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YKT6 Gene

protein-coding   GIFtS: 57

GC07P044207
YKT6 v-SNARE homolog (S. cerevisiae)
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
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Aliases
EC 2.3.1.- 3
R-SNARE 2
Descriptions
SNARE protein Ykt6 2
YKT6 v-SNARE homolog (S. cerevisiae) 2
YKT6 v-SNARE protein 2
YKT6, S. cerevisiae, homolog of 2
External Ids
HGNC: 169591
Entrez Gene: 106522
UniProtKB: O154983
Ensembl: ENSG000001066367
Search outside databases for aliases for YKT6 gene

Previous GC identifers: GC07P043887 GC07P043981 GC07P044013

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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EntrezGene summary for YKT6:
This gene product is one of the SNARE recognition molecules implicated in vesicular transport
between secretory compartments. It is a membrane associated, isoprenylated protein that functions
at the endoplasmic reticulum-Golgi transport step. This protein is highly conserved from yeast to
human and can functionally complement the loss of the yeast homolog in the yeast secretory
pathway. [provided by RefSeq]

UniProtKB/Swiss-Prot: YKT6_HUMAN, O15498
Function: Vesicular soluble NSF attachment protein receptor (v-SNARE) mediating vesicle docking and
fusion to a specific acceptor cellular compartment. Functions in endoplasmic reticulum to Golgi
transport; as part of a SNARE complex composed of GOSR1, GOSR2 and STX5. Functions in
early/recycling endosome to TGN transport; as part of a SNARE complex composed of BET1L, GOSR1 and
STX5. Has a S-palmitoyl transferase activity

Gene Wiki entry for YKT6

(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 YKT6 gene  

Entrez Gene cytogenetic band: 7p15.1   Ensembl cytogenetic band:  7p13   HGNC cytogenetic band: 7p13

YKT6 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 7         GeneLoc Exon Structure

GeneLoc location for GC07P044207:     (about GC identifiers)

Start:
44,207,103 bp from pter
End:
44,220,418 bp from pter
Size:
13,316 bases
Orientation:
plus strand

1 alternative location:
Chr7+,CRA_TCAG 44,280,084-44,293,399     
RefSeq DNA sequence:
NC_000007.12  NT_007819.16  NT_079592.2  
(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: YKT6_HUMAN, O15498 (See protein sequence)
Recommended Name: Synaptobrevin homolog YKT6  
Size: 198 amino acids; 22418 Da
Subunit: Identified in 2 different SNARE complexes; the first one composed of GOSR1, GOSR2 and STX5
and the second one composed of BET1L, GOSR1 and STX5 (By similarity)
Subcellular location: Cytoplasm, cytosol. Cytoplasmic vesicle membrane; Lipid-anchor; Cytoplasmic
side. Golgi apparatus membrane; Lipid-anchor; Cytoplasmic side. Note=Probably cycles through
vesicles between Golgi and endosomes
Secondary accessions: Q53F01 Q6FGU9 Q6IB15

Post-translational modifications:

  • Palmitoylated; catalyzes its own palmitoylation. Palmitoylation is required for Golgi targeting1
  • Farnesylation is required for Golgi targeting1


  • REFSEQ proteins: NP_006546.1  

    ENSEMBL proteins: 
    ENSP00000223369 


    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 (YKT6)
    Human Recombinant Proteins from Abnova (YKT6)
                  OriGene Purified Recombinant Human Protein: YKT6 

    5/10 Gene Ontology (GO) cellular component terms (links to tree view) (see all 10 ):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000139 Golgi membrane IEA--
    GO:0005737 cytoplasm IEA--
    GO:0005768 endosome IDA15215310
    GO:0005783 endoplasmic reticulum IDA9211930
    GO:0005794 Golgi apparatus IDA15215310
    About this table

    Antibodies for YKT6: 
    Browse Antibodies Central at Invitrogen
    Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
    Browse Antibodies at Sigma-Aldrich
    Browse R&D Systems for Antibodies
    Antibodies from Abcam (YKT6), each with their AbpromiseSM
    Monoclonal and Polyclonal Antibodies from Abnova (YKT6)
    Novus Biologicals Antibody for YKT6

    Assays for YKT6: 
    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

    2 InterPro domains/families:
     IPR010908 Longin
     IPR001388 Synaptobrevin


       GeneDecks  YKT6 for the domains selected above  
    About GeneDecksing

    Graphical View of Domain Structure for InterPro Entry O15498

    ProtoNet protein and cluster: O15498

    1 Blocks protein family: IPB001388 Synaptobrevin

    UniProtKB/Swiss-Prot: YKT6_HUMAN, O15498
    Domain: The longin domain regulates palmitoylation and membrane targeting
    Similarity: Belongs to the synaptobrevin family
    Similarity: Contains 1 longin domain
    Similarity: Contains 1 v-SNARE coiled-coil homology 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 (YKT6)
    Browse for Gene Knock-down Tools from Millipore
    Browse Abnova for Chimera RNAi Products
                  OriGene 29mer shRNA kit in GFP-retroviral vector: NM_006555

                  Applied Biosystems Silencer® siRNAs for YKT6

                  Sigma-Aldrich siRNA for YKT6  
                         Sigma-Aldrich shRNA for YKT6  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Clones:Invitrogen Clones for YKT6
    Browse Clones for the Expression of Recombinant Proteins Available from Millipore
                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_006555
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_006555
                                     untagged cDNA clone in CMV expression vector: NM_006555 

    Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
                  OriGene genome-wide validated SYBR primer pairs: NM_006555

    UniProtKB/Swiss-Prot: YKT6_HUMAN, O15498
    Function: Vesicular soluble NSF attachment protein receptor (v-SNARE) mediating vesicle docking and
    fusion to a specific acceptor cellular compartment. Functions in endoplasmic reticulum to Golgi
    transport; as part of a SNARE complex composed of GOSR1, GOSR2 and STX5. Functions in
    early/recycling endosome to TGN transport; as part of a SNARE complex composed of BET1L, GOSR1 and
    STX5. Has a S-palmitoyl transferase activity
    Enzyme Number (IUBMB): EC 2.3.1.- 

    3 Gene Ontology (GO) molecular function terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005484 SNAP receptor activity IDA15215310
    GO:0016740 transferase activity IEA--
    GO:0019706 protein-cysteine S-palmitoleyltransferase activity IDA15479160
    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


    1 Sigma-Aldrich "Your Favorite Gene" Pathway for  YKT6  (Your Favorite Gene powered by Ingenuity) 
     Huntington's Disease Signaling

       GeneDecks  YKT6 for the pathways selected above  
    About GeneDecksing

    1 Kegg Pathway  (Kegg details for YKT6):
     hsa04130 SNARE interactions in vesicular transport

       GeneDecks  YKT6 for the pathways selected above  
    About GeneDecksing
     Gene Network CentralTM Interacting Genes and Proteins Network for  YKT6 


    5/18 Interacting proteins for YKT6 (ENSP000002233693) via UniProtKB, MINT, and/or STRING (see all 18 )
    InteractantInteraction Details
    GeneCardExternal ID(s)
    STX5ENSP000003671293STRING (score=.999)
    BET1LENSP000003722103STRING (score=.995)
    GOSR1ENSP000002257243STRING (score=.991)
    VTI1BENSP000002164563STRING (score=.99)
    VTI1AENSP000003584063STRING (score=.986)
    About this table

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006888 ER to Golgi vesicle-mediated transport IDA9211930
    GO:0006903 vesicle targeting IDA9211930
    GO:0006904 vesicle docking during exocytosis IDA9211930
    GO:0015031 protein transport IEA--
    GO:0042147 retrograde transport, endosome to Golgi IDA15215310
    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 YKT6

    (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 (YKT6)
    Browse for Gene Knock-down Tools from Millipore
    Browse Abnova for Chimera RNAi Products
                  OriGene 29mer shRNA kit in GFP-retroviral vector: NM_006555

                  Sigma-Aldrich siRNA for YKT6  
                         Sigma-Aldrich shRNA for YKT6  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Applied Biosystems Silencer® siRNAs: 

    NM_006555  

    REFSEQ mRNAs for YKT6 gene: 

    NM_006555.3   

    Applied Biosystems TaqMan ® Gene Expression Assays: 

    NM_006555  

                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_006555
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_006555
                                     untagged cDNA clone in CMV expression vector: NM_006555 

    Additional cDNA sequence: 

    AB451317.1 AB451447.1 AF091079.1 AK075018.1 AK223488.1 AK299158.1 AK312622.1 BC007319.2 
    BT007078.1 CR456989.1 CR542008.1 CR617047.1 U95735.1 

    21 DOTS entries:

    DT.100825169  DT.317823  DT.101956730  DT.100825168  DT.95239327  DT.92456279  DT.95265602  DT.121097123 
    DT.100008256  DT.100044674  DT.121096981  DT.95265587  DT.100044673  DT.121096976  DT.92456277  DT.95265597 
    DT.95265603  DT.95348990  DT.121096974  DT.95265590  DT.95265601 

    24/567 AceView cDNA sequences (see all 567 ):

    AW081630 BQ879059 BM908559 BE265205 CA439756 AW027293 BE407827 BQ215883 
    BM561271 BQ005651 BQ949804 BM719475 CK823099 BM563231 BU859934 BE792077 
    AW963959 AI910114 BM684619 AA535242 AI564908 BM828311 AW016223 BQ100874 

    highest scoring ESTs for YKT6:

    AA167715 U95735 AA011657 AA011672 AA026067 AA026068 AA037831 AA037832 AA045591 AA045592 

    Unigene Cluster for YKT6:

    YKT6 v-SNARE homolog (S. cerevisiae)
    Hs.520794  [show with all ESTs]
    Unigene Representative Sequence: NM_006555


    GeneLoc Exon Structure

    5/6 Alternative Splicing Database (ASD) splice patterns (SP) for YKT6 (see all 6 )

    ExUns: 1a · 1b ^ 2a · 2b ^ 3 ^ 4a · 4b ^ 5a · 5b ^ 6a · 6b ^ 7 ^ 8a · 8b · 8c · 8d
    SP1:                                -                 -     -           -                           
    SP2:                                -                 -     -     -     -                           
    SP3:                                                  -     -                                       
    SP4:              -                 -                                                               
    SP5:                                                                    -                           

    About this scheme

    ECgene alternative splicing isoforms for YKT6

    1 Ensembl transcript including schematic representation:
    ENST00000223369  
    (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

    YKT6 expression in normal and diseased human tissues

     Applied Biosystems TaqMan ® Gene Expression Assays for YKT6

    1 / 2 / 3

    7 probe-sets matching YKT6 gene


    Affymetrix
    probe-set
    Array  GeneAnnot data GeneNote data GeneTide data
    # genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank
    41516_at2, 3 U95-A 1 1.00 1.00 0.95 0.76 U95735 1.00 1.00 1.00 1

    45313_at2, 3 U95-B 1 1.00 1.00 0.25 1.51 AA167715 1.00 1.00 1.00 1

    41517_g_at2, 3 U95-A 3 1.00 0.88 0.95 0.76 U95735 1.00 1.00 1.00 1

    217784_at2, 3 U133-A 1 1.00 1.00 -- -- BE384482 0.60 1.00 0.82 1

    217785_s_at2, 3 U133-A 2 1.00 0.95 -- -- NM_006555 0.60 1.00 0.82 1

    217784_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

    217785_s_at2 U133Plus2 2 1.00 0.95 -- -- -- -- -- -- --
    GeneDecks  YKT6 for binary patterns associated with the probe-sets selected above  
    About GeneDecksing
    About this table    
    Data from (Publications) and GNF BioGPS
        About these images
    About these images

    CGAP SAGE TAG: TCATTTTCCT

    SOURCE GeneReport for Unigene cluster: Hs.520794

    Expression variation in blood from EXPOLDB for YKT6

    (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 YKT6 gene from 5/22 species (see all 22 )
    Organism Gene Locus Description Human
    Similarity
    NCBI accessions
    dog
    (Canis familiaris)
    YKT61   -- YKT6 v-SNARE homolog (S. cerevisiae) 89.23(n)
    95.12(a)
    475497  XM_532720.2  XP_532720.1 
    chimpanzee
    (Pan troglodytes)
    YKT61   -- YKT6 v-SNARE homolog (S. cerevisiae) 99.83(n)
    100(a)
    463919  XM_001144106.1  XP_001144106.1 
    cow
    (Bos taurus)
    YKT61   -- YKT6 v-SNARE homolog (S. cerevisiae) 89.23(n)
    92.93(a)
    507409  NM_001035047.1  NP_001030219.1 
    rat
    (Rattus norvegicus)
    Ykt61   -- YKT6 v-SNARE homolog (S. cerevisiae) 90.24(n)
    94.44(a)
    64351  NM_031692.1  NP_113880.1 
    mouse
    (Mus musculus)
    Ykt61, 5 115
    YKT6 homolog (S. Cerevisiae)1, 5 89.06(n)1
    92.93(a)1
    564181  NM_019661.31  NP_062635.21 
     AF0769565  AI3248275  (see all 17)
    About this table        Species with no ortholog for YKT6

    ENSEMBL Gene Tree for YKT6
    (Paralogs according to 1HomoloGene
    and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
    About This Section

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


    10/93 NCBI SNPs in YKT6 are shown (see all 93 )
    (Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 55)
    ABGenomic DataTranscription DataAllele Frequencies
    SNP IDValidChr 7 posSequenceRecsAA
    Chg
    TypeMoreRecsAllele
    freq
    PopTotal
    sample
    More
    ------------
    rs126705841,2
    A,C,F,H44218543(+) TCCTGC/GGAGAA 1 -- ut318Minor allele frequency- G:0.07EU EA WA 840
    rs10045581,2
    A,C,F44206932(-) CTTGTG/ACTGGG 1 -- ng51 tfbs35Minor allele frequency- A:0.22MN NA EA 546
    --
    rs38577521,2
    A,C44206663(-) tgttcC/Gccttc 1 -- ng510--------
    rs10457761,2
    A,F44219910(+) AGGACT/CCCACC 1 -- ut31 ese31Minor allele frequency- C:0.04MN 184
    rs125369341,2
    H44219985(+) TACCCC/TTGAAG 1 -- ut31 ese34Minor allele frequency- T:0.00EU EA WA 420
    rs115400511,2
    F44219546(+) GGTTTG/TGTCTA 1 -- ut31 ese31Minor allele frequency- T:0.20MN 184
    --
    rs47242931,2
    C44205330(+) cctccA/Ggcttt 1 -- ng510--------
    --
    rs120563081,2
    A44205559(+) tcattA/Gagcag 1 -- ng510--------
    --
    rs19854691,2
    A44206849(-) AGCATA/TTTTTT 1 -- ng510--------
    --
    rs115400541,2
    F44219528(+) CAGAGG/CGGGGA 1 -- ut31 ese3 trp31Minor allele frequency- C:0.06MN 184
    About this table

    HapMap Linkage Disequilibrium images for YKT6 (up to first 250kb)

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

    OMIM: 606209

    (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

    10/19 PubMed articles for YKT6 gene (see all 19 ):
    (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: 10652 HGNC: 16959 AceView: YKT6 Ensembl:ENSG00000106636 euGenes: HUgn10652
    ECgene: YKT6 H-InvDB: YKT6
    (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 YKT6:
     TaqMan ® Gene Expression Assays
     TaqMan ® Genotyping Assays
      Free SNP selection tool



      Invitrogen iPath Pathways  Invitrogen BLOCK-iT™ RNAi
      Invitrogen Antibodies  Invitrogen Assays
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      Invitrogen Proteins / Assays / Screening Services  Search Invitrogen catalog for YKT6-related products

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     Predesigned and custom siRNAs for YKT6 Browse antibodies at Sigma-Aldrich
     Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
     Lentivirus-delivered shRNAs for YKT6 Browse small molecules at Sigma-Aldrich
     "Your Favorite Gene" Pathwaysfeedback


      
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     Western blot validated antibodies
     shRNA in GFP-retroviral vector
     Search Tocris compounds for YKT6




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     Antibodies for YKT6

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