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

SNX15 Gene

protein-coding   GIFtS: 53
GCID: GC11P064782

sorting nexin 15

 Explore 5 diseases affiliated with
SNX15 via our new
 Human Malady Compendium 
Biological research products
for SNX15
    

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

This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
Sorting Nexin 151 2
HSAF0014352
Clone Iota Unknown Protein2
Sorting Nexin-152

External Ids:    HGNC: 149781   Entrez Gene: 299072   Ensembl: ENSG000001100257   OMIM: 6059645   UniProtKB: Q9NRS63   
ORGUL members:         
NONCODE:n410508    

Export aliases for SNX15 gene to outside databases

Previous GC identifers: GC11P067310 GC11P066463 GC11P065031 GC11P064557 GC11P064538 GC11P064552 GC11P061121


(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 SNX15:
This gene encodes a member of the sorting nexin family. Members of this family contain a phox (PX) domain, which is a
phosphoinositide binding domain, and are involved in intracellular trafficking. Overexpression of this gene results in
a decrease in the processing of insulin and hepatocyte growth factor receptors to their mature subunits. This decrease
is caused by the mislocalization of furin, the endoprotease responsible for cleavage of insulin and hepatocyte growth
factor receptors. This protein is involved in endosomal trafficking from the plasma membrane to recycling endosomes or
the trans-Golgi network. Alternative splicing results in multiple transcript variants. Read-through transcription also
exists between this gene and the upstream ADP-ribosylation factor-like 2 (ARL2) gene. (provided by RefSeq, Dec 2010)

UniProtKB/Swiss-Prot: SNX15_HUMAN, Q9NRS6
Function: May be involved in several stages of intracellular trafficking. Overexpression of SNX15 disrupts the normal
trafficking of proteins from the plasma membrane to recycling endosomes or the TGN

Gene Wiki entry for SNX15


(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_000011.9  NC_018922.1  NT_167190.1  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SNX15 gene promoter:
         STAT1   Tal-1   p53   MAZR   Brachyury   SREBP-1c   E47   SREBP-1b   AREB6   SREBP-1a   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSNX15 promoter sequence
   Search SABiosciences Chromatin IP Primers for SNX15

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SNX15


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

Entrez Gene cytogenetic band: 11q12   Ensembl cytogenetic band:  11q13.1   HGNC cytogenetic band: 11q12

SNX15 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SNX15 gene location

GeneLoc information about chromosome 11         GeneLoc Exon Structure

GeneLoc location for GC11P064782:  view genomic region     (about GC identifiers)

Start:
64,781,654 bp from pter      End:
64,808,044 bp from pter
Size:
26,391 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: SNX15_HUMAN, Q9NRS6 (See protein sequence)
Recommended Name: Sorting nexin-15  
Size: 342 amino acids; 38291 Da
Subunit: Homodimer. Interacts with SNX1, SNX2 and SNX4
Subcellular location: Cytoplasm. Membrane; Peripheral membrane protein; Cytoplasmic side. Cytoplasmic vesicle membrane;
Peripheral membrane protein; Cytoplasmic side
Secondary accessions: Q9NRS5
Alternative splicing: 2 isoforms:  Q9NRS6-1   Q9NRS6-2   

Explore the universe of human proteins at neXtProt for SNX15: NX_Q9NRS6

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q9NRS6

  • SNX15 Protein expression data from MOPED and PaxDb:    About this image 
    SNX15 Protein Expression
    REFSEQ proteins (2 alternative transcripts): 
    NP_037438.2  NP_680086.2  

    ENSEMBL proteins: 
     ENSP00000366452   ENSP00000434778   ENSP00000437277   ENSP00000431690   ENSP00000316410  
     ENSP00000436023  

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    Uscn Proteins for SNX15

    Gene Ontology (GO): 5 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005730nucleolus IDA--
    GO:0005737cytoplasm IDA--
    GO:0005829cytosol NAS11085978
    GO:0016020membrane NAS11085978
    GO:0030659cytoplasmic vesicle membrane IEA--

    SNX15 for ontologies           About GeneDecksing



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

    SNX15 for domains           About GeneDecksing

    2 InterPro domains/families:
     IPR001683 Phox
     IPR007330 MIT

    Graphical View of Domain Structure for InterPro Entry Q9NRS6

    ProtoNet protein and cluster: Q9NRS6

    2 Blocks protein families:
    IPB001683 Phox-like
    IPB007330 MIT


    UniProtKB/Swiss-Prot: SNX15_HUMAN, Q9NRS6
    Domain: The PX domain mediates interaction with membranes enriched in phosphatidylinositol 3-phosphate (By similarity)
    Similarity: Belongs to the sorting nexin family
    Similarity: Contains 1 MIT domain
    Similarity: Contains 1 PX (phox homology) domain


    (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

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: SNX15_HUMAN, Q9NRS6
    Function: May be involved in several stages of intracellular trafficking. Overexpression of SNX15 disrupts the normal
    trafficking of proteins from the plasma membrane to recycling endosomes or the TGN

         Gene Ontology (GO): 2 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0008565protein transporter activity NAS--
    GO:0035091phosphatidylinositol binding IEA--
         
    SNX15 for ontologies           About GeneDecksing


    Animal Models:
       inGenious Targeting Laboratory - Customizable classic, inducible, and humanized mouse model solutions for SNX15 

    miRNA
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    SwitchGear 3'UTR luciferase reporter plasmidSNX15 3' UTR sequence
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    In Situ Assay
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    (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

    Unified GeneCards pathways  About this table 
    See pathways by source

    Super-pathwaycontained gene-specific pathways
    1PDGFR-beta signaling pathway
    PDGFR-beta signaling pathway1.00


    1 BioSystems Pathway for SNX15 
        PDGFR-beta signaling pathway


    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SNX15

    4 Interacting proteins for SNX15 (Q9NRS62, 3) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    RABAC1Q9UI142, 3MINT-67772 I2D: score=5 
    TMEM66Q96BY92, 3MINT-64352 I2D: score=4 
    REEP6Q96HR93I2D: score=1 
    RTN4Q9NQC33I2D: score=1 
    About this table

    Gene Ontology (GO): 2 biological process terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006886intracellular protein transport NAS11085978
    GO:0007154cell communication IEA--

    SNX15 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 SNX15
    Search CenterWatch for drugs/clinical trials and news about SNX15 

    (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 SNX15 gene (2 alternative transcripts): 
    NM_013306.4  NM_147777.3  

    Unigene Cluster for SNX15:

    Sorting nexin 15
    Hs.80132  [show with all ESTs]
    Unigene Representative Sequence: NR_037650
    8 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000301886(uc001oci.4 uc001ock.3) ENST00000377244 ENST00000529673
    ENST00000534637 ENST00000524831 ENST00000352068 ENST00000526702 ENST00000525648


    miRNA
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    hsa-miR-34c-5p hsa-miR-449b hsa-miR-513a-3p hsa-miR-133b hsa-miR-449a hsa-miR-34a hsa-miR-935 hsa-miR-133a
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    Additional cDNA sequence: 

    AF001435.1 AF175267.2 AF175268.1 AK315034.1 AK315642.1 BC009897.2 BC012767.2 BC014520.2 
    BT006631.1 NR_037650.1 

    7 DOTS entries:

    DT.113150  DT.100828277  DT.100828278  DT.92425265  DT.100828276  DT.95296513  DT.102825943 

    24/324 AceView cDNA sequences (see all 324):

    BX111746 BC012767 AI631767 CR619183 CR595019 BE140389 AJ346501 CR614003 
    BC014520 BM853836 AA333945 NM_013306 AA325070 CB109435 AW297877 BQ691172 
    BQ957603 BE279801 BM695030 AW190262 BU730115 BC002530 NM_147777 T29292 

    GeneLoc Exon Structure

    5 Alternative Splicing Database (ASD) splice patterns (SP) for SNX15    About this scheme

    ExUns: 1a · 1b · 1c ^ 2 ^ 3a · 3b ^ 4 ^ 5 ^ 6a · 6b · 6c ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13
    SP1:                                                                                                            
    SP2:                                -                                                                           
    SP3:                                -     -     -                                                               
    SP4:                                                                                                            
    SP5:                                                                                                            


    ECgene alternative splicing isoforms for SNX15

    (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

    SNX15 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: TCTGTCTGTC
    SNX15 Expression
    About this image
    See SNX15 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SNX15

    SOURCE GeneReport for Unigene cluster: Hs.80132

    UniProtKB/Swiss-Prot: SNX15_HUMAN, Q9NRS6
    Tissue specificity: Widely expressed

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    In Situ
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    (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 SNX15 gene from 4/15 species (see all 15)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    lizard
    (Anolis carolinensis)
    Reptilia SNX156
    --
    55(a)
    1 ↔ 1
    GL344077.1(59280-69328)
    zebrafish
    (Danio rerio)
    Actinopterygii snx151 sorting nexin 15 53.05(n)
    47.87(a)
      393352  NM_001111237.1  NP_001104707.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG71566
    --
    9(a)
    1 → many
    3R(14065142-14067906)
    worm
    (Caenorhabditis elegans)
    Secernentea rskd-16
    Protein RSKD-1, isoform a
    6(a)
    1 → many
    V(12284039-12288598)


    ENSEMBL Gene Tree for SNX15 (if available)
    TreeFam Gene Tree for SNX15 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SNX15 gene
    RPS6KL12  RPS6KC12  
    1 SIMAP similar gene for SNX15 using alignment to 6 protein entries:     SNX15_HUMAN (see all proteins):
    RPS6KC1

    SNX15 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

    10/229 NCBI SNPs in SNX15 are shown (see all 229    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 11 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1396195261,2
    C--64793152(+) TGTGA-/CCACT 
            
    CCAAC
    3 -- us2k1 int10--------
    rs171465891,2
    C,F,H--64793189(+) TATGTC/TAGAGT 3 -- us2k1 int115Minor allele frequency- T:0.12NA NS EA WA CSA 929
    rs1400681001,2
    --64793217(+) TGTAGA/GTGCTG 3 -- us2k1 int10--------
    rs108975431,2
    C,A--64793278(+) TGAGAC/TGGAGT 3 -- us2k1 int11Minor allele frequency- T:0.50NA 2
    rs1864034741,2
    --64793410(+) GCACCC/TGCCAC 3 -- us2k1 int10--------
    rs1118684371,2
    C--64793418(+) CACCAC/TGCCCA 3 -- us2k1 int11Minor allele frequency- T:0.50WA 2
    rs1884624861,2
    --64793659(+) CACGCA/GTCTGC 3 -- int1 us2k10--------
    rs5023331,2
    C,F,O,H--64793738(-) CCTGAC/TCTCAG 3 -- us2k1 int127Minor allele frequency- N:0.00MN EA NA NS WA CSA 2916
    rs6336711,2
    C,F,O,H--64793865(-) TCTTGG/AGTAAG 3 -- us2k1 int118Minor allele frequency- A:0.20MN NS EA NA WA CSA 1529
    rs5004641,2
    C,F,O,H--64793960(-) TCTGAT/CCTACA 3 -- int1 us2k129Minor allele frequency- C:0.13EA NA MN NS WA CSA 2988

    HapMap Linkage Disequilibrium report for SNX15 (64781654 - 64808044 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for SNX15: --

    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SNX15
    DNA2.0 Custom Variant and Variant Library Synthesis for SNX15

    (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

    SNX15 for disorders           About GeneDecksing

    OMIM gene information: 605964    OMIM disorders: --

    5 diseases for SNX15:    About MalaCards
    spastic paraplegia    hereditary spastic paraplegia    multiple endocrine neoplasia    paraplegia
    spasticity

    1 disease from the University of Copenhagen DISEASES database for SNX15:
    Paraplegia

    Export disorders for SNX15 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 SNX15 gene, integrated from 9 sources (see all 20):
    (articles sorted by number of sources associating them with SNX15)
        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. (2004)
    2. Identification and characterization of snx15, a novel sorting nexin involved in protein trafficking. (PubMed id 11085978)1, 2 Phillips S.A.... Haft C.R. (2001)
    3. Overexpression of a novel sorting nexin, SNX15, affects endosome morphology and protein trafficking. (PubMed id 11208079)1, 3 Barr V.A....Haft C.R. (2000)
    4. A clinical, genetic and candidate gene study of Silver syndrome, a complicated form of hereditary spastic paraplegia. (PubMed id 15372247)1, 9 Warner T.T....Crosby A.H. (2004)
    5. A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (2012)
    6. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
    7. Identification of rare DNA variants in mitochondrial disorders with improved array-based sequencing. (PubMed id 20843780)1 Wang W....Scharfe C. (2010)
    8. Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions. (PubMed id 19690332)2 Mayya V.... Han D.K. (2009)
    9. Toward a confocal subcellular atlas of the human proteome. (PubMed id 18029348)1 Barbe L....Andersson-Svahn H. (2008)
    10. A quantitative atlas of mitotic phosphorylation. (PubMed id 18669648)2 Dephoure N.... Gygi S.P. (2008)

    (in PubMed, OMIM, and NCBI Bookshelf)
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 29907 HGNC: 14978 AceView: ARL2andSNX15 Ensembl:ENSG00000110025 euGenes: HUgn29907
    ECgene: SNX15 H-InvDB: SNX15

    (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 SNX15 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 SNX15 gene:
    Search GeneIP for patents involving SNX15

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



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