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DDX6 Gene

protein-coding   GIFtS: 63

GC11M118125
DEAD (Asp-Glu-Ala-Asp) box polypeptide 6
(Previous names: DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 6 (RNA helicase, 54kD) )
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
(Previous symbol: HLR2)
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
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Aliases
EC 3.6.1.- 3
FLJ36338 2
HLR2 2, 3, 5
P54 2
RCK 1, 2, 3
Descriptions
ATP-dependent RNA helicase p54 3
DEAD (Asp-Glu-Ala-Asp) box polypeptide 6 2
DEAD box protein 6 3
DEAD box-6 2
DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 6 (RNA
helicase, 54kD) 1, 2
Oncogene RCK 3
External Ids
HGNC: 27471
Entrez Gene: 16562
UniProtKB: P261963
Ensembl: ENSG000001103677
Search outside databases for aliases for DDX6 gene

Previous GC identifers: GC11M120959 GC11M120132 GC11M118654 GC11M118160 GC11M118162

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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EntrezGene summary for DDX6:
This gene encodes a member of the DEAD box protein family. The protein is an RNA helicase found in
P-bodies and stress granules, and functions in translation suppression and mRNA degradation. It is
required for microRNA-induced gene silencing. [provided by RefSeq]

UniProtKB/Swiss-Prot: DDX6_HUMAN, P26196
Function: In the process of mRNA degradation, may play a role in mRNA decapping

Gene Wiki entry for DDX6

(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)
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Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the DDX6 gene  

Entrez Gene cytogenetic band: 11q23.3   Ensembl cytogenetic band:  11q23.3   HGNC cytogenetic band: 11q23.3

DDX6 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 11         GeneLoc Exon Structure

GeneLoc location for GC11M118125:     (about GC identifiers)

Start:
118,125,623 bp from pter
End:
118,167,082 bp from pter
Size:
41,460 bases
Orientation:
minus strand
RefSeq DNA sequence:
NC_000011.8  NT_033899.7  
(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)
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UniProtKB/Swiss-Prot: DDX6_HUMAN, P26196 (See protein sequence)
Recommended Name: Probable ATP-dependent RNA helicase DDX6  
Size: 483 amino acids; 54417 Da
Subunit: Forms a complex with DCP1A, DCP2, EDC3 and EDC4/HEDLS
Subcellular location: Cytoplasm, P-body. Note=Processing bodies (PB)
PDB structures from and Proteopedia :
1VEC (3D)    2WAX (3D)    2WAY (3D)    
Secondary accessions: Q5D048

Post-translational modifications:

  • Phosphorylated upon DNA damage, probably by ATM or ATR1
  • View phosphorylation sites using PhosphoSite2


  • REFSEQ proteins: NP_004388.2  

    ENSEMBL proteins: 
    ENSP00000264018 


    Human Recombinant Proteins 
    Browse Drug Discovery Central at Invitrogen for human recombinant proteins
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    Browse R&D Systems for human recombinant proteins
    Browse recombinant and purified proteins available from Enzo Life Sciences
    Recombinant Proteins from Abcam (DDX6)
    Human Recombinant Proteins from Abnova (DDX6)
                  OriGene Purified Recombinant Human Protein: DDX6 

    2 Gene Ontology (GO) cellular component terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005737 cytoplasm IEA--
    GO:0010494 stress granule IDA17392519
    About this table

    Antibodies for DDX6: 
    Browse Antibodies Central at Invitrogen
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    Sigma-Aldrich Antibodies for DDX6
    Browse R&D Systems for Antibodies
    Antibodies from Abcam (DDX6), each with their AbpromiseSM
    Monoclonal and Polyclonal Antibodies from Abnova (DDX6)
    Novus Biologicals Antibodies for DDX6

    Assays for DDX6: 
    Browse Invitrogen for biochemical assays
    Browse Kits and Assays available from Millipore
    Browse R&D Systems for biochemical assays
    Browse biochemical assays available from Enzo Life Sciences

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    5/6 InterPro domains/families (see all 6 ):
     IPR011545 DNA/RNA_helicase_DEAD/DEAH_N
     IPR000629 RNA-helicase_DEAD-box_CS
     IPR014014 RNA_helicase_DEAD_Q_motif
     IPR014001 DEAD-like_N
     IPR001650 DNA/RNA_helicase_C


       GeneDecks  DDX6 for the domains selected above  
    About GeneDecksing

    Graphical View of Domain Structure for InterPro Entry P26196

    ProtoNet protein and cluster: P26196

    1 Blocks protein family: IPB000629 ATP-dependent helicase

    UniProtKB/Swiss-Prot: DDX6_HUMAN, P26196
    Similarity: Belongs to the DEAD box helicase family. DDX6/DHH1 subfamily
    Similarity: Contains 1 helicase ATP-binding domain
    Similarity: Contains 1 helicase C-terminal domain

    (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

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (DDX6)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (DDX6)
                  OriGene 29mer shRNA kit in GFP-retroviral vector: NM_004397

                  Applied Biosystems Silencer® siRNAs for DDX6

                  Sigma-Aldrich siRNA for DDX6  
                         Sigma-Aldrich shRNA Panels and shRNA for DDX6  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Clones:Invitrogen Clones for DDX6
    Browse Clones for the Expression of Recombinant Proteins Available from Millipore
                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_004397
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_004397
                                     untagged cDNA clones in CMV expression vector (see all 2): NM_004397 

    Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
                  OriGene genome-wide validated SYBR primer pairs: NM_004397

    UniProtKB/Swiss-Prot: DDX6_HUMAN, P26196
    Function: In the process of mRNA degradation, may play a role in mRNA decapping
    Enzyme Number (IUBMB): EC 3.6.1.- 

    Genatlas biochemistry entry for DDX6:
    DEAD/H box protein 6,proliferation associated nuclear antigen p68,with homology to Drosophila
    oocyte specific helicase ME31,overexpressed in colorectal adenocarcinomas

    5/7 Gene Ontology (GO) molecular function terms (links to tree view) (see all 7 ):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000166 nucleotide binding IEA--
    GO:0003723 RNA binding IEA--
    GO:0003724 RNA helicase activity TAS1579499
    GO:0005515 protein binding IPI17392519
    GO:0005524 ATP binding IEA--
    About this table

    (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


    2 Sigma-Aldrich "Your Favorite Gene" Pathways for  DDX6  (Your Favorite Gene powered by Ingenuity) 
     Folate Biosynthesis
     Starch and Sucrose Metabolism

       GeneDecks  DDX6 for the pathways selected above  
    About GeneDecksing

     Gene Network CentralTM Interacting Genes and Proteins Network for  DDX6 


    5/10 Interacting proteins for DDX6 (P261961 ENSP000002640183) via UniProtKB, MINT, and/or STRING (see all 10 )
    InteractantInteraction Details
    GeneCardExternal ID(s)
    EDC3Q96F861, ENSP000003205033EBI-351257, EBI-997311 STRING (score=.975)
    DCP1AQ9NPI61, ENSP000002942413EBI-351257, EBI-374238 STRING (score=.974)
    POLR1EQ9GZS11EBI-351257, EBI-359458
    YWHAQP273481EBI-351257, EBI-359854
    ATXN2ENSP000003668433STRING (score=.92)
    About this table
    (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 drugs & compounds from Enzo Life Sciences
    Browse Small Molecules at Sigma-Aldrich

    Browse Tocris compounds for DDX6

    (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

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (DDX6)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (DDX6)
                  OriGene 29mer shRNA kit in GFP-retroviral vector: NM_004397

                  Sigma-Aldrich siRNA for DDX6  
                         Sigma-Aldrich shRNA Panels and shRNA for DDX6  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Applied Biosystems Silencer® siRNAs: 

    NM_004397  

    REFSEQ mRNAs for DDX6 gene: 

    NM_004397.4   

    Applied Biosystems TaqMan ® Gene Expression Assays: 

    NM_004397  

                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_004397
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_004397
                                     untagged cDNA clones in CMV expression vector (see all 2): NM_004397 

    Additional cDNA sequence: 

    AK093657.1 AK313244.1 BC026228.1 BC039826.1 BC065007.1 D17532.1 Z11685.1 

    12 DOTS entries:

    DT.308523  DT.114770  DT.120746679  DT.99982967  DT.440336  DT.100745112  DT.95271131  DT.95357307 
    DT.91696854  DT.100810839  DT.40268466  DT.91838654 

    24/181 AceView cDNA sequences (see all 181 ):

    W48640 W03083 AI539409 AU118867 BM696691 BM728565 BM720697 BQ707967 
    BM716423 BQ017952 BM972001 BM013673 BQ438803 CA423151 CD000872 BP362051 
    AA865492 BE218820 W51956 BP355911 BG259835 AW149702 AI566453 Z11685 

    highest scoring ESTs for DDX6:

    D17532 AL697132 BC026228 BE242871 BG546189 BI601100 BM012472 BM905603 CF137516 AA523483 

    Unigene Cluster for DDX6:

    DEAD (Asp-Glu-Ala-Asp) box polypeptide 6
    Hs.654366  [show with all ESTs]
    Unigene Representative Sequence: NM_004397


    GeneLoc Exon Structure

    5/7 Alternative Splicing Database (ASD) splice patterns (SP) for DDX6 (see all 7 )

    ExUns: 1 ^ 2a · 2b ^ 3a · 3b · 3c ^ 4a · 4b ^ 5a · 5b · 5c ^ 6 ^ 7a · 7b · 7c ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16
    SP1:                    -     -     -           -     -                                   -                                                         
    SP2:        -     -     -     -     -           -     -                                                                                             
    SP3:                                                                                                                                                
    SP4:                    -     -     -           -     -     -     -     -                                                                           
    SP5:                                -           -     -                                                                                             

    About this scheme

    ECgene alternative splicing isoforms for DDX6

    1 Ensembl transcript including schematic representation:
    ENST00000264018  
    (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

    DDX6 expression in normal and diseased human tissues

     Applied Biosystems TaqMan ® Gene Expression Assays for DDX6

    1 / 2 / 3

    8 probe-sets matching DDX6 gene


    Affymetrix
    probe-set
    Array  GeneAnnot data GeneNote data GeneTide data
    # genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank

    52993_at2 U95-B 1 1.00 1.00 0.66 1.68 -- -- -- -- --

    36283_at2, 3 U95-A 1 1.00 1.00 0.89 0.46 D17532 1.00 1.00 1.00 1
    70792_at2, 3 U95-E 2 1.00 0.97 0.54 1.28 AI351662 0.20 1.00 0.72 1

    79233_at*2, 3 U95-D 1 -- -- 0.26 0.66 R95094 0.40 1.00 0.76 1

    225549_at2 U133-B 1 1.00 1.00 -- -- -- -- -- -- --

    204909_at2, 3 U133-A 1 1.00 1.00 -- -- NM_004397 0.60 1.00 0.82 1

    225549_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

    204909_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
    GeneDecks  DDX6 for binary patterns associated with the probe-sets selected above  
    About GeneDecksing
    About this table    
    Data from (Publications) and GNF BioGPS
        About these images
    About these images

    CGAP SAGE TAG: AGGTCAGAGG

    SOURCE GeneReport for Unigene cluster: Hs.654366

    Expression variation in blood from EXPOLDB for DDX6

    UniProtKB/Swiss-Prot: DDX6_HUMAN, P26196
    Tissue specificity: Abundantly expressed in most tissues

    (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 DDX6 gene from 5/28 species (see all 28 )
    Organism Gene Locus Description Human
    Similarity
    NCBI accessions
    dog
    (Canis familiaris)
    DDX61   -- DEAD (Asp-Glu-Ala-Asp) box polypeptide 6 97.95(n)
    99.79(a)
    479414  XM_536551.2  XP_536551.1 
    chimpanzee
    (Pan troglodytes)
    DDX61   -- DEAD (Asp-Glu-Ala-Asp) box polypeptide 6 100(n)
    100(a)
    451594  XM_508798.2  XP_508798.2 
    cow
    (Bos taurus)
    DDX61   -- DEAD (Asp-Glu-Ala-Asp) box polypeptide 6 97.95(n)
    99.79(a)
    513906  XM_591668.3  XP_591668.2 
    rat
    (Rattus norvegicus)
    RGD15645601   -- similar to RCK 94.49(n)
    98.09(a)
    500988  XM_576400.2  XP_576400.1 
    mouse
    (Mus musculus)
    Ddx61, 5 9 (26.00 cM)5
    DEAD (Asp-Glu-Ala-Asp) box polypeptide 61, 5 93.5(n)1
    97.67(a)1
    132091  NM_007841.31  NP_031867.11 
     AF0389955  AK0032655  (see all 14)
    About this table        Species with no ortholog for DDX6

    ENSEMBL Gene Tree for DDX6
    (Paralogs according to 1HomoloGene
    and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
    About This Section

    Pseudogenes
    1 related pseudogene


    (According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
    About This Section


    10/345 NCBI SNPs in DDX6 are shown (see all 345 )
    (Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 70)
    ABGenomic DataTranscription DataAllele Frequencies
    SNP IDValidChr 11 posSequenceRecsAA
    Chg
    TypeMoreRecsAllele
    freq
    PopTotal
    sample
    More
    ------------
    rs6401201,2
    A,C,F,H118124047(-) TTGTGG/TGGGAA 1 -- ut315Minor allele frequency- T:0.09MN EU EA WA 588
    --
    rs20775791,2
    A,C,F,H118124257(+) ATGAGT/GTTTTA 1 -- ut318Minor allele frequency- G:0.12EU EA WA NA 2032
    --
    rs19611381,2
    A,C,F,H118124633(-) CCCCAA/GAAGGG 1 -- ut318Minor allele frequency- G:0.14MN EU EA WA NA 730
    --
    rs4877281,2
    A,C,F,H118126705(+) TAAATC/GTTGAA 1 -- ut318Minor allele frequency- G:0.34EA NA MN EU WA 658
    --
    rs4882191,2
    A,C,F,H118125907(-) ATCCTA/GCAGAT 1 -- ut31 ese39Minor allele frequency- G:0.42MN EU EA WA NA 959
    --
    rs38892391,2
    A,C,F118125170(-) TTCCAG/ATGGCT 1 -- ut313Minor allele frequency- A:0.16NA 142
    --
    rs10480241,2
    A,C,F118123986(-) AAAAAT/ATATTT 1 -- ut311Minor allele frequency- A:0.22MN 184
    --
    rs4859011,2
    A,C118127455(+) AATAAA/GAAGAC 1 -- ut31 ese30--------
    --
    rs37413281,2
    F,H118124036(-) GGGGAG/ACCTGG 1 -- ut315Minor allele frequency- A:0.06EA EU WA 1922
    --
    rs10480401,2
    C,F118123828(-) TGGGGG/CGGGGG 1 -- ut312Minor allele frequency- C:0.29MN 368
    About this table

    HapMap Linkage Disequilibrium images for DDX6 (up to first 250kb)

    (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: 600326

    UniProtKB/Swiss-Prot: DDX6_HUMAN, P26196
  • A chromosomal aberration involving DDX6 may be a cause of hematopoietic tumors such as
    B-cell lymphomas. Translocation t(11;14)(q23;q32)
  • 1 Novoseek disease relationship for DDX6 gene

    Disease   Score   Articles   PubMed IDs for Articles with Shared Sentences (# sentences)
    lymphoma b-cell 71.23 7 12823589 (2), 10360675 (1), 8108133 (1), 14684915 (1) (see all 6)
    About this table

    (Possibly Related Articles in Doctor's Guide)
    About This Section

      --

    (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

    10/30 PubMed articles for DDX6 gene (see all 30 ):
    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section

     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)
    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, and/or H-InvDB)
    About This Section

    Entrez Gene: 1656 HGNC: 2747 AceView: DDX6 Ensembl:ENSG00000110367 euGenes: HUgn1656
    ECgene: DDX6 H-InvDB: DDX6
    (According to HUGE)
    About This Section

      --
    (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

    NameDescription
    ATLAS Chromosomes in Cancer entry for DDX6 Genetics and Cytogenetics in Oncology and Haematology
    (Available from WIS Yeda, Salk, Tufts)
    About This Section

      --
    (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 DDX6:
     TaqMan ® Gene Expression Assays
     TaqMan ® Genotyping Assays
      Free SNP selection tool



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     Predesigned and custom siRNAs for DDX6 Antibodies for DDX6
     Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
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     Search Tocris compounds for DDX6




     Search www.enzolifesicences.com for proteins, assays, substrates, inhibitors & antibodies
     Antibodies for DDX6

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