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Aliases & Descriptions for DDX1
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc
, and/or 7Ensembl,
8miRBase) About This Section
|
| Aliases |
|---|
| DBP-RB 1, 2, 3 | | EC 3.6.1.- 3 | | OTTHUMP00000115711 2 | | UKVH5d 2 |
| | | Descriptions |
|---|
| DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 2 | | DEAD box polypeptide 1 2 | | DEAD box protein 1 3 | | DEAD box protein retinoblastoma 3 | | DEAD box-1 2 | | DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 1 1, 2 |
|
| | Search outside databases for aliases for DDX1 genePrevious GC identifers: GC02P015736 GC02P015753 |
Summaries for DDX1(According to Entrez Gene,
Wikipedia's
Gene Wiki,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
| EntrezGene summary for DDX1: 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 of unknown function. It shows high transcription levels in 2 retinoblastoma cell lines and in tissues of neuroectodermal origin. [provided by RefSeq] Gene Wiki entry for DDX1 |
Genomic Location for DDX1
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to
UCSC and
Ensembl,
Transcription factor binding sites according to
SABiosciences) About This Section
| Genomic View: UCSC Golden Path with GeneCards custom track
Transcription factor binding sites upstream to the DDX1 gene 
Entrez Gene cytogenetic band: 2p24 Ensembl cytogenetic band: 2p24.3 HGNC cytogenetic band: 2p24DDX1 Gene in genomic location: bands according to Ensembl, locations according to
(and/or Entrez Gene and/or Ensembl if different)
 GeneLoc gene densities for chromosome 2 GeneLoc Exon Structure GeneLoc location for GC02P015682:
(about GC identifiers)
Start:
|
15,648,753 bp from pter |
End:
|
15,688,676 bp from pter |
Size:
|
39,924 bases |
Orientation:
|
plus strand |
RefSeq DNA sequence:- NC_000002.10 NT_005334.15
| Proteins for DDX1
(According to
1UniProtKB,
and/or Ensembl,
Phosphorylation sites according to 2Phosphosite,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from Invitrogen,
Millipore,
Sigma-Aldrich,
R&D Systems,
Enzo Life Sciences,
Abnova,
OriGene and/or,
Abcam,
Biochemical Assays by
Invitrogen,
Millipore,
R&D Systems,
Cell Signaling Technology, and/or
Enzo Life Sciences,
Ontologies according to Gene
Ontology Consortium 01 Apr 2009 and
Entrez Gene,
Antibodies by Invitrogen,
Millipore,
Sigma-Aldrich,
R&D Systems,
Cell Signaling Technology,
Abcam,
Abnova, and/or
Novus Biologicals)
About This Section
| UniProtKB/Swiss-Prot: DDX1_HUMAN, Q92499 (See
protein sequence)Recommended Name: ATP-dependent RNA helicase DDX1 Size: 740 amino acids; 82432 DaPost-translational modifications:
View phosphorylation sites using PhosphoSite2
REFSEQ proteins: NP_004930.1
ENSEMBL proteins: ENSP00000233084 ENSP00000370745
Human Recombinant Proteins Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 
1 Gene Ontology (GO) cellular component term (links to tree view): | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0005575 | cellular_component |
ND | -- | About this table
Antibodies for DDX1: Assays for DDX1: | Protein
Domains/ Families for DDX1(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
| - Graphical View of Domain Structure for InterPro Entry Q92499
ProtoNet protein and cluster: Q92499 1 Blocks protein family: IPB000629 ATP-dependent helicase
UniProtKB/Swiss-Prot: DDX1_HUMAN, Q92499Similarity: Belongs to the DEAD box helicase family. DDX1 subfamilySimilarity: Contains 1 B30.2/SPRY domainSimilarity: Contains 1 helicase ATP-binding domainSimilarity: Contains 1 helicase C-terminal domain | Gene Function for DDX1
(According to MGI Jun 06 2009, UniProtKB,
IUBMB,and/or Genatlas,
shRNA from
OriGene,
Sigma-Aldrich, RNAi from
Sigma-Aldrich,
RNAi Products,
Clones, and
Q-PCR Products
from Invitrogen,
Millipore,
OriGene, and/or
Abnova,
siRNAs from
Applied Biosystems,
SYBR primers from OriGene,
Cell-based Assays from Millipore,
Ontologies according to Gene Ontology Consortium 01 Apr 2009 via
Entrez Gene.)
About This Section
|               OriGene 29mer shRNA kit in GFP-retroviral vector: NM_004939
Applied Biosystems Silencer® siRNAs for DDX1
Sigma-Aldrich siRNA for DDX1  Sigma-Aldrich shRNA Panels and shRNA for DDX1  Explore Sigma-Aldrich super-pooled esiRNAs 
              OriGene GFP tagged cDNA clone in CMV expression vector: NM_004939                                  Myc/DDK tagged cDNA clone in CMV expression vector: NM_004939                                  untagged cDNA clone in CMV expression vector: NM_004939 
Primers: Browse
Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers               OriGene genome-wide validated SYBR primer pairs: NM_004939
Genatlas biochemistry entry for DDX1:DEAD/H box protein 1,frequently amplified in retinoblastoma,neuroblastoma,small cell carcinoma of the lung,with poor prognosis5/7 Gene Ontology (GO) molecular function terms (links to tree view) (see all 7
): About this table | Pathways & Interactions for DDX1
(Pathways according to Invitrogen
(maps by GeneGo),
Millipore,
Cell Signaling Technology,
Sigma-Aldrich,
KEGG
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Proteins Network according to
SABiosciences,
Interactions according to 1UniProtKB,
2MINT, and/or
3STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Apr 2009 via
Entrez Gene.)
About This Section
| 1 Sigma-Aldrich "Your Favorite Gene" Pathway for DDX1 (Your Favorite Gene powered by Ingenuity) 
5/11 Interacting proteins for DDX1 (ENSP000003707453 Q924991, 2) via UniProtKB, MINT, and/or STRING (see all 11
)About this table
3 Gene Ontology (GO) biological process terms (links to tree view): About this table
|
Drugs & Compounds for DDX1(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
Sigma-Aldrich, Tocris Bioscience, and/or
Novoseek and Drugs according to
Enzo Life Sciences and/or
PharmGKB)
About This Section
|
Browse Tocris compounds for DDX1 1 Novoseek chemical compound relationship for DDX1 gene
| Compound |
Score |
Articles |
PubMed IDs for Articles with Shared Sentences (# sentences) |
| ornithine |
31.57 |
3 |
8622876 (2), 9516849 (1) |
About this table
|
Transcripts for DDX1(GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 219 Homo sapiens; Jun 2 2009) or GenBank, RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
non coding RNAs according to
RNAdb,
ESTs according to GeneTide,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from Invitrogen,
Millipore, and/or
Abnova,
siRNAs from Applied Biosystems,
Sigma-Aldrich,
shRNA from
Sigma-Aldrich,
OriGene,
Tagged/untagged cDNA clones from
OriGene, Expression Assays from Applied Biosystems) About This Section
|               OriGene 29mer shRNA kit in GFP-retroviral vector: NM_004939
Sigma-Aldrich siRNA for DDX1  Sigma-Aldrich shRNA Panels and shRNA for DDX1  Explore Sigma-Aldrich super-pooled esiRNAs 
Applied Biosystems Silencer® siRNAs: NM_004939 REFSEQ mRNAs for DDX1 gene: NM_004939.1
Applied Biosystems TaqMan ® Gene Expression Assays: NM_004939               OriGene GFP tagged cDNA clone in CMV expression vector: NM_004939                                  Myc/DDK tagged cDNA clone in CMV expression vector: NM_004939                                  untagged cDNA clone in CMV expression vector: NM_004939  Additional cDNA sequence: AB073360.1 AK297432.1 AK298212.1 AK298426.1 AK313933.1 BC012132.1 BC012739.2 BC053673.1 CR598216.1 EF418570.1 EF418571.1 X70649.1 19 DOTS entries: DT.216759 DT.97781891 DT.216760 DT.121033032 DT.121033071 DT.121032940 DT.92456116 DT.95370517 DT.100836226 DT.121032951 DT.92456115 DT.100661145 DT.100782941 DT.121032866 DT.121032966 DT.121032987 DT.86845309 DT.95283542 DT.97857850 24/613 AceView cDNA sequences (see all 613
):BQ887887 BQ068757 BF221694 BE778011 BQ431462 BQ900532 BQ071989 AU119158 CR598216 BM564810 BQ012281 AW239481 BM667077 N86125 BQ938706 BM459532 BQ926996 BQ892053 CF129875 CA951149 BM451829 BF001359 BI492047 BG434386
highest scoring ESTs for DDX1:X70649 AA044422 AA137212 AA173161 AA211413 AA232235 AA316093 AA365029 AA425687 AA573220 Unigene Cluster for DDX1: DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 Hs.440599 [show with all ESTs]Unigene Representative Sequence: NM_004939
GeneLoc Exon Structure
5/7 Alternative Splicing Database (ASD) splice patterns (SP) for DDX1 (see all 7
)
| ExUns: | 1 | ^ | 2a | · | 2b | · | 2c | ^ | 3 | ^ | 4 | ^ | 5 | ^ | 6 | ^ | 7 | ^ | 8 | ^ | 9 | ^ | 10 | ^ | 11 | ^ | 12 | ^ | 13 | ^ | 14 | ^ | 15 | ^ | 16a | · | 16b | ^ | 17 | ^ | 18 | ^ | 19a | · | 19b | ^ | 20 | ^ | 21a | · | 21b | ^ | |
| SP1: | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | - |   | |   | |   | - |   | |
| SP2: | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |
| SP3: | |   | - |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |
| SP4: | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |
| SP5: | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | - |   | |   | |   | |   |
| ExUns: | 22 | ^ | 23a | · | 23b | · | 23c | ^ | 24 | ^ | 25 | ^ | 26 | ^ | 27a | · | 27b | |
| SP1: | |   | - |   | |   | - |   | |   | |   | |   | |   | |   | |
| SP2: | |   | |   | |   | - |   | |   | |   | |   | |   | |   | |
| SP3: | |   | |   | |   | |   | |   | |   | |   | |   | |   | |
| SP4: | |   | |   | |   | |   | |   | |   | |   | |   | |   | |
| SP5: | |   | |   | |   | |   | |   | |   | |   | |   | |   |
About this scheme
ECgene alternative splicing isoforms for DDX1
2 Ensembl transcripts including schematic representations: ENST00000233084
ENST00000381341
|
Expression for DDX1
(Experimental results according to
1GeneNote
and GNF BioGPS,
probe sets-to-genes annotations according to
2GeneAnnot ,
3GeneTide ,
Sets of similar genes according to GeneDecks,
Electronic Northern calculations according to data from
UniGene (Build 219 Homo sapiens),
SAGE tags according to
CGAP,
plus additional links to
SOURCE, and/or
GNF
BioGPS, and/or
EXPOLDB, and/or
UniProtKB,
Expression Assays from
Applied Biosystems
)
About This Section
| DDX1 expression in normal and diseased human tissues
Applied Biosystems TaqMan ® Gene Expression Assays for DDX1
1 / 2 / 3 3 probe-sets matching DDX1 gene Data from
(Publications) and GNF BioGPS About these images About these images
CGAP SAGE TAG: TCAAGAAACA
SOURCE GeneReport for Unigene cluster: Hs.440599
Expression variation in blood from EXPOLDB for DDX1 UniProtKB/Swiss-Prot: DDX1_HUMAN, Q92499Tissue specificity: Highest levels of transcription in 2 retinoblastoma cell lines and in tissues of neuroectodermal origin including the retina, brain, and spinal cord |
Orthologs for DDX1
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
and/or
5MGI Jun 06 2009,
with possible further links to
Flybase
and/or
WormBase,
Gene Trees according to Ensembl)
About This Section
|
Orthologs for DDX1 gene from 5/15 species (see all 15
)
About this table Species with no ortholog for DDX1
ENSEMBL Gene Tree for DDX1 | Paralogs for DDX1(Paralogs according to 1HomoloGene and 2Ensembl, Pseudogenes according to 3Pseudogene.org) About This Section
| Paralogs for DDX1 gene
- DDX242 DDX512
|
SNPs/Variants for DDX1(According to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE, and
UniProtKB,
Linkage Disequilibrium by HapMap,
Genotyping Reagents from
Applied Biosystems)
About This Section
|
HapMap Linkage Disequilibrium images for DDX1 (up to first 250kb)
|
Disorders & Mutations for DDX1
(in which this Gene is Involved, According to
OMIM, UniProtKB,
Novoseek, PharmGKB,
Genatlas, GeneTests,
Blood group antigen gene mutations by BGMUT,
HGMD, GAD,
HuGE Navigator,
BCGD,
and/or TGDB.)
About This Section
|
OMIM: 601257
3 Novoseek disease relationships for DDX1 gene
About this table
Human Genome Epidemiology Navigator: DDX1 (1 document)
|
Medical News for DDX1(Possibly Related Articles in
Doctor's Guide)
About This Section
| -- |
Publications for DDX1 (in
PubMed.
Associations of this gene to articles via
1Novoseek,
2HGNC,
3Entrez Gene,
4UniProtKB/Swiss-Prot,
5UniProtKB/TrEMBL,
6GAD, and/or
7PharmGKB)
About This Section
| 10/50 PubMed articles for DDX1 gene (see all 50
):- The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)3, 4 Gerhard D.S....Malek J. (2004)
- Amplification of a DEAD box protein gene in retinoblastoma cell lines. (PubMed id 7689221)3, 4 Godbout R. and Squire J. (1993)
- D-E-A-D protein family of putative RNA helicases. (PubMed id 1552844)2, 3 Schmid S.R. and Linder P. (1992)
- Concomitant DDX1 and MYCN gain in neuroblastoma. (PubMed id 17611020)1, 3 Defferrari R....Mazzocco K. (2007)
- Relationship of DDX1 and NAG gene amplification/overexpression to the prognosis of patients with MYCN-amplified neuroblastoma. (PubMed id 17028906)1, 3 Kaneko S....Kaneko M. (2007)
- Association of human DEAD box protein DDX1 with a cleavage stimulation factor involved in 3'-end processing of pre-MRNA. (PubMed id 11598190)1, 3 Bleoo S....Godbout R. (2001)
- Expression of two dead box genes (DDX1 and DDX6) is independent of that of MYCN in human neuroblastoma cell lines. (PubMed id 10319407)1, 3 Akiyama K....Nishi Y. (1999)
- The RNA helicase DDX1 is involved in restricted HIV-1 Rev function in human astrocytes. (PubMed id 15892970)1, 3 Fang J....Pomerantz R.J. (2005)
- Alterations in the expression of DEAD-box and other RNA binding proteins during HIV-1 replication. (PubMed id 15588285)1, 3 Krishnan V. and Zeichner S.L. (2004)
- Coeliac disease associated risk variants in TNFAIP3 and REL implicate altered NF-{kappa}B signalling. (PubMed id 19240061)3 Trynka G....Wijmenga C. (2009)
|
Search for DDX1
(in PubMed,
OMIM, and NCBI Bookshelf) About This Section
|
|
Genome Databases showing DDX1
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
and/or
H-InvDB)
About This Section
|
| Other Databases showing DDX1
(According to HUGE)
About This Section
| -- |
Specialized Databases showing DDX1(According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL, Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot) About This Section
|
| About This Section
| --
| Services for DDX1(Reagents available from Applied Biosystems, Antibodies and assays by Cell
Signaling Technology, Abcam, Novus Biologicals, Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich, Enzo Life Sciences, and/or Tocris Bioscience) About This Section
| 
 Products for DDX1:

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Incremental update: 13 Oct 2009
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