Human Gene DDX59 (uc010ppl.1)
  Description: Homo sapiens DEAD (Asp-Glu-Ala-Asp) box polypeptide 59 (DDX59), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr1:200,610,119-200,639,126 Size: 29,008 Total Exon Count: 8 Strand: -
Coding Region
   Position: hg19 chr1:200,610,277-200,635,868 Size: 25,592 Coding Exon Count: 7 

Page IndexSequence and LinksPrimersGenetic AssociationsMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:200,610,119-200,639,126)mRNA (may differ from genome)Protein (567 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCLynxMalacardsMGI
OMIMPubMedTreefamUniProtKBWikipediaBioGrid CRISPR DB

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): DDX59
CDC HuGE Published Literature: DDX59
Positive Disease Associations: Electrocardiography
Related Studies:
  1. Electrocardiography
    J Gustav Smith et al. Heart rhythm 2009, Genome-wide association study of electrocardiographic conduction measures in an isolated founder population: Kosrae., Heart rhythm : the official journal of the Heart Rhythm Society. [PubMed 19389651]
    The PR interval and its subcomponents showed substantial heritability in a South Pacific islander population and were associated with common genetic variation in SCN5A.

-  MalaCards Disease Associations
  MalaCards Gene Search: DDX59
Diseases sorted by gene-association score: orofaciodigital syndrome v* (1550), orofaciodigital syndrome (26)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 7.70 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 194.67 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -122.60243-0.505 Picture PostScript Text
3' UTR -43.80158-0.277 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR011545 - DNA/RNA_helicase_DEAD/DEAH_N
IPR014001 - Helicase_ATP-bd
IPR001650 - Helicase_C
IPR014014 - RNA_helicase_DEAD_Q_motif
IPR007529 - Znf_HIT

Pfam Domains:
PF00270 - DEAD/DEAH box helicase
PF00271 - Helicase conserved C-terminal domain
PF04438 - HIT zinc finger

SCOP Domains:
52540 - P-loop containing nucleoside triphosphate hydrolases

ModBase Predicted Comparative 3D Structure on B7Z5N6
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003676 nucleic acid binding
GO:0005524 ATP binding

Cellular Component:
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  AL136611 - Homo sapiens mRNA; cDNA DKFZp564B1023 (from clone DKFZp564B1023).
AK299219 - Homo sapiens cDNA FLJ56549 complete cds, highly similar to Homo sapiens DEAD (Asp-Glu-Ala-Asp) box polypeptide 59 (DDX59), transcript variant 2, mRNA.
BC020201 - Homo sapiens cDNA clone IMAGE:4841282, containing frame-shift errors.
BC041801 - Homo sapiens DEAD (Asp-Glu-Ala-Asp) box polypeptide 59, mRNA (cDNA clone MGC:41772 IMAGE:5302098), complete cds.
KJ899705 - Synthetic construct Homo sapiens clone ccsbBroadEn_09099 DDX59 gene, encodes complete protein.
AB463007 - Synthetic construct DNA, clone: pF1KB8617, Homo sapiens DDX59 gene for DEAD (Asp-Glu-Ala-Asp) box polypeptide 59, without stop codon, in Flexi system.
AM393451 - Synthetic construct Homo sapiens clone IMAGE:100002402 for hypothetical protein (DDX59 gene).
AM393546 - Synthetic construct Homo sapiens clone IMAGE:100002401 for hypothetical protein (DDX59 gene).
AK307569 - Homo sapiens cDNA, FLJ97517.
BC014183 - Homo sapiens DEAD (Asp-Glu-Ala-Asp) box polypeptide 59, mRNA (cDNA clone IMAGE:4622540), partial cds.
CU692036 - Synthetic construct Homo sapiens gateway clone IMAGE:100020948 5' read DDX59 mRNA.
JD406930 - Sequence 387954 from Patent EP1572962.
JD400555 - Sequence 381579 from Patent EP1572962.
JD541636 - Sequence 522660 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: AK299219, B7Z5N6, B7Z5N6_HUMAN, NM_001031725, NP_001026895
UCSC ID: uc010ppl.1
RefSeq Accession: NM_001031725
Protein: B7Z5N6

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: AK299219.1
exon count: 8CDS single in 3' UTR: no RNA size: 1976
ORF size: 1704CDS single in intron: no Alignment % ID: 99.95
txCdsPredict score: 2726.00frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.