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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 58
  • 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 rRNA processing in the nucleus and cytosol and Gene Expression. 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

Regulatory Elements for DDX47 Gene

Enhancers for DDX47 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
GH12H012265 1.2 ENCODE 107.4 -546.7 -546696 2 FEZF1 DMAP1 YY1 SLC30A9 ZNF416 ZNF143 ZNF548 SP3 NFYC ZFP41 DDX47 LRP6 LOC100506248 LOC105369663 ENSG00000255670 LOH12CR2 RPL13AP20 GC12P012248
GH12H012580 1.5 Ensembl ENCODE dbSUPER 74.4 -228.6 -228592 7 HDGF PKNOX1 ZNF493 ZFP64 SIN3A ZNF121 ZNF207 FOS ATF7 RUNX3 DDX47 DUSP16 LRP6 GPR19 CDKN1B RPL19P17 GC12M012561
GH12H012834 1.5 Ensembl ENCODE dbSUPER 50.6 +25.3 25268 8 PKNOX1 SIN3A FEZF1 BRCA1 ZNF2 GTF3C2 ZNF121 GLIS2 KLF7 FOS DDX47 RPL13AP20 GPRC5A LOC100506248 MIR614 ENSG00000256011 GPRC5D-AS1 GPRC5D LRP6 RPL37AP9
GH12H012349 1.4 FANTOM5 ENCODE 33.8 -462.8 -462781 2 FOXA2 ARID4B SIN3A ZNF2 ZNF548 KAT8 GLIS1 RCOR2 HMBOX1 NR2C1 DDX47 MANSC1 LOH12CR2 BCL2L14 GC12P012340
GH12H012897 1.8 FANTOM5 Ensembl ENCODE dbSUPER 25.3 +87.8 87795 7 PKNOX1 SIN3A BRCA1 ZNF121 FOS ATF7 RUNX3 SP3 YY2 JUNB DDX47 LRP6 GPRC5A GPRC5D-AS1 ENSG00000255621 GC12P012921
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around DDX47 on UCSC Golden Path with GeneCards custom track

Promoters for DDX47 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000048993 384 1001 ARID4B SIN3A DMAP1 YY1 ZNF207 ZNF143 DEK ZHX2 MXD4 REST

Genomic Location for DDX47 Gene

Chromosome:
12
Start:
12,813,316 bp from pter
End:
12,829,981 bp from pter
Size:
16,666 bases
Orientation:
Plus strand

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 isoforms=2345
  • Modification sites at PhosphoSitePlus

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 IEA,IDA 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

Animal Model Products

  • Taconic Biosciences Mouse Models for DDX47

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for DDX47
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

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 IDA,IEA 16963496
GO:0005737 cytoplasm IBA --
GO:0016020 membrane IDA 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 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:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for DDX47
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

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

Primer Products

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 Sequence Context AA Info Type
rs1000047404 -- 12,816,800(+) GAACT(A/G)TCAGC intron-variant
rs1000113015 -- 12,817,995(+) TCCCC(C/T)GCCTG intron-variant
rs1000265932 -- 12,824,341(+) ACTAC(A/C)CTTAT intron-variant
rs1000433365 -- 12,817,055(+) ATTCT(A/G)ATGAA intron-variant
rs1000459133 -- 12,828,881(+) TCTTA(A/G)TGGCT 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)

Relevant External Links 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

Relevant External Links for DDX47

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
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 60
  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 60
  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 60
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 60
  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 60

Products for DDX47 Gene

Sources for DDX47 Gene

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