Free for academic non-profit institutions. Other users need a Commercial license

Aliases for DDX21 Gene

Aliases for DDX21 Gene

  • DEAD (Asp-Glu-Ala-Asp) Box Helicase 21 2 3
  • DEAD/H (Asp-Glu-Ala-Asp/His) Box Polypeptide 21 2 3
  • DEAD (Asp-Glu-Ala-Asp) Box Polypeptide 21 2 3
  • Nucleolar RNA Helicase Gu 3 4
  • Nucleolar RNA Helicase II 3 4
  • DEAD Box Protein 21 3 4
  • RH II/Gu 3 4
  • Gu-Alpha 3 4
  • RNA Helicase II/Gu Alpha 3
  • Nucleolar RNA Helicase 2 3
  • EC 3.6.4.13 4
  • Gu Protein 3
  • RH-II/GuA 3
  • RH-II/GU 3
  • EC 3.6.1 63
  • GURDB 3
  • GUA 3

External Ids for DDX21 Gene

Previous GeneCards Identifiers for DDX21 Gene

  • GC10P069527
  • GC10P069802
  • GC10P070608
  • GC10P070060
  • GC10P070385
  • GC10P070715
  • GC10P064717

Summaries for DDX21 Gene

Entrez Gene Summary for DDX21 Gene

  • 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. This gene encodes a DEAD box protein, which is an antigen recognized by autoimmune antibodies from a patient with watermelon stomach disease. This protein unwinds double-stranded RNA, folds single-stranded RNA, and may play important roles in ribosomal RNA biogenesis, RNA editing, RNA transport, and general transcription. [provided by RefSeq, Jul 2008]

GeneCards Summary for DDX21 Gene

DDX21 (DEAD (Asp-Glu-Ala-Asp) Box Helicase 21) is a Protein Coding gene. Diseases associated with DDX21 include stomach disease. GO annotations related to this gene include double-stranded RNA binding and ATP-dependent RNA helicase activity. An important paralog of this gene is DDX50.

UniProtKB/Swiss-Prot for DDX21 Gene

  • RNA helicase that acts as a sensor of the transcriptional status of both RNA polymerase (Pol) I and II: promotes ribosomal RNA (rRNA) processing and transcription from polymerase II (Pol II) (PubMed:25470060). Binds various RNAs, such as rRNAs, snoRNAs, 7SK and, at lower extent, mRNAs (PubMed:25470060). In the nucleolus, localizes to rDNA locus, where it directly binds rRNAs and snoRNAs, and promotes rRNA transcription, processing and modification. Required for rRNA 2-O-methylation, possibly by promoting the recruitment of late-acting snoRNAs SNORD56 and SNORD58 with pre-ribosomal complexes (PubMed:25470060, PubMed:25477391). In the nucleoplasm, binds 7SK RNA and is recruited to the promoters of Pol II-transcribed genes: acts by facilitating the release of P-TEFb from inhibitory 7SK snRNP in a manner that is dependent on its helicase activity, thereby promoting transcription of its target genes (PubMed:25470060). Functions as cofactor for JUN-activated transcription: required for phosphorylation of JUN at Ser-77 (PubMed:11823437, PubMed:25260534). Can unwind double-stranded RNA (helicase) and can fold or introduce a secondary structure to a single-stranded RNA (foldase) (PubMed:9461305). Involved in rRNA processing (PubMed:14559904, PubMed:18180292).

Gene Wiki entry for DDX21 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for DDX21 Gene

Genomics for DDX21 Gene

Regulatory Elements for DDX21 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for DDX21 Gene

Start:
68,956,123 bp from pter
End:
68,985,073 bp from pter
Size:
28,951 bases
Orientation:
Plus strand

Genomic View for DDX21 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for DDX21 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for DDX21 Gene

Proteins for DDX21 Gene

  • Protein details for DDX21 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9NR30-DDX21_HUMAN
    Recommended name:
    Nucleolar RNA helicase 2
    Protein Accession:
    Q9NR30
    Secondary Accessions:
    • B2RDL0
    • Q13436
    • Q5VX41
    • Q68D35

    Protein attributes for DDX21 Gene

    Size:
    783 amino acids
    Molecular mass:
    87344 Da
    Quaternary structure:
    • Component of the B-WICH complex, at least composed of SMARCA5/SNF2H, BAZ1B/WSTF, SF3B1, DEK, MYO1C, ERCC6, MYBBP1A and DDX21. Interacts with C1QBP. Interacts with JUN (PubMed:11823437, PubMed:18180292). Interacts with WDR46 (PubMed:23848194).
    Miscellaneous:
    • Autoantibodies against DDX21 are found in patients with watermelon stomach disease, which is characterized by prominent stripes of ectatic vascular tissue in the stomach similar to stripes on a watermelon.
    SequenceCaution:
    • Sequence=AAB02546.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for DDX21 Gene

    Alternative splice isoforms for DDX21 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for DDX21 Gene

Proteomics data for DDX21 Gene at MOPED

Post-translational modifications for DDX21 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for DDX21 Gene

ENSEMBL proteins:
REFSEQ proteins:

Domains for DDX21 Gene

Gene Families for DDX21 Gene

HGNC:
  • DDX :DEAD-boxes

Suggested Antigen Peptide Sequences for DDX21 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9NR30

UniProtKB/Swiss-Prot:

DDX21_HUMAN :
  • Q9NR30
Domain:
  • The helicase and foldase activities reside in two separate domains, the helicase in the N-terminus and the foldase in the C-terminus.
  • The 3 X 5 AA repeats seem to be critical for the RNA folding activity.
  • Contains 1 helicase ATP-binding domain.
  • Contains 1 helicase C-terminal domain.
Family:
  • Belongs to the DEAD box helicase family. DDX21/DDX50 subfamily.
genes like me logo Genes that share domains with DDX21: view

Function for DDX21 Gene

Molecular function for DDX21 Gene

UniProtKB/Swiss-Prot CatalyticActivity: ATP + H(2)O = ADP + phosphate.
UniProtKB/Swiss-Prot Function: RNA helicase that acts as a sensor of the transcriptional status of both RNA polymerase (Pol) I and II: promotes ribosomal RNA (rRNA) processing and transcription from polymerase II (Pol II) (PubMed:25470060). Binds various RNAs, such as rRNAs, snoRNAs, 7SK and, at lower extent, mRNAs (PubMed:25470060). In the nucleolus, localizes to rDNA locus, where it directly binds rRNAs and snoRNAs, and promotes rRNA transcription, processing and modification. Required for rRNA 2-O-methylation, possibly by promoting the recruitment of late-acting snoRNAs SNORD56 and SNORD58 with pre-ribosomal complexes (PubMed:25470060, PubMed:25477391). In the nucleoplasm, binds 7SK RNA and is recruited to the promoters of Pol II-transcribed genes: acts by facilitating the release of P-TEFb from inhibitory 7SK snRNP in a manner that is dependent on its helicase activity, thereby promoting transcription of its target genes (PubMed:25470060). Functions as cofactor for JUN-activated transcription: required for phosphorylation of JUN at Ser-77 (PubMed:11823437, PubMed:25260534). Can unwind double-stranded RNA (helicase) and can fold or introduce a secondary structure to a single-stranded RNA (foldase) (PubMed:9461305). Involved in rRNA processing (PubMed:14559904, PubMed:18180292).

Enzyme Numbers (IUBMB) for DDX21 Gene

Gene Ontology (GO) - Molecular Function for DDX21 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding --
GO:0003677 DNA binding --
GO:0003723 RNA binding --
GO:0003725 double-stranded RNA binding IEA --
GO:0004004 ATP-dependent RNA helicase activity IMP 25470060
genes like me logo Genes that share ontologies with DDX21: view

Phenotypes for DDX21 Gene

GenomeRNAi human phenotypes for DDX21:
genes like me logo Genes that share phenotypes with DDX21: view

Animal Model Products

CRISPR Products

No data available for Animal Models , Transcription Factor Targeting and HOMER Transcription for DDX21 Gene

Localization for DDX21 Gene

Subcellular locations from UniProtKB/Swiss-Prot for DDX21 Gene

Nucleus, nucleolus. Nucleus, nucleoplasm. Note=Present both in nucleolus and nucleoplasm. Interaction with JUN promotes translocation from the nucleolus to the nucleoplasm (PubMed:11823437, PubMed:18180292). Interaction with WDR46 is required for localization to the nucleolus (PubMed:23848194). {ECO:0000269 PubMed:11823437, ECO:0000269 PubMed:18180292, ECO:0000269 PubMed:23848194}.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for DDX21 Gene COMPARTMENTS Subcellular localization image for DDX21 gene
Compartment Confidence
nucleus 5
chloroplast 2
cytosol 2
mitochondrion 2

Gene Ontology (GO) - Cellular Components for DDX21 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA --
GO:0005654 nucleoplasm IEA --
GO:0005730 nucleolus IDA --
GO:0005737 cytoplasm IBA --
GO:0016020 membrane IDA 16210410
genes like me logo Genes that share ontologies with DDX21: view

Pathways for DDX21 Gene

SuperPathways for DDX21 Gene

No Data Available

Gene Ontology (GO) - Biological Process for DDX21 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001649 osteoblast differentiation IDA 16210410
GO:0006200 obsolete ATP catabolic process --
GO:0006364 rRNA processing IEA --
GO:0006366 transcription from RNA polymerase II promoter IMP 25470060
GO:0009615 response to virus IEA --
genes like me logo Genes that share ontologies with DDX21: view

No data available for Pathways by source for DDX21 Gene

Transcripts for DDX21 Gene

mRNA/cDNA for DDX21 Gene

Unigene Clusters for DDX21 Gene

DEAD (Asp-Glu-Ala-Asp) box helicase 21:
Representative Sequences:

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for DDX21

Primer Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for DDX21 Gene

No ASD Table

Relevant External Links for DDX21 Gene

GeneLoc Exon Structure for
DDX21
ECgene alternative splicing isoforms for
DDX21

Expression for DDX21 Gene

mRNA expression in normal human tissues for DDX21 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for DDX21 Gene

SOURCE GeneReport for Unigene cluster for DDX21 Gene Hs.223141

genes like me logo Genes that share expressions with DDX21: view

In Situ Assay Products

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for DDX21 Gene

Orthologs for DDX21 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for DDX21 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia DDX21 35
  • 99.83 (n)
  • 99.87 (a)
DDX21 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia -- 36
  • 75 (a)
OneToMany
DDX21 35
  • 89.34 (n)
  • 89.26 (a)
DDX21 36
  • 89 (a)
OneToMany
dog
(Canis familiaris)
Mammalia DDX21 35
  • 89.31 (n)
  • 89.66 (a)
DDX21 36
  • 89 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Ddx21 35
  • 86.07 (n)
  • 89.97 (a)
Ddx21 16
Ddx21 36
  • 77 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia DDX21 36
  • 71 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia DDX21 36
  • 66 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Ddx21 35
  • 83.83 (n)
  • 84.85 (a)
chicken
(Gallus gallus)
Aves -- 36
  • 67 (a)
ManyToMany
-- 36
  • 65 (a)
ManyToMany
DDX50 35
  • 70.39 (n)
  • 69.85 (a)
lizard
(Anolis carolinensis)
Reptilia -- 36
  • 61 (a)
OneToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia ddx21 35
  • 63.18 (n)
  • 59.87 (a)
zebrafish
(Danio rerio)
Actinopterygii -- 35
ddx21 35
  • 64.37 (n)
  • 71.11 (a)
ddx21 36
  • 55 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes DBP3 36
  • 29 (a)
ManyToMany
TIF1 36
  • 32 (a)
ManyToMany
TIF2 36
  • 32 (a)
ManyToMany
thale cress
(Arabidopsis thaliana)
eudicotyledons PRH75 35
  • 49.35 (n)
  • 43.29 (a)
rice
(Oryza sativa)
Liliopsida Os09g0520700 35
  • 51.24 (n)
  • 46.1 (a)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.2984 36
  • 50 (a)
OneToMany
Species with no ortholog for DDX21:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • 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)
  • fruit fly (Drosophila melanogaster)
  • 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 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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for DDX21 Gene

ENSEMBL:
Gene Tree for DDX21 (if available)
TreeFam:
Gene Tree for DDX21 (if available)

Paralogs for DDX21 Gene

Paralogs for DDX21 Gene

Selected SIMAP similar genes for DDX21 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with DDX21: view

Variants for DDX21 Gene

Sequence variations from dbSNP and Humsavar for DDX21 Gene

SNP ID Clin Chr 10 pos Sequence Context AA Info Type MAF
rs4554 -- 68,983,666(-) GCCCC(C/T)TACTC utr-variant-3-prime
rs7920 -- 68,984,923(+) TTACT(A/G)TTTTC utr-variant-3-prime
rs9197 -- 68,974,703(+) CTTCT(G/T)CAACA reference, missense
rs1043210 -- 68,984,946(+) ATTTT(C/T)TAATT utr-variant-3-prime
rs1417943 -- 68,962,356(+) TAAAG(C/T)TTTTT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for DDX21 Gene

Variant ID Type Subtype PubMed ID
nsv831907 CNV Gain 17160897
nsv519999 CNV Loss 19592680

Relevant External Links for DDX21 Gene

HapMap Linkage Disequilibrium report
DDX21

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for DDX21 Gene

Disorders for DDX21 Gene

MalaCards: The human disease database

MalaCards: The human disease database. (1) Diseases for DDX21 Gene including...

Search for DDX21 Gene in MalaCards »

Relevant External Links for DDX21

Genetic Association Database (GAD)
DDX21
Human Genome Epidemiology (HuGE) Navigator
DDX21
genes like me logo Genes that share disorders with DDX21: view

No data available for UniProtKB/Swiss-Prot for DDX21 Gene

Publications for DDX21 Gene

  1. c-Jun supports ribosomal RNA processing and nucleolar localization of RNA helicase DDX21. (PMID: 18180292) HolmstrAPm T.H. … Westermarck J. (J. Biol. Chem. 2008) 2 3 4
  2. A nucleolar RNA helicase recognized by autoimmune antibodies from a patient with watermelon stomach disease. (PMID: 8614622) Valdez B.C. … Busch H. (Nucleic Acids Res. 1996) 2 3 4
  3. Genomic structure of newly identified paralogue of RNA helicase II/Gu: detection of pseudogenes and multiple alternatively spliced mRNAs. (PMID: 11891046) Valdez B.C. … Sequitin A.M. (Gene 2002) 3 23
  4. RNA-unwinding and RNA-folding activities of RNA helicase II/Gu--two activities in separate domains of the same protein. (PMID: 9461305) Valdez B.C. … Busch H. (Eur. J. Biochem. 1997) 3 4
  5. Human RNA helicase II/Gu gene: genomic organization and promoter analysis. (PMID: 11237763) Zhu K. … Busch H. (Biochem. Biophys. Res. Commun. 2001) 3 4

Products for DDX21 Gene

Sources for DDX21 Gene

Back to Top

Content