Human Gene DDX18 (uc002tlh.1)
  Description: Homo sapiens DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 (DDX18), mRNA.
RefSeq Summary (NM_006773): 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, and it is activated by Myc protein. [provided by RefSeq, Jul 2008].
Transcript (Including UTRs)
   Position: hg19 chr2:118,572,255-118,589,953 Size: 17,699 Total Exon Count: 14 Strand: +
Coding Region
   Position: hg19 chr2:118,572,354-118,588,300 Size: 15,947 Coding Exon Count: 14 

Page IndexSequence and LinksUniProtKB CommentsPrimersGenetic AssociationsCTD
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 (chr2:118,572,255-118,589,953)mRNA (may differ from genome)Protein (670 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedTreefamUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: DDX18_HUMAN
DESCRIPTION: RecName: Full=ATP-dependent RNA helicase DDX18; EC=3.6.4.13; AltName: Full=DEAD box protein 18; AltName: Full=Myc-regulated DEAD box protein; Short=MrDb;
FUNCTION: Probable RNA-dependent helicase.
CATALYTIC ACTIVITY: ATP + H(2)O = ADP + phosphate.
SUBUNIT: Interacts with NOL8; the interaction is RNA-dependent.
SUBCELLULAR LOCATION: Nucleus, nucleolus.
SIMILARITY: Belongs to the DEAD box helicase family. DDX18/HAS1 subfamily.
SIMILARITY: Contains 1 helicase ATP-binding domain.
SIMILARITY: Contains 1 helicase C-terminal domain.
SEQUENCE CAUTION: Sequence=CAA67295.1; Type=Erroneous initiation;

-  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): DDX18
CDC HuGE Published Literature: DDX18

-  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: 42.65 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 738.35 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 -36.2099-0.366 Picture PostScript Text
3' UTR -409.251653-0.248 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
IPR025313 - DUF4217
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
PF13959 - Domain of unknown function (DUF4217)

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

Protein Data Bank (PDB) 3-D Structure
MuPIT help
3LY5 - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q9NVP1
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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 BrowserGenome BrowserGenome BrowserGenome BrowserGenome Browser
Gene DetailsGene Details Gene DetailsGene DetailsGene Details
Gene SorterGene Sorter Gene SorterGene SorterGene Sorter
 RGDEnsemblFlyBaseWormBaseSGD
 Protein SequenceProtein SequenceProtein SequenceProtein SequenceProtein Sequence
 AlignmentAlignmentAlignmentAlignmentAlignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0003676 nucleic acid binding
GO:0003723 RNA binding
GO:0004004 ATP-dependent RNA helicase activity
GO:0004386 helicase activity
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0016787 hydrolase activity

Biological Process:
GO:0010501 RNA secondary structure unwinding
GO:0071392 cellular response to estradiol stimulus

Cellular Component:
GO:0005634 nucleus
GO:0005694 chromosome
GO:0005730 nucleolus
GO:0005737 cytoplasm
GO:0016020 membrane


-  Descriptions from all associated GenBank mRNAs
  LF205329 - JP 2014500723-A/12832: Polycomb-Associated Non-Coding RNAs.
BC024739 - Homo sapiens DEAD (Asp-Glu-Ala-Asp) box polypeptide 18, mRNA (cDNA clone MGC:29902 IMAGE:4995871), complete cds.
AK001467 - Homo sapiens cDNA FLJ10605 fis, clone NT2RP2005126, highly similar to H.sapiens mRNA for RNA helicase.
JD307585 - Sequence 288609 from Patent EP1572962.
BC003360 - Homo sapiens DEAD (Asp-Glu-Ala-Asp) box polypeptide 18, mRNA (cDNA clone MGC:5316 IMAGE:2900252), complete cds.
BC001238 - Homo sapiens DEAD (Asp-Glu-Ala-Asp) box polypeptide 18, mRNA (cDNA clone MGC:4933 IMAGE:3452935), complete cds.
LF319362 - JP 2014500723-A/126865: Polycomb-Associated Non-Coding RNAs.
KJ897930 - Synthetic construct Homo sapiens clone ccsbBroadEn_07324 DDX18 gene, encodes complete protein.
X98743 - H.sapiens mRNA for RNA helicase (Myc-regulated dead box protein).
CR457060 - Homo sapiens full open reading frame cDNA clone RZPDo834G0414D for gene DDX18, DEAD (Asp-Glu-Ala-Asp) box polypeptide 18; complete cds, incl. stopcodon.
LF319358 - JP 2014500723-A/126861: Polycomb-Associated Non-Coding RNAs.
LF319357 - JP 2014500723-A/126860: Polycomb-Associated Non-Coding RNAs.
LF319355 - JP 2014500723-A/126858: Polycomb-Associated Non-Coding RNAs.
AK091227 - Homo sapiens cDNA FLJ33908 fis, clone CTONG2008518, highly similar to DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 18.
LF319354 - JP 2014500723-A/126857: Polycomb-Associated Non-Coding RNAs.
LF319232 - JP 2014500723-A/126735: Polycomb-Associated Non-Coding RNAs.
LF319353 - JP 2014500723-A/126856: Polycomb-Associated Non-Coding RNAs.
AB209392 - Homo sapiens mRNA for Hypothetical protein FLJ33908 variant protein.
LF319351 - JP 2014500723-A/126854: Polycomb-Associated Non-Coding RNAs.
LF319350 - JP 2014500723-A/126853: Polycomb-Associated Non-Coding RNAs.
LF319349 - JP 2014500723-A/126852: Polycomb-Associated Non-Coding RNAs.
LF319346 - JP 2014500723-A/126849: Polycomb-Associated Non-Coding RNAs.
LF319344 - JP 2014500723-A/126847: Polycomb-Associated Non-Coding RNAs.
JD327453 - Sequence 308477 from Patent EP1572962.
JD082489 - Sequence 63513 from Patent EP1572962.
BX538334 - Homo sapiens mRNA; cDNA DKFZp686O01204 (from clone DKFZp686O01204).
JD566298 - Sequence 547322 from Patent EP1572962.
JD508840 - Sequence 489864 from Patent EP1572962.
JD254514 - Sequence 235538 from Patent EP1572962.
MA440906 - JP 2018138019-A/12832: Polycomb-Associated Non-Coding RNAs.
MA554939 - JP 2018138019-A/126865: Polycomb-Associated Non-Coding RNAs.
MA554935 - JP 2018138019-A/126861: Polycomb-Associated Non-Coding RNAs.
MA554934 - JP 2018138019-A/126860: Polycomb-Associated Non-Coding RNAs.
MA554932 - JP 2018138019-A/126858: Polycomb-Associated Non-Coding RNAs.
MA554931 - JP 2018138019-A/126857: Polycomb-Associated Non-Coding RNAs.
MA554809 - JP 2018138019-A/126735: Polycomb-Associated Non-Coding RNAs.
MA554930 - JP 2018138019-A/126856: Polycomb-Associated Non-Coding RNAs.
MA554928 - JP 2018138019-A/126854: Polycomb-Associated Non-Coding RNAs.
MA554927 - JP 2018138019-A/126853: Polycomb-Associated Non-Coding RNAs.
MA554926 - JP 2018138019-A/126852: Polycomb-Associated Non-Coding RNAs.
MA554923 - JP 2018138019-A/126849: Polycomb-Associated Non-Coding RNAs.
MA554921 - JP 2018138019-A/126847: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: DDX18_HUMAN, NM_006773, NP_006764, Q6GTZ9, Q6IAU4, Q92732, Q9BQB7, Q9NVP1
UCSC ID: uc002tlh.1
RefSeq Accession: NM_006773
Protein: Q9NVP1 (aka DDX18_HUMAN or DD18_HUMAN)
CCDS: CCDS2120.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_006773.3
exon count: 14CDS single in 3' UTR: no RNA size: 3790
ORF size: 2013CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 3325.00frame shift in genome: no % Coverage: 99.34
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.