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

SCGN Gene

protein-coding   GIFtS: 54
GCID: GC06P025652

secretagogin, EF-hand calcium binding protein

 Explore 16 diseases affiliated with
SCGN via our new
 Human Malady Compendium 
Biological research products
for SCGN
    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section

Aliases
Secretagogin, EF-Hand Calcium Binding Protein1 2     SEGN1 2
SECRET1 2 3     Secretagogin1
CALBL1 2     Setagin1
DJ501N12.81 2     

External Ids:    HGNC: 169411   Entrez Gene: 105902   Ensembl: ENSG000000796897   OMIM: 6092025   UniProtKB: O760383   

Export aliases for SCGN gene to outside databases

Previous GC identifers: GC06P025709 GC06P025760


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

Entrez Gene summary for SCGN:
The encoded protein is a secreted calcium-binding protein which is found in the cytoplasm. It is related to calbindin
D-28K and calretinin. This protein is thought to be involved in KCL-stimulated calcium flux and cell proliferation.
(provided by RefSeq, Jul 2008)

Gene Wiki entry for SCGN


(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 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000006.11  NC_018917.1  NT_007592.15  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SCGN gene promoter:
         Tal-1   NRSF form 1   NRSF form 2   FOXO3b   HNF-1A   E47   S8   HNF-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSCGN promoter sequence
   Search SABiosciences Chromatin IP Primers for SCGN

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


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

Entrez Gene cytogenetic band: 6p22.3-p22.1   Ensembl cytogenetic band:  6p22.2   HGNC cytogenetic band: 6p22.3-p22.1

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

GeneLoc information about chromosome 6         GeneLoc Exon Structure

GeneLoc location for GC06P025652:  view genomic region     (about GC identifiers)

Start:
25,652,429 bp from pter      End:
25,702,011 bp from pter
Size:
49,583 bases      Orientation:
plus strand

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

UniProtKB/Swiss-Prot: SEGN_HUMAN, O76038 (See protein sequence)
Recommended Name: Secretagogin  
Size: 276 amino acids; 32040 Da
Subcellular location: Cytoplasm. Secreted (By similarity). Cytoplasmic vesicle, secretory vesicle membrane; Peripheral
membrane protein; Cytoplasmic side (By similarity). Note=Predominantly cytoplasmic. A small proportion is associated
with secretory granules and membrane fractions (By similarity). Detectable in human serum after ischemic neuronal
damage
Secondary accessions: A8K0B2 Q5VV44 Q96QV7 Q9UJF6

Explore the universe of human proteins at neXtProt for SCGN: NX_O76038

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_O76038

  • SCGN Protein expression data from MOPED and PaxDb:    About this image 
    SCGN Protein Expression
    REFSEQ proteins: NP_008929.2  
    ENSEMBL proteins: 
     ENSP00000367197   ENSP00000333933  

    Human Recombinant Protein Products for SCGN: 
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    ProSpec Recombinant Protein for SCGN
    Uscn Proteins for SCGN

    Gene Ontology (GO): 3 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005576extracellular region IEA--
    GO:0005737cytoplasm NAS10811645
    GO:0030658transport vesicle membrane IEA--

    SCGN for ontologies           About GeneDecksing



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    Uscn ELISAs and CLIAs for SCGN


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

    SCGN for domains           About GeneDecksing

    3 InterPro domains/families:
     IPR018247 EF_Hand_1_Ca_BS
     IPR011992 EF-hand-like_dom
     IPR002048 EF_hand_Ca-bd

    Graphical View of Domain Structure for InterPro Entry O76038

    ProtoNet protein and cluster: O76038

    UniProtKB/Swiss-Prot: SEGN_HUMAN, O76038
    Similarity: Contains 6 EF-hand domains


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, Sirion Biotech, 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, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, Sirion Biotech, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005509calcium ion binding NAS10811645
         
    SCGN for ontologies           About GeneDecksing


    Phenotypes:
         1 GenomeRNAi human phenotype for SCGN:
     Increased G1 DNA content 

    Animal Models:
       inGenious Targeting Laboratory - Customizable classic, inducible, and humanized mouse model solutions for SCGN 

    miRNA
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    hsa-miR-634 hsa-miR-924 hsa-miR-3692
    SwitchGear 3'UTR luciferase reporter plasmidSCGN 3' UTR sequence
    Inhib. RNA
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    In Situ Assay
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SCGN


    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, 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 Mar 2013 via Entrez Gene).
    About This Section



    Interactions:

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

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

    2 Interacting proteins for SCGN (O760383 ENSP000003671974) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    SNAP23O001613, ENSP000002496474I2D: score=4 STRING: ENSP00000249647
    PDCD6IPENSP000003073874STRING: ENSP00000307387
    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:0008150biological_process ND--

    SCGN for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section

    SCGN for compounds           About GeneDecksing

    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for SCGN
    1 Novoseek chemical compound relationship for SCGN gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    calcium 22.8 13 19241471 (3), 10811645 (2), 17116382 (2), 17504298 (2) (see all 6)

    Search CenterWatch for drugs/clinical trials and news about SCGN / SEGN 

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 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,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, Sirion Biotech, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for SCGN gene: 
    NM_006998.3  

    Unigene Cluster for SCGN:

    Secretagogin, EF-hand calcium binding protein
    Hs.116428  [show with all ESTs]
    Unigene Representative Sequence: NM_006998
    2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000377961(uc003nfb.3 uc010jpz.3) ENST00000334979

    miRNA
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    hsa-miR-634 hsa-miR-924 hsa-miR-3692
    SwitchGear 3'UTR luciferase reporter plasmidSCGN 3' UTR sequence
    Inhib. RNA
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    Clone
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    Additional cDNA sequence: 

    AF420280.1 AK289477.1 BC000336.2 BC003036.1 Y16752.1 

    4 DOTS entries:

    DT.109196  DT.97842783  DT.99930258  DT.75106970 

    24/91 AceView cDNA sequences (see all 91):

    BM875339 BM272713 BX090600 AK129901 BQ128349 BI916726 BE670017 BU789623 
    BI603234 BE674153 BQ581263 BF001337 BQ549417 W39269 BE645448 AA814724 
    BI603604 AW250230 BU783517 NM_006998 C75092 BM831035 BU579866 BU947539 

    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

    SCGN expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: GCAATCCTGT
    SCGN Expression
    About this image

    SCGN expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table

    2 LifeMap In Vivo Development Anatomical Compartments/Cells 
    Tissue Anatomical Compartment CellCategory (developmental path)
    EyeInner Nuclear LayerMature Rod Bipolar CellsBipolar, Retina
    Neural TubeTelencephalonNeural Tube
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization

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

    SOURCE GeneReport for Unigene cluster: Hs.116428

    UniProtKB/Swiss-Prot: SEGN_HUMAN, O76038
    Tissue specificity: Expressed at high levels in the pancreatic islets of Langerhans and to a much lesser extent in the
    gastrointestinal tract (stomach, small intestine and colon), the adrenal medulla and cortex and the thyroid C-cells.
    In the brain, the expression is restricted to distinct subtypes of neurons with highest expression in the molecular
    layer of the cerebellum (stellate and basket cells), in the anterior part of the pituitary gland, in the thalamus, in
    the hypothalamus and in a subgroup of neocortical neurons

        SABiosciences Custom PCR Arrays for SCGN
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    In Situ
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SCGN

    (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 animals.

    Orthologs for SCGN gene from 4/19 species (see all 19)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    chicken
    (Gallus gallus)
    Aves SCGN1 secretagogin, EF-hand calcium binding protein 75.56(n)
    76.32(a)
      421001  XM_419087.3  XP_419087.2 
    lizard
    (Anolis carolinensis)
    Reptilia SCGN6
    --
    75(a)
    1 ↔ 1
    4(53420543-53452461)
    zebrafish
    (Danio rerio)
    Actinopterygii zgc:1008431 zgc:100843 70.6(n)
    73.43(a)
      573010  NM_001005776.1  NP_001005776.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta Cbp53E1 , 3 calcium ion homeostasis calcium ion binding3
    Calbindin 53E1
    45(a)3
    53.49(n)1
    47.15(a)1
      53E43
    369051  NM_057490.31  NP_476838.11 


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

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SCGN gene
    CALB22  CALB12  
    2 SIMAP similar genes for SCGN using alignment to 2 protein entries:     SEGN_HUMAN (see all proteins):
    CALB2    CALB1

    SCGN for paralogs           About GeneDecksing



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, 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

    10/898 NCBI SNPs in SCGN are shown (see all 898    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 6 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1409311011,2
    --25650532(+) ATCATG/TTATTT 1 -- us2k10--------
    rs1855022991,2
    --25650786(+) TTAATC/TGGTGA 1 -- us2k10--------
    rs119699811,2
    C,F,H--25650817(+) TAGGCT/AAAGCC 1 -- us2k110Minor allele frequency- A:0.12NS EA NA 1074
    rs1431628891,2
    --25650821(+) CTAAGA/CCACAC 1 -- us2k10--------
    rs718084921,2
    C--25650866(+) CCAAATATG/-  
            
    TATGT
    1 -- us2k11Minor allele frequency- -:0.50CSA 2
    rs2001979831,2
    C--25650869(-) ACATAC/TATATT 1 -- us2k10--------
    rs1997943611,2
    --25650872(+) ATGTA-/TGTATGTA 1 -- us2k10--------
    rs1898628481,2
    --25650882(+) GTATGG/TAAGAT 1 -- us2k10--------
    rs1508767711,2
    --25650987(+) CACGGA/GGTAAA 1 -- us2k10--------
    rs1160636511,2
    F--25651128(+) TCATTA/CTTATT 1 -- us2k11Minor allele frequency- C:0.03WA 118

    HapMap Linkage Disequilibrium report for SCGN (25652429 - 25702011 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for SCGN: --

    SABiosciences Cancer Mutation PCR Assays
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    DNA2.0 Custom Variant and Variant Library Synthesis for SCGN

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section

    SCGN for disorders           About GeneDecksing

    OMIM gene information: 609202    OMIM disorders: --

    16 diseases for SCGN:    About MalaCards
    fibrillary astrocytoma    functioning pituitary adenoma    pituitary adenoma    atrial fibrillation
    insulinoma    adenoma    colorectal cancer    alzheimer's disease
    neurodegeneration    astrocytoma    cerebritis    thyroiditis
    pancreatitis    prostatitis    neuronitis    carcinoma

    7 Novoseek disease relationships for SCGN gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    pituitary adenoma 57.5 10 15237930 (4), 17504298 (2), 14528906 (1)
    neuroendocrine tumors 56.8 5 16955307 (2), 16449819 (2), 17493385 (1)
    insulinoma 56.4 2 20061514 (1), 16888402 (1)
    carcinoid 47.2 7 16449819 (4), 16955307 (1), 17285592 (1)
    colorectal cancer 30.3 5 16586428 (3), 16955307 (1)
    adenocarcinoma 4.71 3 16449819 (2), 17285592 (1)
    tumors 0 5 16955307 (1), 16449819 (1), 17493385 (1)


    Export disorders for SCGN 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 SCGN gene, integrated from 9 sources (see all 36):
    (articles sorted by number of sources associating them with SCGN)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Cloning and expression of secretagogin, a novel neuroendocrine- and pancreatic islet of Langerhans-specific Ca2+-binding protein. (PubMed id 10811645)1, 2, 3, 9 Wagner L.... Pasternack M.S. (2000)
    2. Cerebral expression and serum detectability of secretagogin, a recently cloned EF-hand Ca(2+)-binding protein. (PubMed id 11709487)1, 2, 9 Gartner W....Wagner L. (2001)
    3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    4. 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)
    5. The DNA sequence and analysis of human chromosome 6. (PubMed id 14574404)1, 2 Mungall A.J.... Beck S. (2003)
    6. Setagin and secretagogin-R22: Posttranscriptional modification products of the secretagogin gene. (PubMed id 15766553)1, 9 Zierhut B....Wagner L. (2005)
    7. Proteomics and transcriptomics analyses of secretagogin down-regulation in human non-functional pituitary adenomas. (PubMed id 15237930)1, 9 Zhan X....Desiderio D.M. (2003)
    8. Identification and characterization of secretagogin promoter activity. (PubMed id 17083620)1, 9 Skovhus K.V....Pociot F. (2006)
    9. Detectability of secretagogin in human erythrocytes. (PubMed id 22921511)1 Tan W.S....Ang E.T. (2012)
    10. The usefulness of S100B, NSE, GFAP, NF-H, secretagogin and Hsp70 as a predictive biomarker of outcome in children with traumatic brain injury. (PubMed id 21976236)1 Zurek J. and Fedora M. (2012)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Disorders
    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: 10590 HGNC: 16941 AceView: SCGN Ensembl:ENSG00000079689 euGenes: HUgn10590
    ECgene: SCGN H-InvDB: SCGN

    (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 SCGN 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 SCGN gene:
    Search GeneIP for patents involving SCGN

    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, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, LifeMap BioReagents, and Sirion Biotech, 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)
    About This Section

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    Sirion Biotech Customized:
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