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VARS Gene

protein-coding   GIFtS: 57

GC06M031855
valyl-tRNA synthetase
(Previous name: valyl-tRNA synthetase 2 )
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
(Previous symbol: VARS2)
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
About This Section

Aliases
EC 6.1.1.9 3
G7A 2, 3, 5
VARS1 2, 5
VARS2 2, 3, 5
ValRS 3
Descriptions
Protein G7a 3
Valine--tRNA ligase 3
valine tRNA ligase 1, cytoplasmic 2
valyl-tRNA synthetase 2
valyl-tRNA synthetase 2 1, 2
External Ids
HGNC: 126511
Entrez Gene: 74072
UniProtKB: P266403
Ensembl: ENSG000002043947
Search outside databases for aliases for VARS gene

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

EntrezGene summary for VARS:
Aminoacyl-tRNA synthetases catalyze the aminoacylation of tRNA by their cognate amino acid. Because
of their central role in linking amino acids with nucleotide triplets contained in tRNAs,
aminoacyl-tRNA synthetases are thought to be among the first proteins that appeared in evolution.
The protein encoded by this gene belongs to class-I aminoacyl-tRNA synthetase family and is
located in the class III region of the major histocompatibility complex. [provided by RefSeq]

Gene Wiki entry for VARS
(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
About This Section

Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the VARS gene  

Entrez Gene cytogenetic band: 6p21.3   Ensembl cytogenetic band:  6p21.33   HGNC cytogenetic band: 6p21.3

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

GeneLoc gene densities for chromosome 6         GeneLoc Exon Structure

GeneLoc location for GC06M031855:     (about GC identifiers)

Start:
31,853,274 bp from pter
End:
31,871,691 bp from pter
Size:
18,418 bases
Orientation:
minus strand

2 alternative locations:
Chr6-,c6_QBL 31,892,485-31,896,832      Chr6-,c6_COX 31,879,916-31,898,349     
RefSeq DNA sequence:
NC_000006.10  NT_007592.14  NT_113891.1  NT_113895.1  
(According to 1UniProtKB, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
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UniProtKB/Swiss-Prot: SYVC_HUMAN, P26640 (See protein sequence)
Recommended Name: Valyl-tRNA synthetase  
Size: 1264 amino acids; 140476 Da
Subunit: Forms high-molecular-mass aggregates with elongation factor 1
Sequence caution: Sequence=CAA41990.1; Type=Frameshift; Positions=620, 640;
Secondary accessions: Q5JQ90 Q96E77 Q9UQM2

Post-translational modifications:

  • View phosphorylation sites using PhosphoSite2


  • REFSEQ proteins: NP_006286.1  

    ENSEMBL proteins: 
    ENSP00000364815 


    Human Recombinant Proteins 
    Browse Drug Discovery Central at Invitrogen for human recombinant proteins
    Browse Purified and Recombinant Proteins at Millipore
    Browse Human Recombinant Proteins at Sigma-Aldrich  
    Browse R&D Systems for human recombinant proteins
    Browse recombinant and purified proteins available from Enzo Life Sciences
    Recombinant Proteins from Abcam (valyl tRNA synthetase)
    Human Recombinant Proteins from Abnova (VARS)
                    Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 

    5 Gene Ontology (GO) cellular component terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005622 intracellular NAS--
    GO:0005737 cytoplasm IEA--
    GO:0005739 mitochondrion IEA--
    GO:0005829 cytosol IEA--
    GO:0043234 protein complex IEA--
    About this table

    Antibodies for VARS: 
    Browse Antibodies Central at Invitrogen
    Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
    Sigma-Aldrich Antibodies for VARS
    Browse R&D Systems for Antibodies
    Antibodies from Abcam (valyl tRNA synthetase), each with their AbpromiseSM
    Monoclonal and Polyclonal Antibodies from Abnova (VARS)
    Novus Biologicals Antibodies for VARS

    Assays for VARS: 
    Browse Invitrogen for biochemical assays
    Browse Kits and Assays available from Millipore
    Browse R&D Systems for biochemical assays
    Browse biochemical assays available from Enzo Life Sciences

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

    5/10 InterPro domains/families (see all 10 ):
     IPR001412 aa-tRNA-synth_I_CS
     IPR002303 Val-tRNA_synth_Ia
     IPR004046 GST_C
     IPR017933 Glutathione_S_Trfase/Cl_chnl_C
     IPR004045 Glutathione_S-Trfase_N


       GeneDecks  VARS for the domains selected above  
    About GeneDecksing

    Graphical View of Domain Structure for InterPro Entry P26640

    ProtoNet protein and cluster: P26640

    4 Blocks protein families:
    IPB002300 Aminoacyl-tRNA synthetase
    IPB002303 Valyl-tRNA synthetase signature
    IPB004045 Glutathione S-transferase
    IPB013155 tRNA synthetase


    UniProtKB/Swiss-Prot: SYVC_HUMAN, P26640
    Similarity: Belongs to the class-I aminoacyl-tRNA synthetase family
    Similarity: Contains 1 GST C-terminal domain

    (According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
    shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
    RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
    About This Section

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (VARS)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (VARS)
                  OriGene 29mer shRNA kit in GFP-retroviral vector: NM_006295

                  Applied Biosystems Silencer® siRNAs for VARS

                  Sigma-Aldrich siRNA for VARS  
                         Sigma-Aldrich shRNA for VARS  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Clones:Invitrogen Clones for VARS
    Browse Clones for the Expression of Recombinant Proteins Available from Millipore
                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_006295
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_006295
                                     untagged cDNA clone in CMV expression vector: NM_006295 

    Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
                  OriGene genome-wide validated SYBR primer pairs: NM_006295

    UniProtKB/Swiss-Prot: SYVC_HUMAN, P26640
    Catalytic activity: ATP + L-valine + tRNA(Val) = AMP + diphosphate + L-valyl-tRNA(Val)
    Enzyme regulation: Can be regulated by protein kinase C-dependent phosphorylation
    Enzyme Number (IUBMB): EC 6.1.1.9 

    5/6 Gene Ontology (GO) molecular function terms (links to tree view) (see all 6 ):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000166 nucleotide binding IEA--
    GO:0004832 valine-tRNA ligase activity IDA8428657
    GO:0005515 protein binding IPI17353931
    GO:0005524 ATP binding IEA--
    GO:0016874 ligase activity IEA--
    About this table

    (Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
    Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
    About This Section


    2 Sigma-Aldrich "Your Favorite Gene" Pathways for  VARS  (Your Favorite Gene powered by Ingenuity) 
     Aminoacyl-tRNA Biosynthesis
     Valine, Leucine and Isoleucine Biosynthesis

       GeneDecks  VARS for the pathways selected above  
    About GeneDecksing

    2 Kegg Pathways  (Kegg details for VARS):
     hsa00290 Valine, leucine and isoleucine biosynthesis
     hsa00970 Aminoacyl-tRNA biosynthesis

       GeneDecks  VARS for the pathways selected above  
    About GeneDecksing

    5/21 Interacting proteins for VARS (P266401, 2 ENSP000003648153) via UniProtKB, MINT, and/or STRING (see all 21 )
    InteractantInteraction Details
    GeneCardExternal ID(s)
    EEF1DP296922, ENSP000003383233MINT-6699624 STRING (score=.871)
    EEF1A2Q056391EBI-355765, EBI-354943
    EPB41P111711EBI-355765, EBI-1050906
    HLA-BP304801EBI-355765, EBI-1054175
    TFE3P195321EBI-355765, EBI-1048957
    About this table

    5 Gene Ontology (GO) biological process terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006414 translational elongation NAS--
    GO:0006438 valyl-tRNA aminoacylation IEA--
    GO:0006952 defense response IEA--
    GO:0006986 response to unfolded protein IEA--
    GO:0007584 response to nutrient IEA--
    About this table
    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
    About This Section

    Browse drugs & compounds from Enzo Life Sciences
    Browse Small Molecules at Sigma-Aldrich

    Browse Tocris compounds for VARS
    6 Novoseek chemical compound relationships for VARS gene
    Compound   Score   Articles   PubMed IDs for Articles with Shared Sentences (# sentences)
    aminoacyl-trna 83.05 1 16843487 (1)
    trna 66.81 20 9988688 (7), 8611551 (2), 18755686 (1), 10792042 (1) (see all 6)
    isoleucine 39.16 1 10995737 (1)
    threonine 38.44 3 8611551 (1), 10995737 (1), 10792042 (1)
    gdp 36.77 2 9552369 (1), 9988688 (1)
    gtp 34.81 5 9988688 (4), 9552369 (1)
    About this table


    (GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView,
    non coding RNAs according to RNAdb,
    ESTs according to GeneTide,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from Invitrogen, Millipore, and/or Abnova,
    siRNAs from Applied Biosystems, Sigma-Aldrich,
    shRNA from Sigma-Aldrich, OriGene,
    Tagged/untagged cDNA clones from OriGene,
    Expression Assays from Applied Biosystems)
    About This Section

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (VARS)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (VARS)
                  OriGene 29mer shRNA kit in GFP-retroviral vector: NM_006295

                  Sigma-Aldrich siRNA for VARS  
                         Sigma-Aldrich shRNA for VARS  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Applied Biosystems Silencer® siRNAs: 

    NM_006295  

    REFSEQ mRNAs for VARS gene: 

    NM_006295.2   

    Applied Biosystems TaqMan ® Gene Expression Assays: 

    NM_006295  

                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_006295
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_006295
                                     untagged cDNA clone in CMV expression vector: NM_006295 

    Additional cDNA sequence: 

    AK300033.1 AK302762.1 BC012808.2 CR612648.1 CR615665.1 CR622653.1 M98326.1 X59303.1 

    22 DOTS entries:

    DT.449684  DT.100823403  DT.95374587  DT.92455549  DT.92455552  DT.102841790  DT.121376447  DT.40119869 
    DT.102841785  DT.95374585  DT.95374590  DT.121376451  DT.85104293  DT.92056916  DT.95374580  DT.100031397 
    DT.100835569  DT.92455556  DT.95374581  DT.95374582  DT.95374588  DT.100765773 

    24/428 AceView cDNA sequences (see all 428 ):

    AI066531 BE296688 BQ056524 BQ064853 BQ931831 AW137556 BM831842 BU845226 
    CF126441 BQ220899 BU857198 CR615665 CA424415 BQ068225 AI361346 BU155906 
    CF131664 BQ218577 BM550938 BE396932 AI498133 BQ061845 BM729145 BM831206 

    highest scoring ESTs for VARS:

    X59303 AL514402 BE242709 BE242737 BG037211 BM473655 BM560598 BM908229 BQ423267 BU154624 

    Unigene Cluster for VARS:

    Valyl-tRNA synthetase
    Hs.520026  [show with all ESTs]
    Unigene Representative Sequence: NM_006295


    GeneLoc Exon Structure

    1 Ensembl transcript including schematic representation:
    ENST00000375663  
    (Experimental results according to 1GeneNote and GNF BioGPS,
    probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
    Expression Assays from Applied Biosystems )
    About This Section

    VARS expression in normal and diseased human tissues

     Applied Biosystems TaqMan ® Gene Expression Assays for VARS

    1 / 2 / 3

    5 probe-sets matching VARS gene


    Affymetrix
    probe-set
    Array  GeneAnnot data GeneNote data GeneTide data
    # genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank

    40414_at2, 3 U95-A 1 1.00 1.00 1.00 1.00 X59303 1.00 0.90 0.95 1

    201797_s_at2, 3 U133-A 1 1.00 1.00 -- -- NM_006295 0.60 1.00 0.82 1

    201796_s_at2, 3 U133-A 1 1.00 1.00 -- -- BE790854 0.60 1.00 0.82 1

    201797_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

    201796_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
    About this table
    Data from (Publications) and GNF BioGPS
        About these images
    About these images

    CGAP SAGE TAG: GGGATGGCAG

    SOURCE GeneReport for Unigene cluster: Hs.520026

    Expression variation in blood from EXPOLDB for VARS

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
    About This Section


    Orthologs for VARS gene from 5/23 species (see all 23 )
    Organism Gene Locus Description Human
    Similarity
    NCBI accessions
    dog
    (Canis familiaris)
    VARS1   -- valyl-tRNA synthetase 88.76(n)
    92.66(a)
    481716  XM_855037.1  XP_860130.1 
    chimpanzee
    (Pan troglodytes)
    VARS1   -- valyl-tRNA synthetase 99.53(n)
    99.53(a)
    462568  XM_001160008.1  XP_001160008.1 
    cow
    (Bos taurus)
    VARS1   -- valyl-tRNA synthetase 89.75(n)
    94.17(a)
    505556  XM_581858.3  XP_581858.2 
    mouse
    (Mus musculus)
    Vars1, 5 17 (19.02 cM)5
    valyl-tRNA synthetase1, 5 87.78(n)1
    93.59(a)1
    223211  NM_011690.21  NP_035820.21 
     AF0871415  AF0876805  (see all 23)
    zebrafish
    (Danio rerio)
    vars22   -- valyl-tRNA synthetase 2 76.36(n) 114427  AF506220.1 
    About this table        Species with no ortholog for VARS

    ENSEMBL Gene Tree for VARS
    (Paralogs according to 1HomoloGene
    and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
    About This Section

    Paralogs for VARS gene
    IARS2  IARS22  VARS22  

    (According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
    About This Section


    10/112 NCBI SNPs in VARS are shown (see all 112 )
    (Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 39)
    ABGenomic DataTranscription DataAllele Frequencies
    SNP IDValidChr 6 posSequenceRecsAA
    Chg
    TypeMoreRecsAllele
    freq
    PopTotal
    sample
    More
    ------------
    rs115311,2
    C,F,H31858488(-) TGCCTC/TCGCCT 1 P/S mis1 ese36Minor allele frequency- T:0.04MN EU EA WA NA 572
    --
    rs26070151,2
    C,F,H31870822(+) GAAAGG/CGAGTC 1 R/P mis1 ese3 trp39Minor allele frequency- C:0.33EU EA WA NS 1004
    rs10768271,2
    C,F,H31855812(+) CGGCCG/AGGAAG 1 L/P mis1 ese311Minor allele frequency- A:0.06EU EA WA NA 894
    rs351967511,2
    C,F31868633(+) CCGGCG/AGGCAG 1 C/R mis15Minor allele frequency- A:0.01NA EU EA WA 496
    rs22736131,2
    C31858496(-) CATCAA/GTGTGC 1 N/S mis11Minor allele frequency- G:0.01NA 70
    --
    rs125266061,2
    C31872509(+) atggtA/Ggtggg 1 -- ng310--------
    --
    rs27539601,2
    C31870823(-) GGACTA/AG    
       
    /C/CC
    CCTTT
    3 P/T P/S P/P mis1 fra1 ese3 trp30--------
    --
    rs5348921,2
    C31871921(-) TTTTTC/GATACA 1 -- ng31 trp30--------
    --
    rs92794211,2
    C31872493(+) AAAAA-/ATTAGC 1 -- ng310--------
    --
    rs93916431,2
    C31871841(+) GCCGCA/CTGATG 1 -- ng310--------
    About this table

    HapMap Linkage Disequilibrium images for VARS (up to first 250kb)

    (in which this Gene is Involved, According to OMIM, UniProtKB, Novoseek, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
    About This Section

    OMIM: 192150

    2 Novoseek disease relationships for VARS gene

    Disease   Score   Articles   PubMed IDs for Articles with Shared Sentences (# sentences)
    cleft palate 38.46 1 7993390 (1)
    shock 11.06 2 9461376 (1)
    About this table

    (Possibly Related Articles in Doctor's Guide)
    About This Section

      --

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

    10/44 PubMed articles for VARS gene (see all 44 ):
    (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, and/or H-InvDB)
    About This Section

    Entrez Gene: 7407 HGNC: 12651 AceView: VARS2 Ensembl:ENSG00000204394 euGenes: HUgn7407
    ECgene: VARS H-InvDB: VARS
    (According to HUGE)
    About This Section

      --
    (According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section

      --
    (Available from WIS Yeda, Salk, Tufts)
    About This Section

      --
    (Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
    Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
    Enzo Life Sciences, and/or Tocris Bioscience)
    About This Section



    Products for VARS:
     TaqMan ® Gene Expression Assays
     TaqMan ® Genotyping Assays
      Free SNP selection tool



      Invitrogen iPath Pathways  Invitrogen BLOCK-iT™ RNAi
      Invitrogen Antibodies  Invitrogen Assays
      Invitrogen Clones  Invitrogen Q-PCR Products
      Invitrogen Human Recombinant Kinases  Invitrogen Custom Antibody and Peptide Service
      Invitrogen Proteins / Assays / Screening Services  Search Invitrogen catalog for VARS-related products

     Millipore Custom Antibody & Bulk Services
     Millipore Preclinical / Clinical Development Services
     Millipore Immunoassay Services
     Millipore Target Screening & Profiling Services


     Predesigned and custom siRNAs for VARS Antibodies for VARS
     Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
     Lentivirus-delivered shRNAs for VARS Browse small molecules at Sigma-Aldrich
     "Your Favorite Gene" Pathwaysfeedback


      
     Antibodies   Primer Pairs  
     Cell Culture Products   ELISAs  
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     Recombinant & Natural Proteins  

     Recombinant Proteins (VARS)
     Antibodies (VARS)
     Chimera RNAi (VARS)
     Custom Service for Mouse Mab
     Custom Service for Rabbit Pab from Full-length Protein
      
     Search for Antibodies & Assays

     Recombinant Proteins
    (valyl tRNA synthetase)
     Antibodies (valyl tRNA synthetase)
     Search OriGene for VARS
     Search Tocris compounds for VARS




     Search www.enzolifesicences.com for proteins, assays, substrates, inhibitors & antibodies
     Antibodies for VARS

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