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SPIN2B Gene

protein-coding   GIFtS: 37
GCID: GC0XM057163

Spindlin Family, Member 2B

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(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
Spindlin Family, Member 2B1 2     SPIN2_duplicate2
Spindlin-Like Protein 2B2 3     dJ323P24.22
SPIN-22 3     Spindlin Family, Member 2 Duplicate2
SPIN-2B2 3     spindlin-2B2
SPIN23 5     Telomeric SPIN2 Copy2

External Ids:    HGNC: 331471   Entrez Gene: 4743432   Ensembl: ENSG000001867877   OMIM: 3005175   UniProtKB: Q9BPZ23   
ORGUL members:         

Export aliases for SPIN2B gene to outside databases

Previous GC identifer: GC0XM054209


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for SPIN2B Gene:
SPIN2B (spindlin family, member 2B) is a protein-coding gene. An important paralog of this gene is SPIN2A.

UniProtKB/Swiss-Prot: SPI2B_HUMAN, Q9BPZ2
Function: Involved in the regulation of cell cycle progression, this activity is related to the inhibition of
apoptosis following the removal of essential growth factors




(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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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Regulatory elements:
   Regulatory transcription factor binding sites in the SPIN2B gene promoter:
         GR   SRF   HOXA3   SRF (504 AA)   GR-beta   GR-alpha   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSPIN2B promoter sequence
   Search Chromatin IP Primers for SPIN2B

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SPIN2B


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

Entrez Gene cytogenetic band: Xp11.1   Ensembl cytogenetic band:  Xp11.21   HGNC cytogenetic band: Xp11.1

SPIN2B Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SPIN2B gene location

GeneLoc information about chromosome X         GeneLoc Exon Structure

GeneLoc location for GC0XM057163:  view genomic region     (about GC identifiers)

Start:
57,144,984 bp from pter      End:
57,147,980 bp from pter
Size:
2,997 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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, Cloud-Clone Corp., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: SPI2B_HUMAN, Q9BPZ2 (See protein sequence)
Recommended Name: Spindlin-2B  
Size: 258 amino acids; 29158 Da
Miscellaneous: Overexpression in murine myeloid cell line 32Dcl3 causes G2/M arrest
Secondary accessions: Q7Z2M0

Explore the universe of human proteins at neXtProt for SPIN2B: NX_Q9BPZ2

Explore proteomics data for SPIN2B at MOPED

Post-translational modifications: 

  • Ubiquitination2 at Lys108
  • Modification sites at PhosphoSitePlus

  • See SPIN2B Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (5 alternative transcripts): 
    NP_001006682.1  NP_001006683.1  NP_001006684.1  NP_001269390.1  NP_001269391.1  

    ENSEMBL proteins: 
     ENSP00000364045   ENSP00000275988   ENSP00000364047   ENSP00000404314   ENSP00000335008  

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    1 InterPro protein domain:
     IPR003671 Spin_Ssty

    Graphical View of Domain Structure for InterPro Entry Q9BPZ2

    ProtoNet protein and cluster: Q9BPZ2

    1 Blocks protein domain: IPB003671 Spindlin/spermiogenesis-specific protein

    UniProtKB/Swiss-Prot: SPI2B_HUMAN, Q9BPZ2
    Similarity: Belongs to the SPIN/STSY family


    Find genes that share domains with SPIN2B           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: SPI2B_HUMAN, Q9BPZ2
    Function: Involved in the regulation of cell cycle progression, this activity is related to the inhibition of
    apoptosis following the removal of essential growth factors

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    SwitchGear 3'UTR luciferase reporter plasmidSPIN2B 3' UTR sequence
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    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    SPI2B_HUMAN, Q9BPZ2: Nucleus
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus5
    cytosol2
    peroxisome2
    extracellular1
    mitochondrion1

    Gene Ontology (GO): 1 cellular component term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IEA--

    Find genes that share ontologies with SPIN2B           About GenesLikeMe


    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, 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 Apr 2014 via Entrez Gene).
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        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for SPIN2B
    Interactions:

        Search GeneGlobe Interaction Network for SPIN2B

    Gene Ontology (GO): 3 biological process terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006915apoptotic process IEA--
    GO:0007049cell cycle IEA--
    GO:0007276gamete generation IEA--

    Find genes that share ontologies with SPIN2B           About GenesLikeMe



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for SPIN2B (SPI2B)



    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 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,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for SPIN2B gene (5 alternative transcripts): 
    NM_001006681.1  NM_001006682.1  NM_001006683.1  NM_001282461.1  NM_001282462.1  

    6 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000460948 ENST00000374910 ENST00000275988 ENST00000374912(uc004duy.3 uc004duz.3)
    ENST00000434397 ENST00000333933(uc004dva.3)
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    4 qRT-PCR Assays for microRNAs that regulate SPIN2B:
    hsa-miR-3618 hsa-miR-934 hsa-miR-1283 hsa-miR-3692
    SwitchGear 3'UTR luciferase reporter plasmidSPIN2B 3' UTR sequence
    Inhib. RNA
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    Primer
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      QuantiTect SYBR Green Assays in human, mouse, rat SPIN2B
      QuantiFast Probe-based Assays in human, mouse, rat SPIN2B

    GeneLoc Exon Structure


    (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™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    SPIN2B expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    SPIN2B Expression
    About this image

    SPIN2B Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    SPIN2B Protein Expression

    UniProtKB/Swiss-Prot: SPI2B_HUMAN, Q9BPZ2
    Tissue specificity: Detected in all the examined tissues with highest expression in liver, followed by heart,
    stomach, kidney, skeletal muscle, placenta, and pancreas

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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SPIN2B

    (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)
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    This gene was present in the common ancestor of chordates.

    Orthologs for SPIN2B gene from Selected species (see all 8)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Gm37571 predicted pseudogene 3757 73.15(n)
    65.61(a)
      100042267  XM_006527550.1  XP_006527613.1 
    chicken
    (Gallus gallus)
    Aves SPINZ6
    SPINW6
    Gallus gallus spindlin 1 (SPINW), mRNA.
    77(a)
    70(a)
    many ↔ many
    many ↔ many
    Z(43031150-43106716)
    JH375233.1(93400-104628)
    lizard
    (Anolis carolinensis)
    Reptilia --
    Uncharacterized protein
    77(a)
    1 → many
    2(37159109-37173005)


    ENSEMBL Gene Tree for SPIN2B (if available)
    TreeFam Gene Tree for SPIN2B (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for SPIN2B gene
    SPIN2A1 2  SPIN12  SPIN42  SPIN32  
    4 SIMAP similar genes for SPIN2B using alignment to 4 protein entries:     SPI2B_HUMAN (see all proteins):
    SPIN2A    SPIN3    SPIN1    SPIN4

    Find genes that share paralogs with SPIN2B           About GenesLikeMe


    1 Pseudogenes.org Pseudogene for SPIN2B
    PGOHUM00000241343


    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, 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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for SPIN2B (see all 41)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr X posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1873983091,2
    --57145627(+) CCTTGC/TCAGAA 3 -- ds50010--------
    rs4362171,2
    C,H--57145643(-) GTTCCC/ATAGAA 3 -- ds50015Minor allele frequency- A:0.00NS EA NA 422
    rs4090851,2
    H--57145996(+) TCAATT/GTATTC 3 -- ds50014Minor allele frequency- G:0.00NS EA 418
    rs1478507091,2
    C--57146032(+) CTCTCC/TGATAG 3 -- ds50010--------
    rs7073451,2
    C,F,H--57146035(-) CAGCTA/GTCAGA 3 -- ds500114Minor allele frequency- G:0.04NS EA WA NA CSA 433
    rs17368641,2
    --57146122(-) TGTGTA/GTACAT 3 -- ut31 ese30--------
    rs17368631,2
    C--57146123(-) TTGTGA/TGTACA 3 -- ut31 ese30--------
    rs17368621,2
    --57146129(-) ACAAAC/TTTGTG 3 -- ut31 ese33Minor allele frequency- T:0.05MN NA 188
    rs3640071,2
    F--57146205(+) TTTCAA/GTACAC 3 -- ut315Minor allele frequency- G:0.00NA EA 256
    rs734946401,2
    --57147733(+) CGCTGC/TTGCCT 3 -- ut510--------

    HapMap Linkage Disequilibrium report for SPIN2B (57144984 - 57147980 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 1 variation for SPIN2B:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv483129CNV Loss15286789

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing SPIN2B
    DNA2.0 Custom Variant and Variant Library Synthesis for SPIN2B

    (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.)
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    OMIM gene information: 300517    OMIM disorders: --


    Find genes that share disorders with SPIN2B           About GenesLikeMe


    Export disorders for SPIN2B 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)
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    PubMed articles for SPIN2B gene integrated from 10 sources:
    (articles sorted by number of sources associating them with SPIN2B)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Functional cloning of SPIN-2, a nuclear anti-apoptotic protein with roles in cell cycle progression. (PubMed id 12145692)1, 2, 3 Fletcher B.S.... Nolan G.P. (Leukemia 2002)
    2. The DNA sequence of the human X chromosome. (PubMed id 15772651)1, 2 Ross M.T.... Bentley D.R. (Nature 2005)
    3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S.... Malek J. (Genome Res. 2004)
    4. Systems-wide analysis of ubiquitylation dynamics reveals a key role for PAF15 ubiquitylation in DNA-damage bypass. (PubMed id 23000965)1 Povlsen L.K....Choudhary C. (Nat. Cell Biol. 2012)
    5. A proteome-wide, quantitative survey of in vivo ubiquitylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (amp 2011)
    6. Blocking the Wnt pathway, a unifying mechanism for an angiogenic inhibitor in the serine proteinase inhibitor family. (PubMed id 20351274)1 Zhang B....Ma J.X. (Proc. Natl. Acad. Sci. U.S.A. 2010)
    7. hORFeome v3.1: a resource of human open reading frames representing over 10,000 human genes. (PubMed id 17207965)1 Lamesch P.... Vidal M. (Genomics 2007)
    8. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)
    9. Initial assessment of human gene diversity and expression patterns based upon 83 million nucleotides of cDNA sequence. (PubMed id 7566098)1 Adams M.D.... White O. (Nature 1995)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     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, Kegg, and/or H-InvDB)
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    Entrez Gene: 474343 HGNC: 33147 Ensembl:ENSG00000186787 euGenes: HUgn474343 ECgene: SPIN2B
    H-InvDB: SPIN2B

    (According to HUGE)
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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for SPIN2B Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for SPIN2B gene:
    Search GeneIP for patents involving SPIN2B

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, eBioscience, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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    GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014 , 21 Aug 2014 , 8 Sep 2014

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