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EDC4 Gene

protein-coding   GIFtS: 49

GC16P066465
enhancer of mRNA decapping 4
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
About This Section

Aliases
Ge-1 1, 2
HEDLS 1, 2, 3
Hedls 3
RCD-8 1, 2
autoantigen 2
Descriptions
Autoantigen Ge-1 3
Autoantigen RCD-8 3
Human enhancer of decapping large subunit 3
autoantigen RCD8 2
enhancer of mRNA decapping 4 2
External Ids
HGNC: 171571
Entrez Gene: 236442
UniProtKB: Q6P2E93
Ensembl: ENSG000000383587
Search outside databases for aliases for EDC4 gene

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

UniProtKB/Swiss-Prot: EDC4_HUMAN, Q6P2E9
Function: In the process of mRNA degradation, seems to play a role in mRNA decapping. Component of
a complex containing DCP2 and DCP1A which functions in decapping of ARE-containing mRNAs. Promotes
complex formation between DCP1A and DCP2. Enhances the catalytic activity of DCP2 (in vitro)

(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 EDC4 gene  

Entrez Gene cytogenetic band: 16q22.1   Ensembl cytogenetic band:  16q22.1   HGNC cytogenetic band: 16q22.1

EDC4 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 16         GeneLoc Exon Structure

GeneLoc location for GC16P066465:     (about GC identifiers)

Start:
66,464,456 bp from pter
End:
66,475,907 bp from pter
Size:
11,452 bases
Orientation:
plus strand
RefSeq DNA sequence:
NC_000016.8  NT_010498.15  
(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: EDC4_HUMAN, Q6P2E9 (See protein sequence)
Recommended Name: Enhancer of mRNA-decapping protein 4  
Size: 1401 amino acids; 151661 Da
Subunit: Part of a decapping complex consisting of DCP1A, DCP2, EDC3, EDC4 and probably DDX6. Part
of a complex consisting of DCP1A, EDC3, EDC4 and DDX6. Part of a complex consisting of DCP1B,
EDC3, EDC4 and DDX6. Interacts with DCP2
Subcellular location: Cytoplasm, P-body. Nucleus
Sequence caution: Sequence=AAA21833.1; Type=Frameshift; Positions=1189;
Secondary accessions: A6NGM1 Q13025 Q13826 Q6ZR12 Q7Z6H7
Alternative splicing: 2 isoforms:  Q6P2E9-1   Q6P2E9-2   

Post-translational modifications:

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


  • REFSEQ proteins: NP_055144.3  

    ENSEMBL proteins: 
    ENSP00000384736 ENSP00000041337 ENSP00000351811 


    Human Recombinant Proteins 
    Browse Drug Discovery Central at Invitrogen for human recombinant proteins
    Browse Purified and Recombinant Proteins at Millipore
    Browse Human Recombinant Proteins at Sigma-Aldrich  
    Browse R&D Systems for human recombinant proteins
    Browse recombinant and purified proteins available from Enzo Life Sciences
    Recombinant Proteins from Abcam (EDC4)
    Human Recombinant Proteins from Abnova (EDC4)
                    Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634 nucleus IDA7520377
    GO:0005737 cytoplasm TAS9067524
    About this table

    Antibodies for EDC4: 
    Browse Antibodies Central at Invitrogen
    Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
    Browse Antibodies at Sigma-Aldrich
    Browse R&D Systems for Antibodies
    Antibodies from Abcam (EDC4), each with their AbpromiseSM
    Monoclonal and Polyclonal Antibodies from Abnova (EDC4)
    Novus Biologicals Antibodies for EDC4

    Assays for EDC4: 
    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 ):
     IPR019782 WD40_repeat_2
     IPR019775 WD40_repeat_CS
     IPR001680 WD40_repeat
     IPR017986 WD40_repeat_region
     IPR015943 WD40/YVTN_repeat-like


       GeneDecks  EDC4 for the domains selected above  
    About GeneDecksing

    Graphical View of Domain Structure for InterPro Entry Q6P2E9

    ProtoNet protein and cluster: Q6P2E9

    UniProtKB/Swiss-Prot: EDC4_HUMAN, Q6P2E9
    Similarity: Belongs to the WD repeat EDC4 family
    Similarity: Contains 4 WD repeats

    (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 (EDC4)
    Browse for Gene Knock-down Tools from Millipore
    Browse Abnova for Chimera RNAi Products
                  OriGene 29mer shRNA kit in GFP-retroviral vector: NM_014329

                  Applied Biosystems Silencer® siRNAs for EDC4

                  Sigma-Aldrich siRNA for EDC4  
                         Sigma-Aldrich shRNA for EDC4  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Clones:Invitrogen Clones for EDC4
    Browse Clones for the Expression of Recombinant Proteins Available from Millipore
                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_014329
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_014329
                                     untagged cDNA clone in CMV expression vector: NM_014329 

    Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
                  OriGene genome-wide validated SYBR primer pairs: NM_014329

    UniProtKB/Swiss-Prot: EDC4_HUMAN, Q6P2E9
    Function: In the process of mRNA degradation, seems to play a role in mRNA decapping. Component of
    a complex containing DCP2 and DCP1A which functions in decapping of ARE-containing mRNAs. Promotes
    complex formation between DCP1A and DCP2. Enhances the catalytic activity of DCP2 (in vitro)

    2 Gene Ontology (GO) molecular function terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003674 molecular_function ND--
    GO:0005515 protein binding IPI15231747 16364915
    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


     Gene Network CentralTM Interacting Genes and Proteins Network for  EDC4 


    5/7 Interacting proteins for EDC4 (Q6P2E91 ENSP000003518113) via UniProtKB, MINT, and/or STRING (see all 7 )
    InteractantInteraction Details
    GeneCardExternal ID(s)
    DCP2Q8IU601, ENSP000003737153EBI-1006038, EBI-521577 STRING (score=.974)
    DCP1AENSP000002942413STRING (score=.977)
    EDC3ENSP000003205033STRING (score=.972)
    UPF1ENSP000002628033STRING (score=.897)
    DCPSENSP000002635793STRING (score=.882)
    About this table

    1 Gene Ontology (GO) biological process term (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0008150 biological_process ND--
    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 EDC4

    (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 (EDC4)
    Browse for Gene Knock-down Tools from Millipore
    Browse Abnova for Chimera RNAi Products
                  OriGene 29mer shRNA kit in GFP-retroviral vector: NM_014329

                  Sigma-Aldrich siRNA for EDC4  
                         Sigma-Aldrich shRNA for EDC4  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Applied Biosystems Silencer® siRNAs: 

    NM_014329  

    REFSEQ mRNAs for EDC4 gene: 

    NM_014329.3   

    Applied Biosystems TaqMan ® Gene Expression Assays: 

    NM_014329  

                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_014329
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_014329
                                     untagged cDNA clone in CMV expression vector: NM_014329 

    Additional cDNA sequence: 

    AK291049.1 AK302563.1 BC043616.1 BC053598.1 BC064567.1 CR594351.1 CR601781.1 CR618363.1 
    L26339.1 U17474.1 U93216.1 

    16 DOTS entries:

    DT.116400  DT.100790256  DT.92018122  DT.101984176  DT.95376211  DT.95376217  DT.95376220  DT.95137068 
    DT.100643826  DT.100790246  DT.120715923  DT.75189749  DT.95334997  DT.95348035  DT.95376219  DT.97854601 

    24/250 AceView cDNA sequences (see all 250 ):

    BM464234 AY358782 CR618363 NM_198443 BE296550 BQ226185 BC064567 BX377983 
    BC053598 BF432145 BM454289 BP373142 BU181407 BQ955297 CR594351 CA392332 
    Z41467 BQ002387 AA581635 BQ223036 BE933369 AL547368 BE350088 CA309930 

    highest scoring ESTs for EDC4:

    L26339 AA149177 AA328981 AA469056 AA481276 AA554047 AA582014 AA622610 AA694492 AA705074 

    Unigene Cluster for EDC4:

    Enhancer of mRNA decapping 4
    Hs.75682  [show with all ESTs]
    Unigene Representative Sequence: NM_014329


    GeneLoc Exon Structure

    5/23 Alternative Splicing Database (ASD) splice patterns (SP) for EDC4 (see all 23 )

    ExUns: 1a · 1b ^ 2 ^ 3a · 3b ^ 4 ^ 5 ^ 6a · 6b ^ 7a · 7b ^ 8 ^ 9a · 9b · 9c ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15a · 15b ^ 16a · 16b ^ 17a · 17b ^
    SP1:                                                                                                                                                            
    SP2:                                                                                                                                                            
    SP3:                                                                                                                                                            
    SP4:                                                                                                                                                            
    SP5:                                                                                                                                                            

    ExUns: 18a · 18b ^ 19a · 19b ^ 20a · 20b · 20c · 20d ^ 21 ^ 22a · 22b ^ 23 ^ 24a · 24b ^ 25a · 25b · 25c ^ 26a · 26b ^ 27a · 27b · 27c · 27d · 27e ^ 28 ^ 29a ·
    SP1:                                                                                      -                                                                     
    SP2:                                                                                                                                                            
    SP3:                                                                                                                                                            
    SP4:                                                                                                                                                            
    SP5:                                                                                      -                                                                     

    ExUns: 29b · 29c ^ 30 ^ 31 ^ 32a · 32b ^ 33a · 33b · 33c · 33d
    SP1:                                                            
    SP2:                                                            
    SP3:                                                            
    SP4:                                                            
    SP5:                                                            

    About this scheme

    ECgene alternative splicing isoforms for EDC4

    3 Ensembl transcripts including schematic representations:
    ENST00000401697  ENST00000041337  ENST00000358933  
    (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

    EDC4 expression in normal and diseased human tissues

     Applied Biosystems TaqMan ® Gene Expression Assays for EDC4

    1 / 2 / 3

    4 probe-sets matching EDC4 gene


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

    36670_at2, 3 U95-A 1 1.00 1.00 0.92 0.89 L26339 1.00 1.00 1.00 1

    74336_at2, 3 U95-D 1 0.31 1.00 0.98 1.11 AW026718 0.20 1.00 0.72 1

    202496_at2, 3 U133-A 1 1.00 1.00 -- -- NM_014329 0.60 1.00 0.82 1

    202496_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
    About this table
    Data from (Publications) and GNF BioGPS
        About these images
    About these images

    CGAP SAGE TAG: TTCCTTTTTA

    SOURCE GeneReport for Unigene cluster: Hs.75682
    (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 EDC4 gene from 5/12 species (see all 12 )
    Organism Gene Locus Description Human
    Similarity
    NCBI accessions
    dog
    (Canis familiaris)
    EDC41   -- enhancer of mRNA decapping 4 90.84(n)
    95.57(a)
    489751  XM_546871.2  XP_546871.2 
    rat
    (Rattus norvegicus)
    Edc41   -- enhancer of mRNA decapping 4 88.89(n)
    94.86(a)
    361399  NM_001033068.1  NP_001028240.1 
    mouse
    (Mus musculus)
    Edc41, 5 85
    enhancer of mRNA decapping 41, 5 88.59(n)1
    95.31(a)1
    2346991  NM_181594.21  NP_853625.11 
     AA9674825  AK1465275  (see all 18)
    chicken
    (Gallus gallus)
    EDC41   -- enhancer of mRNA decapping 4 72.98(n)
    76.53(a)
    415656  XM_414022.2  XP_414022.2 
    zebrafish
    (Danio rerio)
    wufe26b052   -- Transcribed sequence with moderate similarity to protein more 74.58(n)  57061142 
    About this table        Species with no ortholog for EDC4

    ENSEMBL Gene Tree for EDC4
    (Paralogs according to 1HomoloGene
    and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
    About This Section

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


    10/24 NCBI SNPs in EDC4 are shown (see all 24 )
    (Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 23)
    ABGenomic DataTranscription DataAllele Frequencies
    SNP IDValidChr 16 posSequenceRecsAA
    Chg
    TypeMoreRecsAllele
    freq
    PopTotal
    sample
    More
    ------------
    rs80606861,2
    A,C,F,H66469018(+) TGCTGT/CGAGGA 1 C/C syn1 ese34Minor allele frequency- C:0.31EU EA WA 416
    --
    rs80613841,2
    A,C,F,H66469375(+) TCAAAT/GTGGCC 1 -- int17Minor allele frequency- G:0.13EU EA WA NA 528
    rs22923171,2
    H66473354(+) ATGGCG/TCAGAG 1 -- int12Minor allele frequency- T:0.01EA EU 1592
    rs80591101,2
    H66472895(+) GCCTAT/CGGCAG 1 -- int13Minor allele frequency- C:0.00EU EA 294
    --
    rs720934951,2
    --66463415(+) CAGGC-/CTCTCTC 1 -- ng510--------
    --
    rs347252081,2
    --66463344(+) GAAGG-/GAGGCA 1 -- ng510--------
    --
    rs612505071,2
    --66463419(+) CTCTC-/TCCACTT 1 -- ng510--------
    rs617456071,2
    --66473183(+) AACTCA/GAAGGC 1 E/K mis10--------
    --
    rs608023181,2
    --66470644(+) AGATGA/GTACCC 1 G/D mis10--------
    --
    rs569714481,2
    --66471536(+) AGTGGC/TAGCCT 1 G/G syn10--------
    About this table

    HapMap Linkage Disequilibrium images for EDC4 (up to first 250kb)

    (in which this Gene is Involved, According to OMIM, UniProtKB, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
    About This Section

    OMIM: 606030

    (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

    10/16 PubMed articles for EDC4 gene (see all 16 ):
    (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: 23644 HGNC: 17157 AceView: RCD-8andUNQ2446 Ensembl:ENSG00000038358 euGenes: HUgn23644
    ECgene: EDC4 H-InvDB: EDC4
    (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

      --
    (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 EDC4:
     TaqMan ® Gene Expression Assays
     TaqMan ® Genotyping Assays
      Free SNP selection tool



      Invitrogen iPath Pathways  Invitrogen BLOCK-iT™ RNAi
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     Predesigned and custom siRNAs for EDC4 Browse antibodies at Sigma-Aldrich
     Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
     Lentivirus-delivered shRNAs for EDC4 Browse small molecules at Sigma-Aldrich
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