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

BCL6B Gene

protein-coding   GIFtS: 49
GCID: GC17P006926

B-cell CLL/lymphoma 6, member B

(Previous names: zinc finger protein 62, B-cell CLL/lymphoma 6, member B...)
(Previous symbol: ZNF62)
 Explore 2 diseases affiliated with
BCL6B via our new
 Human Malady Compendium 
Biological research products
for BCL6B
    

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

Aliases
B-Cell CLL/Lymphoma 6, Member B1 2     ZBTB281 2
BAZF1 2 3 5     B-Cell CLL/Lymphoma 6, Member B (Zinc Finger Protein)1 2
Zinc Finger Protein 621 2 3     Bcl6-Associated Zinc Finger Protein2 3
ZNF621 2 3     B-Cell CLL/Lymphoma 6 Member B Protein2

External Ids:    HGNC: 10021   Entrez Gene: 2558772   Ensembl: ENSG000001619407   OMIM: 6089925   UniProtKB: Q8N1433   

Export aliases for BCL6B gene to outside databases

Previous GC identifers: GC17U990185 GC17P006871 GC17P007126 GC17P006867


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

UniProtKB/Swiss-Prot: BCL6B_HUMAN, Q8N143
Function: Acts as a sequence-specific transcriptional repressor in association with BCL6. May function in a narrow
stage or be related to some events in the early B-cell development

Gene Wiki entry for BCL6B


(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_000017.10  NC_018928.1  NT_010718.16  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the BCL6B gene promoter:
         E2F-4   E2F-3a   E2F-5   Spz1   Nkx2-5   E2F-2   POU3F2   E2F   E2F-1   Sox9   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidBCL6B promoter sequence
   Search SABiosciences Chromatin IP Primers for BCL6B

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat BCL6B


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

Entrez Gene cytogenetic band: 17p13.1   Ensembl cytogenetic band:  17p13.1   HGNC cytogenetic band: 17p13.1

BCL6B Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
BCL6B gene location

GeneLoc information about chromosome 17         GeneLoc Exon Structure

GeneLoc location for GC17P006926:  view genomic region     (about GC identifiers)

Start:
6,926,339 bp from pter      End:
6,933,609 bp from pter
Size:
7,271 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: BCL6B_HUMAN, Q8N143 (See protein sequence)
Recommended Name: B-cell CLL/lymphoma 6 member B protein  
Size: 479 amino acids; 51531 Da
Subunit: Associates with BCL6 through the BTB domain (By similarity)
Subcellular location: Nucleus (By similarity)
Secondary accessions: Q6PCB4

Explore the universe of human proteins at neXtProt for BCL6B: NX_Q8N143

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q8N143

  • BCL6B Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_862827.1  
    ENSEMBL proteins: 
     ENSP00000293805   ENSP00000460071   ENSP00000460282   ENSP00000445010  

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    Browse ProSpec Recombinant Proteins
    Browse Proteins at Uscn

    Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005622intracellular ----
    GO:0005634nucleus IEA--


    BCL6B 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

    BCL6B for domains           About GeneDecksing

    5/6 InterPro domains/families (see all 6):
     IPR015880 Znf_C2H2-like
     IPR011333 BTB/POZ_fold
     IPR013087 Znf_C2H2/integrase_DNA-bd
     IPR013069 BTB_POZ
     IPR007087 Znf_C2H2

    Graphical View of Domain Structure for InterPro Entry Q8N143

    ProtoNet protein and cluster: Q8N143

    1 Blocks protein family: IPB000210 BTB/POZ domain

    UniProtKB/Swiss-Prot: BCL6B_HUMAN, Q8N143
    Similarity: Contains 1 BTB (POZ) domain
    Similarity: Contains 5 C2H2-type zinc fingers


    (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: BCL6B_HUMAN, Q8N143
    Function: Acts as a sequence-specific transcriptional repressor in association with BCL6. May function in a narrow
    stage or be related to some events in the early B-cell development

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    hsa-miR-2052 hsa-miR-302d hsa-miR-520e hsa-miR-3194-5p hsa-miR-106a hsa-miR-372 hsa-miR-93 hsa-miR-302b
    SwitchGear 3'UTR luciferase reporter plasmidBCL6B 3' UTR sequence
    Inhib. RNA
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    Gene Ontology (GO): 4 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003676nucleic acid binding ----
    GO:0003677DNA binding IEA--
    GO:0005515protein binding ----
    GO:0008270zinc ion binding IEA--


    BCL6B for ontologies           About GeneDecksing


    4 GenomeRNAi human phenotypes for BCL6B:
     Decreased Hepatitis C virus re  Decreased NANOG protein expres  Decreased OCT4 protein express  Decreased POU5F1-GFP protein e 

    Animal Models:
         Mouse knock-outs for BCL6B: Bcl6btm2Dent Bcl6btm1Dtf Bcl6btm1Tto
         4 MGI mutant phenotypes (inferred from 3 alleles(MGI details for Bcl6b):
     cellular  growth/size  hematopoietic system  immune system 

    BCL6B for phenotypes           About GeneDecksing


    (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:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for BCL6B

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

    5 Interacting proteins for BCL6B (Q8N1433 ENSP000002938054) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    BCL6P411823, ENSP000002320144I2D: score=3 STRING: ENSP00000232014
    HDAC1Q135473, ENSP000003626494I2D: score=1 STRING: ENSP00000362649
    SIN3AQ96ST33, ENSP000003536224I2D: score=1 STRING: ENSP00000353622
    RBPJENSP000003452064STRING: ENSP00000345206
    HDAC7ENSP000000800594STRING: ENSP00000080059
    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:0000122negative regulation of transcription from RNA polymerase II promoter IEA--


    BCL6B 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 BCL6B
    Search CenterWatch for drugs/clinical trials and news about BCL6B 

    (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 BCL6B gene: 
    NM_181844.3  

    Unigene Cluster for BCL6B:

    B-cell CLL/lymphoma 6, member B
    Hs.22575  [show with all ESTs]
    Unigene Representative Sequence: BC059404
    6 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000293805(uc010clt.1 uc002geg.2) ENST00000572216 ENST00000576705
    ENST00000573503 ENST00000537931 ENST00000571729

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    hsa-miR-2052 hsa-miR-302d hsa-miR-520e hsa-miR-3194-5p hsa-miR-106a hsa-miR-372 hsa-miR-93 hsa-miR-302b
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    Additional cDNA sequence: 

    AB076580.1 AK024695.1 AK122893.1 AK292878.1 AK293102.1 BC059404.1 

    5 DOTS entries:

    DT.75170305  DT.101982286  DT.407931  DT.95201154  DT.75107801 

    24/64 AceView cDNA sequences (see all 64):

    NM_181844 N78611 BU741643 AI420964 BU102140 CA392306 H21615 AW271709 
    AI473457 AW451460 CB988714 BX281547 AK122893 AA703151 AI672318 CB990449 
    BF515380 AI932294 BM724372 BU101996 BU102174 AI004344 AB076580 BU102175 

    GeneLoc Exon Structure

    4 Alternative Splicing Database (ASD) splice patterns (SP) for BCL6B    About this scheme

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


    ECgene alternative splicing isoforms for BCL6B

    (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

    BCL6B expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: ATTTCTATTT

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

    About this image

    BCL6B expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    5 LifeMap In Vivo Development Anatomical Compartments/Cells 
    Tissue Anatomical Compartment CellCategory (developmental path)
    TestisSeminiferous TubulesSpermatogonial Stem CellsGerm Cells, Male Gametocytes
    KidneyInterstitial StromaInterstitial Stroma CellsKidney
    KidneyS-shaped BodyS-shaped Body CellsKidney
    KidneyInterstitial StromaKidney
    KidneyS-shaped BodyKidney
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization
    Stem Cell Differentiation: 5 LifeMap Cells 
    NameCategory
    PureStem™ endothelial progenitor 30-MV2-12 (Embryonic Progenitor Cell)Blood, Endothelium
    PureStem™ endothelial Progenitor 30-SM2-3 (Embryonic Progenitor Cell)Blood, Endothelium
    PureStem™ endothelial progenitor 30-SM2-1 (Embryonic Progenitor Cell)Endothelium
    PureStem™ endothelial progenitor RP1-MV2-18 (Embryonic Progenitor Cell)Endothelium
    PureStem™ endothelial progenitor 30-MV2-14 (Embryonic Progenitor Cell)Endothelium

    See BCL6B Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for BCL6B

    SOURCE GeneReport for Unigene cluster: Hs.22575

    UniProtKB/Swiss-Prot: BCL6B_HUMAN, Q8N143
    Tissue specificity: Ubiquitously expressed with higher expression found in heart and placenta

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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for BCL6B

    (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 chordates.

    Orthologs for BCL6B gene from 1/10 species (see all 10)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    zebrafish
    (Danio rerio)
    Actinopterygii BX322601.36
    --
    36(a)
    1 ↔ 1
    7(21176760-21184134)


    ENSEMBL Gene Tree for BCL6B (if available)
    TreeFam Gene Tree for BCL6B (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for BCL6B gene
    BCL62  
    18/142 SIMAP similar genes for BCL6B using alignment to 5 protein entries:     BCL6B_HUMAN (see all proteins) (see all similar genes):
    ZNF    kr-znf3    ZNF626    ZNF285    ZNF56    HZF30
    ZFS-6    ZNF253    ZNF83    ZBTB20    ZNF283    ZNF420
    ZNF525    ZNF763    ZNF78L1    ZNF146    BACH1    DKFZp434J0650

    BCL6B 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

    10/140 NCBI SNPs in BCL6B are shown (see all 140    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 17 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs124502871,2
    C,F,H,--6924443(+) AGATGA/CCACAG 2 -- us2k15Minor allele frequency- C:0.12NA CSA EA 246
    rs1911631371,2
    --6924585(+) CAACAA/CCCCAT 2 -- us2k10--------
    rs1837831131,2
    --6924632(+) CCATCC/TTGATG 2 -- us2k10--------
    rs118706931,2
    C,H,--6924639(+) GATGCC/GAAAGG 2 -- us2k10--------
    rs1382770481,2
    --6924820(+) ATATCC/GAGCCC 2 -- us2k10--------
    rs1496023571,2
    --6925042(+) CCCTCC/TTGCCC 1 -- us2k10--------
    rs99074071,2
    C,F,A,H,--6925053(+) TCTCTC/GCCTCC 1 -- us2k1 tfbs3 trp36Minor allele frequency- G:0.10NS NA WA EA 478
    rs1876675681,2
    --6925083(+) TTTACC/TCCACC 1 -- us2k10--------
    rs1906006451,2
    --6925937(+) CCAAAC/TCTGCT 1 -- us2k10--------
    rs1388485411,2
    --6926106(+) ACTCCC/GGTATT 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for BCL6B (6926339 - 6933609 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for BCL6B: --

    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing BCL6B
    DNA2.0 Custom Variant and Variant Library Synthesis for BCL6B

    (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

    BCL6B for disorders           About GeneDecksing

    OMIM gene information: 608992    OMIM disorders: --

    2 diseases for BCL6B:    About MalaCards
    enamel erosion    b-cell lymphomas


    Export disorders for BCL6B 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 BCL6B gene, integrated from 9 sources (see all 13):
    (articles sorted by number of sources associating them with BCL6B)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. BAZF, a novel Bcl6 homolog, functions as a transcriptional repressor. (PubMed id 9632807)1, 3, 9 Okabe S....Tokuhisa T. (1998)
    2. 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. (2004)
    3. Cloning and characterization of the human BAZF gene, a homologue of the BCL6 oncogene. (PubMed id 11855826)1, 2 Sakashita C.... Miki T. (2002)
    4. Functional dissection of lysine deacetylases reveals t hat HDAC1 and p300 regulate AMPK. (PubMed id 22318606)1 Lin Y.Y....Boeke J.D. (2012)
    5. BAZF, a novel component of cullin3-based E3 ligase com plex, mediates VEGFR and Notch cross-signaling in angiogenesis. (PubMed id 22279058)1 Ohnuki H....Higashiyama S. (2012)
    6. Epigenetic inactivation of BCL6B, a novel functional t umour suppressor for gastric cancer, is associated with poor survival. (PubMed id 21917650)1 Xu L....Yu J. (2012)
    7. DNA sequence of human chromosome 17 and analysis of rearrangement in the human lineage. (PubMed id 16625196)2 Zody M.C.... Nusbaum C. (2006)
    8. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1 Ota T.... Sugano S. (2004)
    9. Bcl6-dependent transcriptional repression by BAZF. (PubMed id 12659862)1 Takenaga M....Tokuhisa T. (2003)
    10. 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)

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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 255877 HGNC: 1002 AceView: BCL6B Ensembl:ENSG00000161940 euGenes: HUgn255877
    ECgene: BCL6B H-InvDB: BCL6B

    (According to HUGE)
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    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
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    NameDescription
    PharmGKB entry for BCL6B Pharmacogenomics, SNPs, Pathways
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