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TSNARE1 Gene

protein-coding   GIFtS: 44
GCID: GC08M143292

T-SNARE Domain Containing 1

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at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
T-SNARE Domain Containing 11 2
T-SNARE Domain-Containing Protein 12

External Ids:    HGNC: 264371   Entrez Gene: 2030622   Ensembl: ENSG000001710457   UniProtKB: Q96NA83   

Export aliases for TSNARE1 gene to outside databases

Previous GC identifer: GC08M138547


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for TSNARE1 Gene:
TSNARE1 (t-SNARE domain containing 1) is a protein-coding gene. GO annotations related to this gene include SNARE binding and SNAP receptor activity. An important paralog of this gene is STX12.


(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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence:
NC_000008.11  NT_008046.17  NC_018919.2  
Regulatory elements:
   Search for regulatory transcription factor binding sites for TSNARE1
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidTSNARE1 promoter sequence
   Search Chromatin IP Primers for TSNARE1

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat TSNARE1


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

Entrez Gene cytogenetic band: 8q24.3   Ensembl cytogenetic band:  8q24.3   HGNC cytogenetic band: 8q24.3

TSNARE1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TSNARE1 gene location

GeneLoc information about chromosome 8         GeneLoc Exon Structure

GeneLoc location for GC08M143292:  view genomic region     (about GC identifiers)

Start:
143,293,441 bp from pter      End:
143,484,601 bp from pter
Size:
191,161 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
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UniProtKB/Swiss-Prot: TSNA1_HUMAN, Q96NA8 (See protein sequence)
Recommended Name: t-SNARE domain-containing protein 1  
Size: 513 amino acids; 55949 Da
Secondary accessions: Q14D03

Explore the universe of human proteins at neXtProt for TSNARE1: NX_Q96NA8

Explore proteomics data for TSNARE1 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See TSNARE1 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_659440.2  
    ENSEMBL proteins: 
     ENSP00000428763   ENSP00000427770   ENSP00000429679   ENSP00000429626   ENSP00000430789  
     ENSP00000303437  

    TSNARE1 Human Recombinant Protein Products:

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    Cloud-Clone Corp. CLIAs for TSNARE1


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    4 InterPro protein domains:
     IPR010989 t-SNARE
     IPR028002 Myb_DNA-bind_5
     IPR028686 TSNARE1
     IPR000727 T_SNARE_dom

    Graphical View of Domain Structure for InterPro Entry Q96NA8

    ProtoNet protein and cluster: Q96NA8

    UniProtKB/Swiss-Prot: TSNA1_HUMAN, Q96NA8
    Similarity: Contains 1 t-SNARE coiled-coil homology domain


    TSNARE1 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,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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         Gene Ontology (GO): 3 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000149SNARE binding IBA--
    GO:0005484SNAP receptor activity IBA--
    GO:0005515protein binding ----
         
    TSNARE1 for ontologies           About GeneDecksing


    Animal Models:
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    miRNA
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    miRTarBase miRNAs that target TSNARE1:
    hsa-mir-335-5p (MIRT017957)

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    SwitchGear 3'UTR luciferase reporter plasmidTSNARE1 3' UTR sequence
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    Predesigned siRNA for gene silencing in human, mouse, rat TSNARE1

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    GenScript: all cDNA clones in your preferred vector: TSNARE1 (NM_145003)
    Browse Sino Biological Human cDNA Clones
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for TSNARE1
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    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    TSNA1_HUMAN, Q96NA8: Membrane; Single-pass membrane protein (By similarity)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    cytosol3
    nucleus2
    endoplasmic reticulum1
    mitochondrion1
    peroxisome1

    Gene Ontology (GO): 3 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0016020membrane ----
    GO:0016021integral component of membrane IEA--
    GO:0031201SNARE complex IBA--

    TSNARE1 for ontologies           About GeneDecksing


    (SuperPaths according to PathCards, Pathways according to 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 QIAGEN, 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 Apr 2014 via Entrez Gene).
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        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for TSNARE1
    Interactions:

        Search GeneGlobe Interaction Network for TSNARE1

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    Selected Interacting proteins for TSNARE1 (Q96NA82, 3 ENSP000003034374) via UniProtKB, MINT, STRING, and/or I2D (see all 80)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    MAP1LC3CQ9BXW43I2D: score=1 
    SNAP29ENSP000002157304STRING: ENSP00000215730
    BET1ENSP000002225474STRING: ENSP00000222547
    BNIP1ENSP000002316684STRING: ENSP00000231668
    GOSR1ENSP000002257244STRING: ENSP00000225724
    About this table

    Gene Ontology (GO): 3 biological process terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006886intracellular protein transport IBA--
    GO:0016079synaptic vesicle exocytosis IBA--
    GO:0016192vesicle-mediated transport ----

    TSNARE1 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for TSNARE1 (TSNA1)



    (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,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
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    REFSEQ mRNAs for TSNARE1 gene: 
    NM_145003.3  

    Unigene Cluster for TSNARE1:

    T-SNARE domain containing 1
    Hs.370931  [show with all ESTs]
    Unigene Representative Sequence: BC065226
    8 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000524325(uc011lju.2) ENST00000520166 ENST00000519651(uc003ywl.4)
    ENST00000521825 ENST00000518928 ENST00000520462 ENST00000518720 ENST00000307180(uc003ywj.3 uc003ywk.3)

    miRNA
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    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat TSNARE1
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      QuantiTect SYBR Green Assays in human, mouse, rat TSNARE1
      QuantiFast Probe-based Assays in human, mouse, rat TSNARE1

    Additional mRNA sequence: 

    AK055726.1 BC065226.1 BC113556.1 BC126343.1 BC143684.1 BC143686.1 

    5 DOTS entries:

    DT.75122794  DT.97820632  DT.453717  DT.91659852  DT.95343250 

    Selected AceView cDNA sequences (see all 48):

    AW264598 BX115133 BG059612 AI813428 BC065226 AI741779 BX423282 BF437008 
    BX107636 BQ651238 AA464709 BX355483 BG389512 AA889136 NM_145003 BF509709 
    BI823540 AA725175 AL119213 AI792926 BQ067865 AW293967 BQ647160 AA464004 

    GeneLoc Exon Structure

    4 Alternative Splicing Database (ASD) splice patterns (SP) for TSNARE1    About this scheme

    ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12a · 12b ^ 13 ^ 14 ^ 15 ^ 16
    SP1:              -                                         -                             -                 -         
    SP2:              -           -     -     -                 -                             -                           
    SP3:                                                                                                                  
    SP4:                                                                                                                  


    ECgene alternative splicing isoforms for TSNARE1

    (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™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    TSNARE1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: CACACTTGGA
    TSNARE1 Expression
    About this image

    TSNARE1 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    TSNARE1 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.370931
        Custom PCR Arrays for TSNARE1
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TSNARE1

    (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)
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    This gene was present in the common ancestor of animals and fungi.

    Orthologs for TSNARE1 gene from Selected species (see all 13)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    dog
    (Canis familiaris)
    Mammalia TSNARE11 t-SNARE domain containing 1 83.65(n)
    78.9(a)
      482064  XM_005628010.1  XP_005628067.1 
    chicken
    (Gallus gallus)
    Aves TSNARE11 t-SNARE domain containing 1 70.04(n)
    69.29(a)
      420304  XM_418416.4  XP_418416.3 
    lizard
    (Anolis carolinensis)
    Reptilia TSNARE16
    t-SNARE domain containing 1
    52(a)
    1 ↔ 1
    GL343222.1(524959-944505)
    African clawed frog
    (Xenopus laevis)
    Amphibia BJ066948.12   -- 74.4(n)    BJ066948.1 
    zebrafish
    (Danio rerio)
    Actinopterygii LOC1018820351 t-SNARE domain-containing protein 1-like 61.82(n)
    56.06(a)
      101882035  XM_005158305.1  XP_005158362.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta Syx131 Syntaxin 13 46.87(n)
    31.62(a)
      39485  NM_079330.3  NP_524054.1 
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes PEP126
    Target membrane receptor (t-SNARE) for vesicular i...
    19(a)
    1 → many
    XV(400348-401214) YOR036W


    ENSEMBL Gene Tree for TSNARE1 (if available)
    TreeFam Gene Tree for TSNARE1 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for TSNARE1 gene
    STX122  STX72  
    2 SIMAP similar genes for TSNARE1 using alignment to 9 protein entries:     TSNA1_HUMAN (see all proteins):
    STX7    STX12

    TSNARE1 for paralogs           About GeneDecksing


    1 Pseudogenes.org Pseudogene for TSNARE1
    PGOHUM00000249517


    (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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for TSNARE1 (see all 4885)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 8 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1466759801,2
    --143292950(+) CCAACA/GTGGAG 1 -- int10--------
    rs1138646831,2
    F--143293023(+) GCTTTC/TGGAGT 1 -- int11Minor allele frequency- T:0.50CSA 2
    rs1439742201,2
    --143293097(+) ACCTCC/TGCCCA 1 -- int10--------
    rs49769671,2
    C,F,H--143293307(+) CACAAG/ACTCAC 1 -- int116Minor allele frequency- A:0.15NS EA NA 2104
    rs733627321,2
    C,F--143293384(+) CATCCA/CCATCC 1 -- int13Minor allele frequency- C:0.11WA CSA 122
    rs1465181641,2
    --143293482(+) GGGGCC/TGACAC 1 -- ut310--------
    rs1129708501,2
    C,F--143293493(+) AGGGGC/TGAGTG 1 -- ut313Minor allele frequency- T:0.04NA EA 242
    rs1171808221,2
    C,F--143293508(+) CAGTGC/G/TAGGGG 2 -- ut311NA 120
    rs119929231,2
    C,F,H--143293558(+) GGCCAG/AGTGAC 1 -- ut31 ese325Minor allele frequency- A:0.10NS EA NA WA CSA 2250
    rs1491008261,2
    C--143293580(+) ACAACA/GCAGCG 1 -- ut310--------

    HapMap Linkage Disequilibrium report for TSNARE1 (143293441 - 143484601 bp)

    Structural Variations
         Database of Genomic Variants (DGV) Selected variations for TSNARE1 (see all 65):    About this table    
    Variant IDTypeSubtypePubMed ID
    dgv1284e201CNV Deletion23290073
    esv1000488CNV Deletion20482838
    dgv1313e199CNV Deletion23128226
    esv2737854CNV Deletion23290073
    esv2737869CNV Deletion23290073
    esv1113323CNV Deletion17803354
    esv2737867CNV Deletion23290073
    esv2737870CNV Deletion23290073
    esv2737857CNV Deletion23290073
    esv2661137CNV Deletion23128226

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing TSNARE1
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    (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.)
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      --

    (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)
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    PubMed articles for TSNARE1 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with TSNARE1)
        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, 3 Ota T.... Sugano S. (Nat. Genet. 2004)
    2. Genome-wide association analysis identifies 13 new risk loci for schizophrenia. (PubMed id 23974872)1 Ripke S....Sullivan P.F. (Nat. Genet. 2013)
    3. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (Genome Res. 2006)
    4. 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. (Genome Res. 2004)
    5. 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. (Proc. Natl. Acad. Sci. U.S.A. 2002)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     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)
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    Entrez Gene: 203062 HGNC: 26437 AceView: FLJ31164 Ensembl:ENSG00000171045 euGenes: HUgn203062
    ECgene: TSNARE1 H-InvDB: TSNARE1

    (According to HUGE)
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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for TSNARE1 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for TSNARE1 gene:
    Search GeneIP for patents involving TSNARE1

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    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
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