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CTXN1 Gene

protein-coding   GIFtS: 45
GCID: GC19M007989

Cortexin 1

  See CTXN1-related disease
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
Cortexin 11 2
CTXN2 3 5
cortexin-12

External Ids:    HGNC: 311081   Entrez Gene: 4042172   Ensembl: ENSG000001785317   OMIM: 6001355   UniProtKB: P606063   

Export aliases for CTXN1 gene to outside databases

Previous GC identifers: GC19U900430 GC19M007896 GC19M007898 GC19M007660


(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 CTXN1 Gene:
CTXN1 (cortexin 1) is a protein-coding gene. Diseases associated with CTXN1 include corneal edema. An important paralog of this gene is CTXN2.

UniProtKB/Swiss-Prot: CTXN1_HUMAN, P60606
Function: May mediate extracellular or intracellular signaling of cortical neurons during forebrain development
(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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000019.9  NC_018930.2  NT_011295.12  
Regulatory elements:
   Regulatory transcription factor binding sites in the CTXN1 gene promoter:
         Pax-5   NRSF form 1   Lmo2   POU3F2 (N-Oct-5a)   POU3F2 (N-Oct-5b)   STAT5A   NRSF form 2   MEF-2A   SRY   aMEF-2   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for CTXN1

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat CTXN1


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

Entrez Gene cytogenetic band: 19p13.2   Ensembl cytogenetic band:  19p13.2   HGNC cytogenetic band: 19p13.2

CTXN1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CTXN1 gene location

GeneLoc information about chromosome 19         GeneLoc Exon Structure

GeneLoc location for GC19M007989:  view genomic region     (about GC identifiers)

Start:
7,989,372 bp from pter      End:
7,991,051 bp from pter
Size:
1,680 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, Cloud-Clone Corp., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: CTXN1_HUMAN, P60606 (See protein sequence)
Recommended Name: Cortexin-1  
Size: 82 amino acids; 9045 Da

Explore the universe of human proteins at neXtProt for CTXN1: NX_P60606

Explore proteomics data for CTXN1 at MOPED

Post-translational modifications: 

  • Ubiquitination2 at Lys69
  • Modification sites at PhosphoSitePlus

  • See CTXN1 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_996664.1  
    ENSEMBL proteins: 
     ENSP00000313226  

    CTXN1 Human Recombinant Protein Products:

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    1 InterPro protein domain:
     IPR020066 Cortexin

    Graphical View of Domain Structure for InterPro Entry P60606

    ProtoNet protein and cluster: P60606

    UniProtKB/Swiss-Prot: CTXN1_HUMAN, P60606
    Similarity: Belongs to the cortexin family


    Find genes that share domains with CTXN1           About GenesLikeMe


    (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, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: CTXN1_HUMAN, P60606
    Function: May mediate extracellular or intracellular signaling of cortical neurons during forebrain development
    (By similarity)

    Phenotypes:
         1 GenomeRNAi human phenotype for CTXN1:

     Decreased nuclei size in G2M 

    Animal Models:
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    hsa-mir-335-5p (MIRT018306)

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    hsa-miR-596 hsa-miR-1321 hsa-miR-124 hsa-miR-506 hsa-miR-518e
    SwitchGear 3'UTR luciferase reporter plasmidCTXN1 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat CTXN1

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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
    CTXN1_HUMAN, P60606: Membrane; Single-pass membrane protein (Potential)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    cytosol1
    extracellular1
    golgi apparatus1
    mitochondrion1
    nucleus1
    plasma membrane1

    Gene Ontology (GO): 2 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0016021integral component of membrane IEA--
    GO:0031224intrinsic component of membrane ----

    Find genes that share ontologies with CTXN1           About GenesLikeMe


    (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 CTXN1
    Interactions:

        Search GeneGlobe Interaction Network for CTXN1

    (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 CTXN1

    1 Novoseek inferred chemical compound relationship for CTXN1 gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    epithalamin 85.7 4 10970020 (2), 9490497 (2)



    Find genes that share compounds with CTXN1           About GenesLikeMe



    (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,
    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, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for CTXN1 gene: 
    NM_206833.3  

    Unigene Cluster for CTXN1:

    Cortexin 1
    Hs.657978  [show with all ESTs]
    Unigene Representative Sequence: BQ278750
    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000318978(uc002miy.4)
    miRNA
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    5 qRT-PCR Assays for microRNAs that regulate CTXN1:
    hsa-miR-596 hsa-miR-1321 hsa-miR-124 hsa-miR-506 hsa-miR-518e
    SwitchGear 3'UTR luciferase reporter plasmidCTXN1 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat CTXN1
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    Primer
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      QuantiTect SYBR Green Assays in human, mouse, rat CTXN1
      QuantiFast Probe-based Assays in human, mouse, rat CTXN1

    Additional mRNA sequence: 

    AK098834.1 BC024148.2 BC040420.2 BC062702.1 

    4 DOTS entries:

    DT.70103774  DT.121452012  DT.91651067  DT.310231 

    Selected AceView cDNA sequences (see all 355):

    AI697206 CR595021 CB152340 BP351709 CA489444 CA417810 AI201314 BM743688 
    BM744151 AA505907 BU633897 AI936865 BM724653 BM766806 BE673267 BQ649769 
    BP376039 AI923270 BU156353 AK098834 AW089104 BM756869 BU947454 BM750692 

    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™, 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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    CTXN1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    CTXN1 Expression
    About this image


    CTXN1 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     
     Brain (Nervous System)
             Cerebellum
    CTXN1 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    CTXN1 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.657978
        Custom PCR Arrays for CTXN1
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CTXN1

    (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 chordates.

    Orthologs for CTXN1 gene from Selected species (see all 8)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Ctxn11 , 5 cortexin 11, 5 93.09(n)1
    96.34(a)1
      8 (1.99 cM)5
    3306951  NM_183315.21  NP_899138.11 
     42576485 
    chicken
    (Gallus gallus)
    Aves CTXN16
    cortexin 1
    70(a)
    1 ↔ 1
    28(411369-420242)
    zebrafish
    (Danio rerio)
    Actinopterygii CTXN1 (2 of 2)6
    CTXN1 (1 of 2)6
    cortexin 1
    61(a)
    54(a)
    1 ↔ many
    1 ↔ many
    22(4048993-4075196) ENSDARG00000097444
    2(56644028-56644297) ENSDARG00000090332


    ENSEMBL Gene Tree for CTXN1 (if available)
    TreeFam Gene Tree for CTXN1 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for CTXN1 gene
    CTXN22  CTXN32  
    2 SIMAP similar genes for CTXN1 using alignment to 1 protein entry:     CTXN1_HUMAN:
    CTXN2    CTXN3

    Find genes that share paralogs with CTXN1           About GenesLikeMe



    (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 CTXN1 (see all 28)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 19 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs2020971191,2
    --7988951(+) AGGTA-/CGGT  
            
    CGGTC
    1 -- int10--------
    rs1820824421,2
    --7989019(+) GGCTGA/GGTCTC 1 -- int10--------
    rs357561041,2
    C--7989100(+) CCCCC-/CAAAGC 1 -- int12Minor allele frequency- C:0.25NA 4
    rs1162336421,2
    F--7989105(+) CCCCCC/GCCCCC 1 -- int11Minor allele frequency- G:0.05WA 118
    rs1173438281,2
    --7989317(+) CTCACG/AATCCC 1 -- int11Minor allele frequency- A:0.01EA 120
    rs1871913531,2
    --7989410(+) TATCAC/TGTTCG 1 -- ut310--------
    rs2004921461,2
    --7989862(+) GGGGA-/GGGGGC 1 -- ut310--------
    rs794096421,2
    C,F--7989866(+) AGGGGG/ACGGTG 1 -- ut311Minor allele frequency- A:0.03EA 120
    rs1396843591,2
    --7989870(+) GGCGGC/TGCGGG 1 -- ut310--------
    rs1921215661,2
    --7989956(+) ACAGGG/TCGGAT 1 -- ut310--------

    HapMap Linkage Disequilibrium report for CTXN1 (7989372 - 7991051 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 6 variations for CTXN1:    About this table    
    Variant IDTypeSubtypePubMed ID
    dgv3716n71CNV Loss21882294
    nsv910990CNV Loss21882294
    nsv910989CNV Loss21882294
    dgv3715n71CNV Loss21882294
    nsv910993CNV Loss21882294
    nsv833733CNV Gain17160897

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing CTXN1
    DNA2.0 Custom Variant and Variant Library Synthesis for CTXN1

    (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.)
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    OMIM gene information: 600135    OMIM disorders: --

    1 disease for CTXN1:    
    About MalaCards
    corneal edema

    1 disease from the University of Copenhagen DISEASES database for CTXN1:
    Corneal edema

    Find genes that share disorders with CTXN1           About GenesLikeMe


    Export disorders for CTXN1 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)
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    PubMed articles for CTXN1 gene, integrated from 10 sources (see all 26):
    (articles sorted by number of sources associating them with CTXN1)
        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. (Genome Res. 2004)
    2. A proteome-wide, quantitative survey of in vivo ubiquitylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (amp 2011)
    3. Global identification of modular cullin-RING ligase substrates. (PubMed id 21963094)1 Emanuele M.J....Elledge S.J. (Cell 2011)
    4. 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)
    5. Identification of cortexin: a novel, neuron-specific, 82-residue membrane protein enriched in rodent cerebral cortex. (PubMed id 8336151)1 Coulter P.M....Watson J.B. (J. Neurochem. 1993)
    6. [Cortexin effectiveness in circulatory encephalopathy]. (PubMed id 10356917)9 Khavinson V.K.h....ZakutskiA- N.G. (Klin Med (Mosk) 1999)
    7. Purification and mechanism of action of &quot;cortexin,&quot; a novel antihypertensive protein hormone from kidney and its role in essential hypertension in men. (PubMed id 20409952)9 Chakraborty S....Sinha A.K. (J Am Soc Hypertens 2009)
    8. [Influence of cortexin on memory and attention]. (PubMed id 15537099)9 Tsyganov V.N. and BogoslovskiA- M.M. (Voen Med Zh 2004)
    9. Cortexin and combination of nitrite with cortexin decrease swelling and destruction of cerebellar neurons in hemorrhagic stroke. (PubMed id 19650315)9 Reutov V.P....Chailakhyan L.M. (Dokl. Biol. Sci. 2009)
    10. [Comparative analysis of efficacy of certain neuroprotectors in ischemic stroke]. (PubMed id 18193579)9 Skorokhodov A.P....Sedova A.A. (Zh Nevrol Psikhiatr Im S S Korsakova 2006)

    (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: 404217 HGNC: 31108 AceView: TIMM44andCTXN1 Ensembl:ENSG00000178531 euGenes: HUgn404217
    ECgene: CTXN1 H-InvDB: CTXN1

    (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 CTXN1 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 CTXN1 gene:
    Search GeneIP for patents involving CTXN1

    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, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, eBioscience, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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    GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014 , 21 Aug 2014 , 8 Sep 2014

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