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

AGBL5 Gene

protein-coding   GIFtS: 44
GCID: GC02P027265

ATP/GTP binding protein-like 5

 Explore 2 diseases affiliated with
AGBL5 via our new
 Human Malady Compendium 
Biological research products
for AGBL5
    

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

Aliases
ATP/GTP Binding Protein-Like 51 2
ATP/GTP-Binding Protein-Like 52 3
FLJ218391
Cytosolic Carboxypeptidase-Like Protein 52
CCP53
EC 3.4.17.-3

External Ids:    HGNC: 261471   Entrez Gene: 605092   Ensembl: ENSG000000846937   UniProtKB: Q8NDL93   

Export aliases for AGBL5 gene to outside databases

Previous GC identifers: GC02P027128 GC02P027016


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

UniProtKB/Swiss-Prot: CBPC5_HUMAN, Q8NDL9
Function: Metallocarboxypeptidase that mediates tubulin deglutamylation. Specifically catalyzes the deglutamylation of
the branching point glutamate side chains generated by post-translational glutamylation in proteins such as tubulins.
In contrast, it is not able to act as a long-chain deglutamylase that shortens long polyglutamate chains, a process
catalyzed by AGTPBP1/ CCP1, AGBL1/CCP4 and AGBL4/CCP6 (By similarity)




(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_000002.11  NC_018913.1  NT_022184.15  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the AGBL5 gene promoter:
         p300   CBF-C   RORalpha1   CBF-B   CBF-A   CP1A   CP1C   NF-Y   Pax-4a   CBF(2)   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidAGBL5 promoter sequence
   Search SABiosciences Chromatin IP Primers for AGBL5

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat AGBL5


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

Entrez Gene cytogenetic band: 2p23.3   Ensembl cytogenetic band:  2p23.3   HGNC cytogenetic band: 2p23.3

AGBL5 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
AGBL5 gene location

GeneLoc information about chromosome 2         GeneLoc Exon Structure

GeneLoc location for GC02P027265:  view genomic region     (about GC identifiers)

Start:
27,265,232 bp from pter      End:
27,293,490 bp from pter
Size:
28,259 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: CBPC5_HUMAN, Q8NDL9 (See protein sequence)
Recommended Name: Cytosolic carboxypeptidase-like protein 5  
Size: 886 amino acids; 97534 Da
Cofactor: Binds 1 zinc ion per subunit (By similarity)
Subcellular location: Cytoplasm, cytosol (By similarity). Nucleus (By similarity). Note=Mainly cytoplasmic. Slight
accumulation in the nucleus is observed (By similarity)
Sequence caution: Sequence=AAX93164.1; Type=Erroneous gene model prediction; Sequence=AAY14655.1; Type=Erroneous gene
model prediction; Sequence=BAB15151.1; Type=Erroneous initiation; Note=Translation N-terminally extended;
Secondary accessions: A2VDI7 B7WPG9 B7Z7I7 D6W548 Q53SW0 Q53SZ0 Q96IK8 Q9H6V0 Q9H8P8
Alternative splicing: 3 isoforms:  Q8NDL9-1   Q8NDL9-2   Q8NDL9-3   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for AGBL5: NX_Q8NDL9

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q8NDL9

  • AGBL5 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins (2 alternative transcripts): 
    NP_001030584.1  NP_068603.4  

    ENSEMBL proteins: 
     ENSP00000395266   ENSP00000394730   ENSP00000433830   ENSP00000407584   ENSP00000323681  
     ENSP00000353249   ENSP00000395721   ENSP00000400905  

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    Uscn Proteins for AGBL5

    Gene Ontology (GO): 3 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus ISS--
    GO:0005737cytoplasm IDA--
    GO:0005829cytosol ISS--


    AGBL5 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

    AGBL5 for domains           About GeneDecksing

    1 InterPro domain/family:
     IPR000834 Peptidase_M14

    Graphical View of Domain Structure for InterPro Entry Q8NDL9

    ProtoNet protein and cluster: Q8NDL9

    UniProtKB/Swiss-Prot: CBPC5_HUMAN, Q8NDL9
    Similarity: Belongs to the peptidase M14 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: CBPC5_HUMAN, Q8NDL9
    Function: Metallocarboxypeptidase that mediates tubulin deglutamylation. Specifically catalyzes the deglutamylation of
    the branching point glutamate side chains generated by post-translational glutamylation in proteins such as tubulins.
    In contrast, it is not able to act as a long-chain deglutamylase that shortens long polyglutamate chains, a process
    catalyzed by AGTPBP1/ CCP1, AGBL1/CCP4 and AGBL4/CCP6 (By similarity)

    Enzyme Number (IUBMB): EC 3.4.17.-1

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    Gene Ontology (GO): 3 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0004181metallocarboxypeptidase activity ISS--
    GO:0008270zinc ion binding IEA--
    GO:0015631tubulin binding ISS--


    AGBL5 for ontologies           About GeneDecksing


    4 GenomeRNAi human phenotypes for AGBL5:
     Decreased p24 protein expressi  Increased S DNA content  Increased cell number in G1, a  Synthetic lethal with Ras 


    (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



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for AGBL5

    1 Interacting protein for AGBL5 (Q8NDL92) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    --P310162MINT-8106861
    About this table

    Gene Ontology (GO): 3 biological process terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006508proteolysis IEA--
    GO:0035608protein deglutamylation ISS--
    GO:0035611protein branching point deglutamylation ISS--


    AGBL5 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 AGBL5
    Search CenterWatch for drugs/clinical trials and news about AGBL5 / CBPC5 

    (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,
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    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 AGBL5 gene (2 alternative transcripts): 
    NM_001035507.2  NM_021831.5  

    Unigene Cluster for AGBL5:

    ATP/GTP binding protein-like 5
    Hs.138207  [show with all ESTs]
    Unigene Representative Sequence: NM_021831
    10 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000421915 ENST00000453161 ENST00000487078(uc002rie.3 uc002rif.3)
    ENST00000451003 ENST00000477136 ENST00000323064(uc002rid.3) ENST00000489683
    ENST00000360131 ENST00000437006 ENST00000441931

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    hsa-miR-1290 hsa-miR-22 hsa-miR-1321 hsa-miR-186* hsa-miR-181a-2* hsa-miR-218 hsa-miR-1296 hsa-miR-4252
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    Additional cDNA sequence: 

    AK023398.1 AK025492.1 AK302091.1 AL833844.1 BC007415.2 BC018562.1 BC018584.1 BC131498.1 

    20 DOTS entries:

    DT.100863437  DT.101982705  DT.95316638  DT.100039666  DT.100700993  DT.86852089  DT.109778  DT.95130680 
    DT.100754740  DT.120943296  DT.100661548  DT.100754744  DT.302395  DT.86857029  DT.91706504  DT.97775957 
    DT.99932670  DT.120943273  DT.120943280  DT.85101859 

    24/325 AceView cDNA sequences (see all 325):

    BQ884053 AA827596 BM714116 BI258135 BX377739 BX376060 W79407 AL833844 
    BU500295 CD244560 CB164219 BI259314 AI955108 BU845235 AI819256 BU542320 
    AW574711 BG750060 BM908531 BQ955123 BM552359 BQ049144 T91077 CR596269 

    GeneLoc Exon Structure

    5/9 Alternative Splicing Database (ASD) splice patterns (SP) for AGBL5 (see all 9)    About this scheme

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

    ExUns: 15 ^ 16 ^ 17 ^ 18 ^ 19 ^ 20 ^ 21
    SP1:  -     -                                 
    SP2:                                          
    SP3:                                          
    SP4:                                          
    SP5:                                          


    ECgene alternative splicing isoforms for AGBL5

    (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

    AGBL5 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: TGTTCGGTTG

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

    About this image
    See AGBL5 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for AGBL5

    SOURCE GeneReport for Unigene cluster: Hs.138207

    UniProtKB/Swiss-Prot: CBPC5_HUMAN, Q8NDL9
    Tissue specificity: Expressed in brain

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    In Situ
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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 animals.

    Orthologs for AGBL5 gene from 5/21 species (see all 21)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    chicken
    (Gallus gallus)
    Aves AGBL51 ATP/GTP binding protein-like 5 61.66(n)
    62.28(a)
      770678  XM_003641067.1  XP_003641115.1 
    lizard
    (Anolis carolinensis)
    Reptilia AGBL56
    --
    --
    59(a)
    11(a)
    1 ↔ 1
    possible ortholog
    GL343593.1(37258-59184)
    2(41899559-41919954)
    African clawed frog
    (Xenopus laevis)
    Amphibia BJ071911.12   -- 78.96(n)    BJ071911.1 
    zebrafish
    (Danio rerio)
    Actinopterygii CK016520.12   -- 75.86(n)   323965  CK016520.1 
    honey bee
    (Apis mellifera)
    Insecta --
    --
    35(a)
    1 ↔ 1
    Group4.15(45177-53547)


    ENSEMBL Gene Tree for AGBL5 (if available)
    TreeFam Gene Tree for AGBL5 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for AGBL5 gene
    AGTPBP12  AGBL12  AGBL22  AGBL42  AGBL32  

    AGBL5 for paralogs           About GeneDecksing



    (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

    10/428 NCBI SNPs in AGBL5 are shown (see all 428    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 2 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1132036881,2
    C,--27272677(+) GGTCAC/ATCCTT 2 -- us2k11Minor allele frequency- A:0.50NA 2
    rs1879796621,2
    --27272718(+) GTGTCA/GGGGGA 2 -- us2k10--------
    rs762336441,2
    --27272760(+) CGGCCC/GTGGGG 2 -- us2k10--------
    rs1410264461,2
    --27272819(+) GAGGCC/GAGTGG 2 -- us2k10--------
    rs111268361,2
    C,F,H,--27273128(+) GTCGCT/CGTCTC 2 -- us2k126Minor allele frequency- C:0.45NS EA NA WA 2714
    rs1912845791,2
    --27273149(+) GTCAGA/GACGAA 2 -- us2k10--------
    rs1449745061,2
    --27273394(+) GAAACC/TACCGC 2 -- us2k10--------
    rs116800961,2
    C,F,H,--27273571(+) TCAGCC/TGGAGA 2 -- us2k120Minor allele frequency- T:0.48NS EA NA WA CSA 2345
    rs794661321,2
    F,--27273600(+) GATGAG/AGTTGC 2 -- us2k11Minor allele frequency- A:0.03EA 120
    rs1846854951,2
    --27273634(+) CAGCAC/TCTTAT 2 -- us2k10--------

    HapMap Linkage Disequilibrium report for AGBL5 (27265232 - 27293490 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 1 variation for AGBL5
         1 CNV: 9399

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    (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

    AGBL5 for disorders           About GeneDecksing

    2 diseases for AGBL5:    About MalaCards
    intrahepatic cholangiocarcinoma    cholangiocarcinoma

    Human Genome Epidemiology (HuGE) Navigator: AGBL5 (4 documents)

    Export disorders for AGBL5 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 AGBL5 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with AGBL5)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    2. Variation at the NFATC2 locus increases the risk of t hiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipr il and rosiglitazone Medication (DREAM) study. (PubMed id 20628086)1 Bailey S.D....Anand S. (2010)
    3. Gene-centric association signals for lipids and apoli poproteins identified via the HumanCVD BeadChip. (PubMed id 19913121)1 Talmud P.J.... . (2009)
    4. The full-ORF clone resource of the German cDNA consortium. (PubMed id 17974005)2 Bechtel S.... Schupp I. (2007)
    5. Identification of intrahepatic cholangiocarcinoma related genes by comparison with normal liver tissues using expressed sequence tags. (PubMed id 16712791)1 Wang A.G....Kim N.S. (2006)
    6. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (2006)
    7. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. (PubMed id 15815621)2 Hillier L.W....Wilson R.K. (2005)
    8. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S....Malek J. (2004)
    9. 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. (2002)
    10. Systematic subcellular localization of novel proteins identified by large-scale cDNA sequencing. (PubMed id 11256614)1 Simpson J.C.... Wiemann S. (2000)

    (in PubMed, OMIM, and NCBI Bookshelf)
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 60509 HGNC: 26147 AceView: FLJ21839 Ensembl:ENSG00000084693 euGenes: HUgn60509
    ECgene: AGBL5 H-InvDB: AGBL5

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for AGBL5 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for AGBL5 gene:
    Search GeneIP for patents involving AGBL5

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



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    GeneCards Homepage - Last full update: 18 Mar 2013 - Incrementals: 21 Mar 2013 , 15 Apr 2013 , 26 Apr 2013

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