Human Gene DDX17 (uc003avy.4) Description and Page Index
  Description: Homo sapiens DEAD (Asp-Glu-Ala-Asp) box helicase 17 (DDX17), transcript variant 3, mRNA.
RefSeq Summary (NM_001098504): 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 splicesosome 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 ATPase activated by a variety of RNA species, but not by dsDNA. This protein, and that encoded by DDX5 gene, are more closely related to each other than to any other member of the DEAD box family. This gene can encode multiple isoforms due to both alternative splicing and the use of alternative translation initiation codons, including a non-AUG (CUG) start codon. [provided by RefSeq, Apr 2011].
Transcript (Including UTRs)
   Position: hg19 chr22:38,879,443-38,902,345 Size: 22,903 Total Exon Count: 13 Strand: -
Coding Region
   Position: hg19 chr22:38,881,940-38,902,242 Size: 20,303 Coding Exon Count: 13 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesmRNA DescriptionsOther Names
Model InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr22:38,879,443-38,902,345)mRNA (may differ from genome)Protein (731 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
OMIMPubMedStanford SOURCETreefamUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: H3BLZ8_HUMAN
DESCRIPTION: SubName: Full=Probable ATP-dependent RNA helicase DDX17;
SIMILARITY: Belongs to the DEAD box helicase family.
CAUTION: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered as preliminary data.

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  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: 157.45 RPKM in Ovary
Total median expression: 3665.33 RPKM



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

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -44.70103-0.434 Picture PostScript Text
3' UTR -694.002497-0.278 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
IPR000629 - RNA-helicase_DEAD-box_CS
IPR014014 - RNA_helicase_DEAD_Q_motif

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

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

ModBase Predicted Comparative 3D Structure on H3BLZ8
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    

-  Descriptions from all associated GenBank mRNAs
  KJ902119 - Synthetic construct Homo sapiens clone ccsbBroadEn_11513 DDX17 gene, encodes complete protein.
AL080113 - Homo sapiens mRNA; cDNA DKFZp586K2322 (from clone DKFZp586K2322).
AB209595 - Homo sapiens mRNA for DEAD box polypeptide 17 isoform p82 variant protein.
BC045747 - Homo sapiens cDNA clone IMAGE:5264473.
BC029553 - Homo sapiens cDNA clone IMAGE:5263091.
JD022625 - Sequence 3649 from Patent EP1572962.
JD033975 - Sequence 14999 from Patent EP1572962.
JD021407 - Sequence 2431 from Patent EP1572962.
JD035671 - Sequence 16695 from Patent EP1572962.
AF131750 - Homo sapiens clone 25244 DEAD-box protein p72 mRNA sequence, complete cds.
AL713763 - Homo sapiens mRNA; cDNA DKFZp761H2016 (from clone DKFZp761H2016).
BC000595 - Homo sapiens DEAD (Asp-Glu-Ala-Asp) box polypeptide 17, mRNA (cDNA clone MGC:2030 IMAGE:3345982), complete cds.
AK024985 - Homo sapiens cDNA: FLJ21332 fis, clone COL02523, highly similar to HSU59321 Human DEAD-box protein p72 (P72) mRNA.
AK074224 - Homo sapiens cDNA FLJ23644 fis, clone COL02530, highly similar to PROBABLE RNA-DEPENDENT HELICASE P72.
CR456432 - Homo sapiens DDX17 full length open reading frame (ORF) cDNA clone (cDNA clone C22ORF:pGEM.DDX17).
U59321 - Human DEAD-box protein p72 (P72) mRNA, complete cds.
JD324152 - Sequence 305176 from Patent EP1572962.
JD305119 - Sequence 286143 from Patent EP1572962.
CU012992 - Homo sapiens DDX17, mRNA (cDNA clone IMAGE:100000154), complete cds, with stop codon, in Gateway system.
AB463004 - Synthetic construct DNA, clone: pF1KB4783, Homo sapiens DDX17 gene for DEAD (Asp-Glu-Ala-Asp) box polypeptide 17, without stop codon, in Flexi system.
CU013280 - Homo sapiens DDX17, mRNA (cDNA clone IMAGE:100000058), complete cds, without stop codon, in Gateway system.
DL492533 - Novel nucleic acids.
DL491002 - Novel nucleic acids.
JD512189 - Sequence 493213 from Patent EP1572962.
JD197428 - Sequence 178452 from Patent EP1572962.
JD442401 - Sequence 423425 from Patent EP1572962.
JD459653 - Sequence 440677 from Patent EP1572962.
JD539315 - Sequence 520339 from Patent EP1572962.
AK303049 - Homo sapiens cDNA FLJ58652 complete cds, highly similar to Probable ATP-dependent RNA helicase DDX17 (EC 3.6.1.-).
CU674288 - Synthetic construct Homo sapiens gateway clone IMAGE:100017756 5' read DDX17 mRNA.
JD191256 - Sequence 172280 from Patent EP1572962.
JD382256 - Sequence 363280 from Patent EP1572962.
JD179926 - Sequence 160950 from Patent EP1572962.
JD256359 - Sequence 237383 from Patent EP1572962.
JD173599 - Sequence 154623 from Patent EP1572962.
JD137829 - Sequence 118853 from Patent EP1572962.
JD551317 - Sequence 532341 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: H3BLZ8, H3BLZ8_HUMAN, NM_001098504, NP_001091974
UCSC ID: uc003avy.4
RefSeq Accession: NM_001098504
Protein: H3BLZ8 CCDS: CCDS33646.1, CCDS46706.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001098504.1
exon count: 13CDS single in 3' UTR: no RNA size: 4811
ORF size: 2196CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 4118.00frame shift in genome: no % Coverage: 99.69
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.