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

SLFN5 Gene

protein-coding   GIFtS: 47
GCID: GC17P033570

Schlafen Family Member 5

  See related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Aliases
Schlafen Family Member 51 2

External Ids:    HGNC: 282861   Entrez Gene: 1623942   Ensembl: ENSG000001667507   OMIM: 6149525   UniProtKB: Q08AF33   

Export aliases for SLFN5 gene to outside databases

Previous GC identifers: GC17U900473 GC17M030826 GC17P030595 GC17P029754


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

GeneCards Summary for SLFN5 Gene: 
SLFN5 (schlafen family member 5) is a protein-coding gene. Diseases associated with SLFN5 include short bowel syndrome, and melanoma. GO annotations related to this gene include ATP binding. An important paralog of this gene is SLFN13.

UniProtKB/Swiss-Prot: SLFN5_HUMAN, Q08AF3
Function: May have a role in hematopoietic cell differentiation (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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000017.10  NT_010799.15  NC_018928.2  
Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for SLFN5
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSLFN5 promoter sequence
   Search SABiosciences Chromatin IP Primers for SLFN5

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SLFN5


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

Entrez Gene cytogenetic band: 17q12   Ensembl cytogenetic band:  17q12   HGNC cytogenetic band: 17q12

SLFN5 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SLFN5 gene location

GeneLoc information about chromosome 17         GeneLoc Exon Structure

GeneLoc location for GC17P033570:  view genomic region     (about GC identifiers)

Start:
33,570,055 bp from pter      End:
33,600,674 bp from pter
Size:
30,620 bases      Orientation:
plus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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 Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: SLFN5_HUMAN, Q08AF3 (See protein sequence)
Recommended Name: Schlafen family member 5  
Size: 891 amino acids; 101055 Da
Secondary accessions: Q08AF2 Q8WU54 Q96A82
Alternative splicing: 2 isoforms:  Q08AF3-1   Q08AF3-2   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for SLFN5: NX_Q08AF3

Explore proteomics data for SLFN5 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q08AF3

  • SLFN5 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    SLFN5 Protein Expression
    REFSEQ proteins: NP_659412.3  
    ENSEMBL proteins: 
     ENSP00000299977   ENSP00000440537   ENSP00000466984  

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    Cloud-Clone Corp. Proteins for SLFN5 

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

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

    SLFN5 for ontologies           About GeneDecksing



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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    3 InterPro protein domains:
     IPR027417 P-loop_NTPase
     IPR007421 ATPase_AAA-4
     IPR018647 DUF2075

    Graphical View of Domain Structure for InterPro Entry Q08AF3

    ProtoNet protein and cluster: Q08AF3

    UniProtKB/Swiss-Prot: SLFN5_HUMAN, Q08AF3
    Similarity: Belongs to the Schlafen family


    SLFN5 for domains           About GeneDecksing


    (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,
    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, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: SLFN5_HUMAN, Q08AF3
    Function: May have a role in hematopoietic cell differentiation (By similarity)

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005524ATP binding IEA--
         
    SLFN5 for ontologies           About GeneDecksing


    Phenotypes:
         1 GenomeRNAi human phenotype for SLFN5:
     Synthetic lethal with c-Myc af 

    Animal Models:
       inGenious Targeting Laboratory - Custom generated mouse model solutions for SLFN5 
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    SwitchGear 3'UTR luciferase reporter plasmidSLFN5 3' UTR sequence
    Inhib. RNA
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SLFN5


    (Pathways according to EMD Millipore, 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 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 Oct 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SLFN5

    STRING Interaction Network Preview (showing 2 interactants - click image to see more details)

    2 Interacting proteins for SLFN5 (ENSP000002999774) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    SUMO2ENSP000004059654STRING: ENSP00000405965
    UBCENSP000003448184STRING: ENSP00000344818
    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:0030154cell differentiation IEA--

    SLFN5 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, 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 SLFN5

    Search CenterWatch for drugs/clinical trials and news about SLFN5

    (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,
    Conferences by KenesGroup, 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, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for SLFN5 gene: 
    NM_144975.3  

    Unigene Cluster for SLFN5:

    Schlafen family member 5
    Hs.709347  [show with all ESTs]
    Unigene Representative Sequence: NM_144975
    3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000299977(uc002hje.3 uc002hjf.4 uc010wcg.2) ENST00000542451
    ENST00000592325
    miRNA
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    5 QIAGEN miScript miRNA Assays for microRNAs that regulate SLFN5:
    hsa-miR-922 hsa-miR-513a-3p hsa-miR-27a hsa-miR-1245 hsa-miR-27b
    SwitchGear 3'UTR luciferase reporter plasmidSLFN5 3' UTR sequence
    Inhib. RNA
    Products:
         
    Browse for Gene Knock-down Tools from EMD Millipore
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SLFN5
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                         Customized lentivirus expression plasmids for stable overexpression of SLFN5 
    Primer
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SLFN5
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SLFN5

    Additional mRNA sequence: 

    AK054668.1 AK075116.1 AK303299.1 AK303632.1 AL832814.1 BC021238.1 BC125200.1 BC125201.1 
    BX647942.1 

    6 DOTS entries:

    DT.97770288  DT.115707  DT.91650513  DT.100754273  DT.120996492  DT.40253869 

    24/139 AceView cDNA sequences (see all 139):

    BC021238 AA242941 BQ017889 BF195006 AI269565 N21103 AI433443 AW015128 
    BX495803 AA989712 BQ686102 AA972151 BM983270 AK054668 AI057502 BU161841 
    AA776469 BM989511 BM989559 BU674784 AI435399 BI766172 F00314 BG335118 

    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™, 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

    SLFN5 expression in normal human tissues (normalized intensities)      SLFN5 embryonic expression: see
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: CTTGTGATCC
    SLFN5 Expression
    About this image


    SLFN5 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database 
     5/3 selected tissues (see all 3) fully expand
     
     Heart (Cardiovascular System)
             Mature Cardiac Fibroblasts Myocardium
     
     Lower Urinary Tract (Urinary System)
             Human Urothelial Cells (HUC)   
     
     Epithelium (Uncategorized)
             Human Urothelial Cells (HUC)   

    See SLFN5 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SLFN5

    SOURCE GeneReport for Unigene cluster: Hs.709347
        SABiosciences Custom PCR Arrays for SLFN5
    Primer
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SLFN5

    (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 human and mouse.

    Orthologs for SLFN5 gene from 1/4 species (see all 4)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Slfn51 , 5 schlafen 51, 5 73.01(n)1
    59.79(a)1
      11 (50.30 cM)5
    3279781  NM_183201.41  NP_899024.31 
     829513495 


    ENSEMBL Gene Tree for SLFN5 (if available)
    TreeFam Gene Tree for SLFN5 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SLFN5 gene
    SLFN132  SLFN122  SLFN142  SLFN12L2  SLFN112  
    6 SIMAP similar genes for SLFN5 using alignment to 2 protein entries:     SLFN5_HUMAN (see all proteins):
    FLJ31952    SLFN11    SLFN13    SLFN12    SLFN14    SLFN12L

    SLFN5 for paralogs           About GeneDecksing



    (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) 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

    10/600 SNPs in SLFN5 are shown (see all 600)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 17 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1161542161,2
    C,Funtested133592796(+) AATATC/TGTGTT 2 I syn13Minor allele frequency- T:0.01WA NA EU 5989
    rs1888401941,2
    --33568185(+) ATATAC/TATGTG 1 -- us2k10--------
    rs1932135701,2
    --33568191(+) ATGTGC/TTGAAT 1 -- us2k10--------
    rs739931091,2
    C--33568252(+) CAGTTG/ACATGG 1 -- us2k16Minor allele frequency- A:0.20WA CSA NA EA 363
    rs37443631,2
    C,F,A,H--33568271(+) AACTTC/TAAATT 1 -- us2k1 tfbs312Minor allele frequency- T:0.42NA WA CSA EA 375
    rs37443641,2
    C,F,H--33568289(+) TTGTAC/TTGGCT 1 -- us2k118Minor allele frequency- T:0.18NS EA NA WA 2116
    rs1411370921,2
    --33568360(+) GCTAAC/TGTTAT 1 -- us2k10--------
    rs1142383051,2
    F--33568424(+) TTTCCG/ATGTAC 1 -- us2k11Minor allele frequency- A:0.07WA 118
    rs1829051731,2
    --33568490(+) TCCAGA/CGGTGA 1 -- us2k10--------
    rs1502985121,2
    C--33568812(+) GAGTAA/CGACTT 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for SLFN5 (33570055 - 33600674 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 1 variation for SLFN5:    About this table     
    Variant IDTypeSubtypePubMed ID
    esv2422399CNV Deletion17116639


    Human Gene Mutation Database (HGMD): SLFN5
    SABiosciences Cancer Mutation PCR Assays
    SeqTarget long-range PCR primers for resequencing SLFN5
    DNA2.0 Custom Variant and Variant Library Synthesis for SLFN5

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    OMIM gene information: 614952    OMIM disorders: --

    2 diseases for SLFN5:    About MalaCards
    short bowel syndrome    melanoma

    1 disease from the University of Copenhagen DISEASES database for SLFN5:
    Short bowel syndrome

    SLFN5 for disorders           About GeneDecksing


    Export disorders for SLFN5 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 SLFN5 gene, integrated from 9 sources (see all 15):
    (articles sorted by number of sources associating them with SLFN5)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. 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)
    2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    3. Schlafen, a new family of growth regulatory genes that affect thymocyte development. (PubMed id 9846487)1, 3 Schwarz D.A....Hedrick S.M. (1998)
    4. The SOX2-interactome in brain cancer cells identifies the requirement of MSI2 and USP9X for the growth of brain tumor cells. (PubMed id 23667531)1 Cox J.L....Rizzino A. (2013)
    5. A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (2012)
    6. Methods for quantification of in vivo changes in prote in ubiquitination following proteasome and deubiquitinase inhibition. (PubMed id 22505724)1 Udeshi N.D....Carr S.A. (2012)
    7. NOTCH1 nuclear interactome reveals key regulators of i ts transcriptional activity and oncogenic function. (PubMed id 23022380)1 Yatim A....Benkirane M. (2012)
    8. Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
    9. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
    10. Mass spectrometric analysis of lysine ubiquitylation r eveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (2011)

    (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, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 162394 HGNC: 28286 AceView: MGC19764 Ensembl:ENSG00000166750 euGenes: HUgn162394
    ECgene: SLFN5 H-InvDB: SLFN5

    (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 SLFN5 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 SLFN5 gene:
    Search GeneIP for patents involving SLFN5

    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, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
    About This Section

     
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    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 3 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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    Category
    (GIFtS: 73)
    transforming growth factor, beta 1
    GIFtS Group
    The GeneCards human gene database gene index: 1 3 5 6 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z 


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