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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

NMD3 Gene

protein-coding   GIFtS: 52
GCID: GC03P160822

NMD3 homolog (S. cerevisiae)

 Explore 1 disease affiliated with
NMD3 via our new
 Human Malady Compendium 
Biological research products
for NMD3
    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section

Aliases
NMD3 Homolog (S. Cerevisiae)1 2
HNMD31
CGI-071
60S Ribosomal Export Protein NMD32

External Ids:    HGNC: 242501   Entrez Gene: 510682   Ensembl: ENSG000001692517   OMIM: 6110215   UniProtKB: Q96D463   

Export aliases for NMD3 gene to outside databases

Previous GC identifers: GC03P162422 GC03P158337


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

Entrez Gene summary for NMD3:
Ribosomes are composed of 60S and 40S subunits that are assembled in the nucleolus and exported to the cytoplasm
through nuclear pore complexes in the nuclear envelope. NMD3 is an adaptor for 60S subunit export via the CRM1 (XPO1;
MIM 602559) pathway (Trotta et al., 2003 (PubMed 12773398)).(supplied by OMIM, Mar 2008)

UniProtKB/Swiss-Prot: NMD3_HUMAN, Q96D46
Function: Acts as an adapter for the XPO1/CRM1-mediated export of the 60S ribosomal subunit

Gene Wiki entry for NMD3


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000003.11  NC_018914.1  NT_005612.16  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the NMD3 gene promoter:
         AML1a   p53   Ik-3   HNF-1A   HNF-1   POU2F1a   POU2F1b   POU2F1c   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidNMD3 promoter sequence
   Search SABiosciences Chromatin IP Primers for NMD3

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat NMD3


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 3q26.1   Ensembl cytogenetic band:  3q26.1   HGNC cytogenetic band: 3q26.1

NMD3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
NMD3 gene location

GeneLoc information about chromosome 3         GeneLoc Exon Structure

GeneLoc location for GC03P160822:  view genomic region     (about GC identifiers)

Start:
160,822,484 bp from pter      End:
160,971,320 bp from pter
Size:
148,837 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section

UniProtKB/Swiss-Prot: NMD3_HUMAN, Q96D46 (See protein sequence)
Recommended Name: 60S ribosomal export protein NMD3  
Size: 503 amino acids; 57603 Da
Subunit: Found in a 60S ribosomal subunit export complex with RAN and XPO1. Interacts with XPO1. Associates with the
60S ribosomal subunit
Subcellular location: Cytoplasm. Nucleus, nucleoplasm. Nucleus, nucleolus. Note=Shuttles between the nucleus/nucleolus
and the cytoplasm in a XPO1/CRM1-dependent manner
Secondary accessions: D3DNM7 Q9Y2Z6

Explore the universe of human proteins at neXtProt for NMD3: NX_Q96D46

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q96D46

  • NMD3 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_057022.2  
    ENSEMBL proteins: 
     ENSP00000418852   ENSP00000418980   ENSP00000419030   ENSP00000307525   ENSP00000417559  
     ENSP00000418908   ENSP00000419647   ENSP00000419004  

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    Browse ProSpec Recombinant Proteins
    Uscn Proteins for NMD3

    Gene Ontology (GO): 4 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IDA--
    GO:0005654nucleoplasm IEA--
    GO:0005730nucleolus IDA--
    GO:0005737cytoplasm IEA--


    NMD3 for ontologies           About GeneDecksing



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

    NMD3 for domains           About GeneDecksing

    1 InterPro domain/family:
     IPR007064 NMD3

    Graphical View of Domain Structure for InterPro Entry Q96D46

    ProtoNet protein and cluster: Q96D46

    1 Blocks protein family: IPB007064 NMD3 family

    UniProtKB/Swiss-Prot: NMD3_HUMAN, Q96D46
    Similarity: Belongs to the NMD3 family


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section

    Function Summary:

         UniProtKB/Swiss-Prot: NMD3_HUMAN, Q96D46
    Function: Acts as an adapter for the XPO1/CRM1-mediated export of the 60S ribosomal subunit

    miRNA
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    Inhib. RNA
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    2 GenomeRNAi human phenotypes for NMD3:
     Nuclear 60S biogenesis defects  Synthetic lethal with c-Myc af 


    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene).
    About This Section

    Unified GeneCards pathways  About this table 
    See pathways by source

    Super-pathwaycontained gene-specific pathways
    1Ribosome biogenesis in eukaryotes
    Ribosome biogenesis in eukaryotes1.00
    2RNA transport
    RNA transport1.00

    Pathway sources
    See GeneCards unified pathways
    Show all pathways



    2         Kegg Pathways  (Kegg details for NMD3):
        Ribosome biogenesis in eukaryotes
    RNA transport


    NMD3 for pathways           About GeneDecksing

    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for NMD3

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    5/150 Interacting proteins for NMD3 (Q96D463 ENSP000003075254) via UniProtKB, MINT, STRING, and/or I2D (see all 150)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    HIST1H4AP628053I2D: score=1 
    HIST1H4BP628053I2D: score=1 
    HIST1H4CP628053I2D: score=1 
    HIST1H4DP628053I2D: score=1 
    HIST1H4EP628053I2D: score=1 
    About this table

    Gene Ontology (GO): 1 biological process term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0015031protein transport IEA--


    NMD3 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for NMD3
    Search CenterWatch for drugs/clinical trials and news about NMD3 

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for NMD3 gene: 
    NM_015938.3  

    Unigene Cluster for NMD3:

    NMD3 homolog (S. cerevisiae)
    Hs.598836  [show with all ESTs]
    Unigene Representative Sequence: AK094749
    10 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000468606 ENST00000460503 ENST00000493066 ENST00000473909 ENST00000351193(uc003feb.1)
    ENST00000472947(uc003fec.3 uc010hwh.3) ENST00000463518 ENST00000476237
    ENST00000460469(uc003fed.1) ENST00000478160

    miRNA
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    hsa-miR-607 hsa-miR-3662 hsa-miR-590-3p
    SwitchGear 3'UTR luciferase reporter plasmidNMD3 3' UTR sequence
    Inhib. RNA
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    Additional cDNA sequence: 

    AF132941.1 AK021775.1 AK024706.1 AK094749.1 AK225664.1 AK296710.1 AK308865.1 BC013317.1 

    16 DOTS entries:

    DT.312721  DT.91863039  DT.100780630  DT.95126351  DT.100780633  DT.40118028  DT.120873418  DT.100709289 
    DT.120873409  DT.92447739  DT.95247758  DT.120873386  DT.120873392  DT.121053518  DT.97768262  DT.95254327 

    24/252 AceView cDNA sequences (see all 252):

    BG111022 BM751006 AV703519 CF272477 CB177800 BP359754 CB177429 AL559741 
    BQ433999 CB117272 AI004325 AI219257 AI687171 BF511033 AA282197 BG527444 
    CR591426 BM999516 BP379771 BF969556 AA425145 BU508414 BC013317 BU679087 

    GeneLoc Exon Structure

    5 Alternative Splicing Database (ASD) splice patterns (SP) for NMD3    About this scheme

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


    ECgene alternative splicing isoforms for NMD3

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    NMD3 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: --

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)

    About this image
    See NMD3 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for NMD3

    SOURCE GeneReport for Unigene cluster: Hs.598836
        SABiosciences Custom PCR Arrays for NMD3
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    In Situ
    Assay Products:
     

     
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    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section

    This gene was present in the common ancestor of eukaryotes.

    Orthologs for NMD3 gene from 10/35 species (see all 35)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Nmd31 , 5 NMD3 homolog (S. cerevisiae)1, 5 91.39(n)1
    94.83(a)1
      3 (32.25 cM)5
    971121  NM_133787.21  NP_598548.11 
     697219855 
    chicken
    (Gallus gallus)
    Aves NMD31 NMD3 homolog (S. cerevisiae) 77(n)
    81.11(a)
      425009  XM_422813.3  XP_422813.2 
    lizard
    (Anolis carolinensis)
    Reptilia NMD36
    --
    83(a)
    1 ↔ 1
    3(12587979-12604446)
    African clawed frog
    (Xenopus laevis)
    Amphibia CF286018.12   -- 77.5(n)    CF286018.1 
    zebrafish
    (Danio rerio)
    Actinopterygii nmd31 NMD3 homolog (S. cerevisiae) 69.65(n)
    77.49(a)
      541444  NM_001013569.1  NP_001013587.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta Nmd31 Nonsense-mediated mRNA 3 56.11(n)
    54.66(a)
      31195  NM_057984.4  NP_477332.1 
    worm
    (Caenorhabditis elegans)
    Secernentea T25G3.31 Protein T25G3.3 56.03(n)
    52.35(a)
      3565801  NM_059713.6  NP_492114.2 
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes NMD3(YHR170W)4
    NMD31
    Protein involved in nuclear export of the large ribosomal more4
    Nmd3p1
    54.82(n)1
    47.45(a)1
      8(443828-445384)4
    8565751, 4  NP_012040.11, 4 
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT2G038201 nonsense-mediated mRNA decay protein 3 54.23(n)
    45.84(a)
      814908  NM_126428.2  NP_178476.1 
    rice
    (Oryza sativa)
    Liliopsida Os10g05739001 hypothetical protein 46.93(n)
    41.21(a)
      4349477  NM_001072005.1  NP_001065473.1 


    ENSEMBL Gene Tree for NMD3 (if available)
    TreeFam Gene Tree for NMD3 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for NMD3 gene

    NMD3 for paralogs           About GeneDecksing


    2 Pseudogenes.org Pseudogenes for NMD3
    PGOHUM00000232726 PGOHUM00000232802


    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/536 NCBI SNPs in NMD3 are shown (see all 536    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 3 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1424044191,2
    --160937106(+) TGACAA/GCATCC 1 -- us2k10--------
    rs1149875281,2
    C,F,--160937158(+) AACACC/TCGCCC 1 -- us2k11Minor allele frequency- T:0.03WA 118
    rs2003778911,2
    --160937236(+) GGTGA-/GTGT  
            
    CTGGG
    1 -- us2k10--------
    rs1381528111,2
    C,--160937237(+) GTGAG-/TGTC  
            
    TGGGC
    1 -- us2k10--------
    rs2014613431,2
    C--160937241(-) AGCCCA/GGACAC 1 -- us2k10--------
    rs1512923831,2
    --160937252(+) CACTTC/TGAAGA 1 -- us2k10--------
    rs1405052921,2
    --160937263(+) GTAATA/GAATAG 1 -- us2k10--------
    rs1891854191,2
    --160937342(+) AAAAAA/CCGGGG 1 -- us2k10--------
    rs745952311,2
    F,--160937389(+) TAAATG/CGATAA 1 -- us2k11Minor allele frequency- C:0.03WA 118
    rs1504245861,2
    --160937418(+) TTGAGC/GGTCTG 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for NMD3 (160822484 - 160971320 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for NMD3: --

    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing NMD3
    DNA2.0 Custom Variant and Variant Library Synthesis for NMD3

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section

    NMD3 for disorders           About GeneDecksing

    OMIM gene information: 611021    OMIM disorders: --

    1 disease for NMD3:    About MalaCards
    malaria


    Export disorders for NMD3 gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed articles for NMD3 gene, integrated from 9 sources (see all 19):
    (articles sorted by number of sources associating them with NMD3)
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    1. Coordinated nuclear export of 60S ribosomal subunits and NMD3 in vertebrates. (PubMed id 12773398)1, 2, 3, 9 Trotta C.R....Dahlberg J.E. (2003)
    2. Identification of novel human genes evolutionarily conserved in Caenorhabditis elegans by comparative proteomics. (PubMed id 10810093)1, 2, 3 Lai C.H....Lin W. (2000)
    3. Biogenesis and nuclear export of ribosomal subunits in higher eukaryotes depend on the CRM1 export pathway. (PubMed id 12724356)1, 2 Thomas F. and Kutay U. (2003)
    4. A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (2012)
    5. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
    6. A proteome-wide, quantitative survey of in vivo ubiqui tylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (2011)
    7. System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation. (PubMed id 21406692)2 Rigbolt K.T....Blagoev B. (2011)
    8. Mass spectrometric analysis of lysine ubiquitylation r eveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (2011)
    9. A protein inventory of human ribosome biogenesis reve als an essential function of exportin 5 in 60S subunit export. (PubMed id 21048991)1 Wild T....Kutay U. (2010)
    10. Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis. (PubMed id 20068231)2 Olsen J.V....Mann M. (2010)

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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 51068 HGNC: 24250 AceView: CGI-07 Ensembl:ENSG00000169251 euGenes: HUgn51068
    ECgene: NMD3 Kegg: 51068 H-InvDB: NMD3

    (According to HUGE)
    About This Section
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    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
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    About This Section
    NameDescription
    PharmGKB entry for NMD3 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
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    Patent Information for NMD3 gene:
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