPL13AP20 GC12P012248
GH12I012580 Enhancer 1.4 Ensembl ENCODE dbSUPER 90 -228.6 -228592 7.6 HDGF PKNOX1 SMAD1 ZNF493 ZFP64 NEUROD1 SIN3A IRF4 ZNF121 ZNF213 DDX47 DUSP16 LRP6 GPR19 CDKN1B RPL19P17 GC12M012561
GH12I012713 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 35 -93.0 -93015 14 ZFP64 FEZF1 DMAP1 YY1 ZNF213 ZNF143 SP3 NFYC ZFP41 SSRP1 APOLD1 CDKN1B ENSG00000275560 DDX47 GPR19 RPL13AP20 MANSC1 BORCS5 DUSP16 GC12P012719
GH12I012349 Promoter/Enhancer 2.3 EPDnew FANTOM5 Ensembl ENCODE 33.8 -462.8 -462780 2.9 FOXA2 ARID4B SIN3A ZNF2 ZNF548 KLF13 KAT8 GLIS1 RCOR2 HMBOX1 MANSC1 DDX47 LOH12CR2 BCL2L14 GC12P012340
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around DDX47 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the DDX47 gene promoter:

Genomic Locations for DDX47 Gene

Genomic Locations for DDX47 Gene
chr12:12,813,316-12,829,981
(GRCh38/hg38)
Size:
16,666 bases
Orientation:
Plus strand
chr12:12,966,250-12,982,915
(GRCh37/hg19)

Genomic View for DDX47 Gene

Genes around DDX47 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
DDX47 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for DDX47 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for DDX47 Gene

Proteins for DDX47 Gene

  • Protein details for DDX47 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9H0S4-DDX47_HUMAN
    Recommended name:
    Probable ATP-dependent RNA helicase DDX47
    Protein Accession:
    Q9H0S4
    Secondary Accessions:
    • B3KXP4
    • G5E955
    • Q96GM0
    • Q96NV8
    • Q9UI98

    Protein attributes for DDX47 Gene

    Size:
    455 amino acids
    Molecular mass:
    50647 Da
    Quaternary structure:
    • Interacts with AGO1 and AGO2. Interacts with GABARAP. Interacts with NOL8; the interaction is RNA-dependent.
    SequenceCaution:
    • Sequence=AAF23354.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for DDX47 Gene

    Alternative splice isoforms for DDX47 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for DDX47 Gene

Selected DME Specific Peptides for DDX47 Gene

Q9H0S4:
  • RVGRTAR
  • VASRGLD
  • AFALPIL
  • VLTPTREL
  • TDVASRG
  • VGGIDSMSQSLALAKKPH
  • TPTRELA
  • DEADRIL
  • IIATPGR
  • AETGSGKT
  • TFLFSATM
  • FALVLTPT
  • YILNELAGN
  • GRTARAGR
  • LVMDEADR
  • TPGRLID
  • LQRAALKNPV
  • QISEQFEA
  • LFSATMT
  • LNKFKAKAR
  • YIHRVGR
  • RLGSLNKFK
  • IATPGRL
  • DHLENTKGF

Post-translational modifications for DDX47 Gene

  • Ubiquitination at posLast=161161 and Lys345

Other Protein References for DDX47 Gene

Domains & Families for DDX47 Gene

Gene Families for DDX47 Gene

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

Suggested Antigen Peptide Sequences for DDX47 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9H0S4

UniProtKB/Swiss-Prot:

DDX47_HUMAN :
  • Belongs to the DEAD box helicase family. DDX47/RRP3 subfamily.
Family:
  • Belongs to the DEAD box helicase family. DDX47/RRP3 subfamily.
genes like me logo Genes that share domains with DDX47: view

Function for DDX47 Gene

Molecular function for DDX47 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
ATP + H(2)O = ADP + phosphate.
UniProtKB/Swiss-Prot Function:
Involved in apoptosis. May have a role in rRNA processing and mRNA splicing. Associates with pre-rRNA precursors.

Enzyme Numbers (IUBMB) for DDX47 Gene

Phenotypes From GWAS Catalog for DDX47 Gene

Gene Ontology (GO) - Molecular Function for DDX47 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0003723 RNA binding HDA,IEA 22658674
GO:0004004 ATP-dependent RNA helicase activity IBA --
GO:0004386 helicase activity IEA --
GO:0005515 protein binding IPI 15977068
genes like me logo Genes that share ontologies with DDX47: view
genes like me logo Genes that share phenotypes with DDX47: view

Clone Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for DDX47 Gene

Localization for DDX47 Gene

Subcellular locations from UniProtKB/Swiss-Prot for DDX47 Gene

Nucleus, nucleolus. Note=Localizes in the nucleolar-organizing region during ribosome biogenesis.

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 DDX47 gene
Compartment Confidence
nucleus 5
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for DDX47 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm TAS --
GO:0005730 nucleolus IEA,IDA 16963496
GO:0005737 cytoplasm IBA --
GO:0016020 membrane IDA,HDA 19946888
genes like me logo Genes that share ontologies with DDX47: view

Pathways & Interactions for DDX47 Gene

genes like me logo Genes that share pathways with DDX47: view

Gene Ontology (GO) - Biological Process for DDX47 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006364 rRNA processing TAS --
GO:0006397 mRNA processing IEA --
GO:0006915 apoptotic process IEA --
GO:0008380 RNA splicing IMP 16963496
GO:0008625 extrinsic apoptotic signaling pathway via death domain receptors IDA 15977068
genes like me logo Genes that share ontologies with DDX47: view

No data available for SIGNOR curated interactions for DDX47 Gene

Drugs & Compounds for DDX47 Gene

(3) Drugs for DDX47 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Phosphoric acid Approved Pharma 0
Water Approved Pharma 0
ATP Investigational Nutra Agonist 0

(1) Additional Compounds for DDX47 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
ADP
  • Adenosindiphosphorsaeure
  • Adenosine 5'-pyrophosphate
  • Adenosine diphosphate
  • Adenosine pyrophosphate
  • Adenosine-5'-diphosphate
Full agonist, Agonist 58-64-0
genes like me logo Genes that share compounds with DDX47: view

Transcripts for DDX47 Gene

Unigene Clusters for DDX47 Gene

DEAD (Asp-Glu-Ala-Asp) box polypeptide 47:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for DDX47 Gene

No ASD Table

Relevant External Links for DDX47 Gene

GeneLoc Exon Structure for
DDX47
ECgene alternative splicing isoforms for
DDX47

Expression for DDX47 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for DDX47 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for DDX47 Gene

This gene is overexpressed in Lung (31.7) and Blymphocyte (6.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for DDX47 Gene



Protein tissue co-expression partners for DDX47 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of DDX47 Gene:

DDX47

SOURCE GeneReport for Unigene cluster for DDX47 Gene:

Hs.719938

Evidence on tissue expression from TISSUES for DDX47 Gene

  • Nervous system(4.7)
  • Liver(4.4)
  • Eye(4.1)
  • Lung(2)
genes like me logo Genes that share expression patterns with DDX47: view

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for DDX47 Gene

Orthologs for DDX47 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for DDX47 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia DDX47 33 34
  • 99.71 (n)
dog
(Canis familiaris)
Mammalia DDX47 33 34
  • 91.61 (n)
cow
(Bos Taurus)
Mammalia DDX47 33 34
  • 89.45 (n)
oppossum
(Monodelphis domestica)
Mammalia DDX47 34
  • 89 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Ddx47 33 16 34
  • 87.55 (n)
rat
(Rattus norvegicus)
Mammalia Ddx47 33
  • 87.11 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia DDX47 34
  • 87 (a)
OneToOne
chicken
(Gallus gallus)
Aves DDX47 33 34
  • 79.72 (n)
lizard
(Anolis carolinensis)
Reptilia DDX47 34
  • 89 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia ddx47 33
  • 76.62 (n)
LOC394710 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.8006 33
zebrafish
(Danio rerio)
Actinopterygii ddx47 33 34
  • 69.6 (n)
Dr.14725 33
fruit fly
(Drosophila melanogaster)
Insecta CG9253 33 34
  • 64.56 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP009808 33
  • 62.25 (n)
worm
(Caenorhabditis elegans)
Secernentea CELE_T26G10.1 33
  • 61.76 (n)
T26G10.1 34
  • 55 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes RRP3 33 34 36
  • 57.58 (n)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AAL041C 33
  • 56.66 (n)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0C14608g 33
  • 56.04 (n)
thale cress
(Arabidopsis thaliana)
eudicotyledons AT5G60990 33
  • 62.01 (n)
rice
(Oryza sativa)
Liliopsida Os03g0669000 33
  • 61.28 (n)
Os.5421 33
wheat
(Triticum aestivum)
Liliopsida Ta.10537 33
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 68 (a)
ManyToMany
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes SPAC823.08c 33
  • 62.9 (n)
bread mold
(Neurospora crassa)
Ascomycetes NCU04504 33
  • 59.37 (n)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.2700 33
Species where no ortholog for DDX47 was found in the sources mined by GeneCards:
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • 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 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)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)

Evolution for DDX47 Gene

ENSEMBL:
Gene Tree for DDX47 (if available)
TreeFam:
Gene Tree for DDX47 (if available)

Paralogs for DDX47 Gene

Paralogs for DDX47 Gene

genes like me logo Genes that share paralogs with DDX47: view

Variants for DDX47 Gene

Sequence variations from dbSNP and Humsavar for DDX47 Gene

SNP ID Clin Chr 12 pos Variation AA Info Type
rs1000047404 -- 12,816,800(+) A/G intron_variant
rs1000113015 -- 12,817,995(+) C/T intron_variant
rs1000265932 -- 12,824,341(+) C/A intron_variant
rs1000433365 -- 12,817,055(+) A/G intron_variant
rs1000459133 -- 12,828,881(+) A/G intron_variant

Structural Variations from Database of Genomic Variants (DGV) for DDX47 Gene

Variant ID Type Subtype PubMed ID
esv2745567 CNV deletion 23290073
nsv1046355 CNV loss 25217958

Variation tolerance for DDX47 Gene

Residual Variation Intolerance Score: 50.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.68; 32.14% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for DDX47 Gene

Human Gene Mutation Database (HGMD)
DDX47
SNPedia medical, phenotypic, and genealogical associations of SNPs for
DDX47

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for DDX47 Gene

Disorders for DDX47 Gene

Additional Disease Information for DDX47

No disorders were found for DDX47 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for DDX47 Gene

Publications for DDX47 Gene

  1. Proteomic and functional analysis of Argonaute-containing mRNA-protein complexes in human cells. (PMID: 17932509) Höck J … Meister G (EMBO reports 2007) 3 4 58
  2. NOP132 is required for proper nucleolus localization of DEAD-box RNA helicase DDX47. (PMID: 16963496) Sekiguchi T … Nishimoto T (Nucleic acids research 2006) 3 4 58
  3. GABAA receptor-associated protein (GABARAP) induces apoptosis by interacting with DEAD (Asp-Glu-Ala-Asp/His) box polypeptide 47 (DDX 47). (PMID: 15977068) Lee JH … Chun T (Biotechnology letters 2005) 3 4 58
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58

Products for DDX47 Gene

Sources for DDX47 Gene

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