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

SSPO Gene

protein-coding   GIFtS: 45
GCID: GC07P149473          (predicted)

SCO-spondin homolog (Bos taurus)

 Explore 3 diseases affiliated with
SSPO via our new
 Human Malady Compendium 
Biological research products
for SSPO
    

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

Aliases
SCO-Spondin Homolog (Bos Taurus)1 2     KIAA20363
SCO-Spondin1     EC 3.4.21.98
FLJ361121     EC 3.4.24.828
KIAA05431     

External Ids:    HGNC: 219981   Entrez Gene: 231452   Ensembl: ENSG000001975587   UniProtKB: A2VEC93   

Export aliases for SSPO gene to outside databases

Previous GC identifers: GC07P148912 GC07P149143 GC07P149108 GC07P143550


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

UniProtKB/Swiss-Prot: SSPO_HUMAN, A2VEC9
Function: Involved in the modulation of neuronal aggregation. May be involved in developmental events during the
formation of the central nervous system (By similarity)

Gene Wiki entry for SSPO


(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_000007.13  NC_018918.1  NT_007914.15  NT_079596.2  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SSPO gene promoter:
         HNF-4alpha2   HNF-4alpha1   c-Ets-1   HEN1   Max   FAC1   STAT3   Zic3   c-Myc   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for SSPO

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


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

Entrez Gene cytogenetic band: 7q36.1   Ensembl cytogenetic band:  7q36.1   HGNC cytogenetic band: 7q36.1

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

GeneLoc information about chromosome 7         GeneLoc Exon Structure

GeneLoc location for GC07P149473:  view genomic region     (about GC identifiers)

Start:
149,473,131 bp from pter      End:
149,531,068 bp from pter
Size:
57,938 bases      Orientation:
plus strand

1 alternative location:
Chr7+,CRA_TCAG 148,811,145-148,869,073     

(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: SSPO_HUMAN, A2VEC9 (See protein sequence)
Recommended Name: SCO-spondin precursor  
Size: 5147 amino acids; 547504 Da
Subcellular location: Secreted, extracellular space (By similarity)
Sequence caution: Sequence=BAC98376.1; Type=Erroneous initiation;
Secondary accessions: Q76B61
Alternative splicing: 2 isoforms:  A2VEC9-1   A2VEC9-2   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for SSPO: NX_A2VEC9

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_A2VEC9

  • 2 DME Specific Peptides for SSPO (A2VEC9)
     CPDGSDE  CSRSCGGG 

    SSPO Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_940857.2  
    Human Recombinant Protein Products: 
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    Uscn Proteins for SSPO

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005615extracellular space TAS--


    SSPO for ontologies           About GeneDecksing



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    Uscn ELISAs and CLIAs for SSPO


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

    SSPO for domains           About GeneDecksing

    5/12 InterPro domains/families (see all 12):
     IPR002172 LDrepeatLR_classA_rpt
     IPR000884 Thrombospondin_1_rpt
     IPR014853 Unchr_dom_Cys-rich
     IPR006552 VWC_out
     IPR002919 TIL_dom

    Graphical View of Domain Structure for InterPro Entry A2VEC9

    ProtoNet protein and cluster: A2VEC9

    UniProtKB/Swiss-Prot: SSPO_HUMAN, A2VEC9
    Similarity: Belongs to the thrombospondin family
    Similarity: Contains 1 CTCK (C-terminal cystine knot-like) domain
    Similarity: Contains 2 EGF-like domains
    Similarity: Contains 1 EMI domain
    Similarity: Contains 1 F5/8 type C domain
    Similarity: Contains 10 LDL-receptor class A domains
    Similarity: Contains 6 TIL (trypsin inhibitory-like) domains
    Similarity: Contains 24 TSP type-1 domains
    Similarity: Contains 3 VWFC domains
    Similarity: Contains 3 VWFD domains


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section

    Function Summary:

         UniProtKB/Swiss-Prot: SSPO_HUMAN, A2VEC9
    Function: Involved in the modulation of neuronal aggregation. May be involved in developmental events during the
    formation of the central nervous system (By similarity)

    Enzyme Numbers (IUBMB): EC 3.4.24.822 EC 3.4.21.92

    miRNA
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    Inhib. RNA
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    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for SSPO (see all 4)
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SSPO

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0030414peptidase inhibitor activity IEA--


    SSPO for ontologies           About GeneDecksing


    1 GenomeRNAi human phenotype for SSPO:
     Decreased Hepatitis C virus re 


    (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 SSPO

    4 Interacting proteins for SSPO (A2VEC93) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    ATN1P542593I2D: score=1 
    TNFP013753I2D: score=1 
    TTC28Q96AY43I2D: score=1 
    --Q9BTQ83I2D: score=1 
    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:0007155cell adhesion IEA--


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

    Browse Tocris compounds for SSPO
    Search CenterWatch for drugs/clinical trials and news about SSPO 

    (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, 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 SSPO gene: 
    NM_198455.2  

    Unigene Cluster for SSPO:

    SCO-spondin homolog (Bos taurus)
    Hs.632022  [show with all ESTs]
    Unigene Representative Sequence: NM_198455
    18 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000486824 ENST00000465080 ENST00000477518 ENST00000493502 ENST00000475488
    ENST00000472797 ENST00000484709 ENST00000481772 ENST00000478854 ENST00000464974
    ENST00000493567(uc003wgi.1) ENST00000492965 ENST00000488835 ENST00000461331
    ENST00000465639 ENST00000472850 ENST00000378016(uc010lpk.3 uc010lpm.1 uc003wgg.2 uc003wgh.2)
    ENST00000262089(uc010lpl.1)

    miRNA
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    Browse OriGene MicroRNA Expression Plasmids
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat SSPO
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    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
    Products:
         
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for SSPO (see all 4)
    OriGene shRNA RFP: SSPO
    Browse OriGene siRNA
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    Clone
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    OriGene custom cloning services – gene synthesis, subcloning, mutagenesis, variant library, vector shuttling 
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SSPO
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SSPO

    Additional cDNA sequence: 

    AB111888.1 AK093431.1 AK123170.1 AK124542.1 AK127639.1 AY927596.1 AY927597.1 AY927598.1 

    14 DOTS entries:

    DT.40120872  DT.101978156  DT.121117204  DT.91724197  DT.101978155  DT.121117281  DT.75188456  DT.86842802 
    DT.121117166  DT.121117174  DT.121117177  DT.121117239  DT.121117258  DT.121117255 

    24/125 AceView cDNA sequences (see all 125):

    AI478769 BQ581619 BM843562 BQ054043 AA936481 CN479285 AI807308 BU682460 
    AI862979 BF980931 CD513434 BX366047 BX118218 BM661857 T82326 BE646060 
    BM689825 CR617664 AA854703 AA328896 AI087221 AI217935 AI870440 BU164247 

    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

    SSPO expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: GCAAGACTCC

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)

    About this image

    SSPO expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    Stem Cell Differentiation: 1 LifeMap Cell 
    NameCategory
    PureStem™ mesenchymal progenitor 7PEND24 (Embryonic Progenitor Cell)Cartilage, Neural Crest
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization

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

    SOURCE GeneReport for Unigene cluster: Hs.632022
        SABiosciences Custom PCR Arrays for SSPO
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SSPO

    (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 chordates.

    Orthologs for SSPO gene from 3/6 species (see all 6)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Sspo1 , 5 SCO-spondin1, 5 79.55(n)1
    76.26(a)1
      6 (23.42 cM)5
    2433691  NM_173428.31  NP_775604.31 
     484482295 
    chicken
    (Gallus gallus)
    Aves SSPO1 SCO-spondin homolog (Bos taurus) 62.17(n)
    53.36(a)
      420367  NM_001006351.2  NP_001006351.2 
    zebrafish
    (Danio rerio)
    Actinopterygii scospondin1 subcommissural organ spondin 53.82(n)
    46.96(a)
      100036547  XM_001920299.3  XP_001920334.3 


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

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
      --

    (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

    10/378 NCBI SNPs in SSPO are shown (see all 378    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 7 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs801915021,2
    F,--143603514(+) CCCTCC/TCCACA 1 -- int12Minor allele frequency- T:0.05NA EA 240
    rs745389821,2
    C,--143603573(+) CACCTC/TGTTCT 1 -- int12Minor allele frequency- T:0.14WA 120
    rs8556761,2
    C,F,O,A,H,--148810326(-) TTCGAG/AGGTCT 1 -- us2k123Minor allele frequency- A:0.22MN NS EA NA WA CSA 2518
    rs587694821,2
    --148810713(+) AGTCCC/TTGAAA 1 -- us2k12Minor allele frequency- T:0.08CSA WA 120
    rs759242001,2
    C,F,--148810751(+) AGAAAT/GGGAGG 1 -- us2k12Minor allele frequency- G:0.08WA NA 238
    rs737256011,2
    C,--148810868(+) GAAACA/GGATGC 1 -- us2k13Minor allele frequency- G:0.08WA NA 240
    rs1129478601,2
    C,--148810897(+) GGAGAG/CTGTTT 1 -- us2k11Minor allele frequency- C:0.50NA 2
    rs791587351,2
    C,F,--148811034(+) GGGAGG/CCTGCG 1 -- us2k12Minor allele frequency- C:0.08WA NA 238
    rs358604681,2
    C,F,--148811129(+) TGCCCT/CGGGGG 1 -- us2k12Minor allele frequency- C:0.06WA NA 238
    rs354580231,2
    C,F,--148811138(+) GGTGAG/TGGCAC 1 -- us2k12Minor allele frequency- T:0.05WA NA 238

    HapMap Linkage Disequilibrium report for SSPO (149473131 - 149531068 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 7 variations for SSPO
         6 CNVs: 52149 53471 52148 3709 52146 52147
         1 Indel: 28490

    SABiosciences Cancer Mutation PCR Assays
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    (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.)
    About This Section

    SSPO for disorders           About GeneDecksing

    3 diseases for SSPO:    About MalaCards
    ataxia    neuroblastoma    neuronitis

    Human Genome Epidemiology (HuGE) Navigator: SSPO (3 documents)

    Export disorders for SSPO 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 SSPO gene, integrated from 9 sources (see all 23):
    (articles sorted by number of sources associating them with SSPO)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Subcommissural organ/Reissner's fiber complex: charac terization of SCO-spondin, a glycoprotein with potent activity on neurite outgr owth. (PubMed id 11008217)1, 3, 9 Gobron S....Meiniel A. (2000)
    2. The complex multidomain organization of SCO-spondin protein is highly conserved in mammals. (PubMed id 17126404)1, 2, 9 Meiniel O. and Meiniel A. (2007)
    3. SCO-spondin: a new member of the thrombospondin family secreted by the subcommissural organ is a candidate in the modulation of neuronal aggregation. (PubMed id 8743952)1, 3 Gobron S....Meiniel A. (1996)
    4. Placental expression of SCO-spondin during mouse and human development. (PubMed id 15053980)1, 9 Goncalves-Mendes N....Sapin V. (2004)
    5. The thrombospondin type 1 repeat (TSR) and neuronal differentiation: roles of SCO-spondin oligopeptides on neuronal cell types and cell lines. (PubMed id 14692680)1, 9 Meiniel A....Dastugue B. (2003)
    6. Variation at the NFATC2 locus increases the risk of t hiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipr il and rosiglitazone Medication (DREAM) study. (PubMed id 20628086)1 Bailey S.D....Anand S. (2010)
    7. Gene-centric association signals for lipids and apoli poproteins identified via the HumanCVD BeadChip. (PubMed id 19913121)1 Talmud P.J.... . (2009)
    8. The lengthening of a giant protein: when, how, and why? (PubMed id 18046595)1 Meiniel O....Petit D. (2008)
    9. A protein-protein interaction network for human inherited ataxias and disorders of Purkinje cell degeneration. (PubMed id 16713569)1 Lim J.... Zoghbi H.Y. (2006)
    10. Transcriptional maps of 10 human chromosomes at 5-nucleotide resolution. (PubMed id 15790807)1 Cheng J....Gingeras T.R. (2005)

    (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, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 23145 HGNC: 21998 AceView: KIAA0543.2 Ensembl:ENSG00000197558 euGenes: HUgn23145
    ECgene: SSPO H-InvDB: SSPO

    (According to HUGE)
    About This Section
    HUGE: KIAA0543 KIAA2036

    (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 SSPO 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 SSPO gene:
    Search GeneIP for patents involving SSPO

    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, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, 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
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    GeneCards Homepage - Last full update: 18 Mar 2013 - Incrementals: 21 Mar 2013 , 15 Apr 2013 , 26 Apr 2013

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