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

SPNS2 Gene

protein-coding   GIFtS: 40
GCID: GC17P004349

spinster homolog 2 (Drosophila)

  Search for SPNS2
in our new
 Human Malady Compendium 
Biological research products
for SPNS2
    

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

Aliases
Spinster Homolog 2 (Drosophila)1 2
Protein Spinster Homolog 22

External Ids:    HGNC: 269921   Entrez Gene: 1249762   Ensembl: ENSG000001830187   OMIM: 6125845   UniProtKB: Q8IVW83   

Export aliases for SPNS2 gene to outside databases


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

UniProtKB/Swiss-Prot: SPNS2_HUMAN, Q8IVW8
Function: Sphingolipid transporter required for migration of myocardial precursors. Transports sphingosine 1-phosphate
(S1P), a secreted lipid mediator that plays critical roles in cardiovascular, immunological, and neural development
and function. Mediates the export of S1P from cells in the extraembryonic yolk syncytial layer (YSL), thereby
regulating myocardial precursor migration




(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_000017.10  NC_018928.1  NT_010718.16  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SPNS2 gene promoter:
         ER-alpha   RP58   Pax-5   GATA-1   AREB6   FAC1   ARP-1   c-Myb   Zic3   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for SPNS2

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SPNS2


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

Entrez Gene cytogenetic band: 17p13.2   Ensembl cytogenetic band:  17p13.2   HGNC cytogenetic band: 17p13.2

SPNS2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SPNS2 gene location

GeneLoc information about chromosome 17         GeneLoc Exon Structure

GeneLoc location for GC17P004349:  view genomic region     (about GC identifiers)

Start:
4,402,129 bp from pter      End:
4,443,228 bp from pter
Size:
41,100 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: SPNS2_HUMAN, Q8IVW8 (See protein sequence)
Recommended Name: Protein spinster homolog 2  
Size: 549 amino acids; 58044 Da
Subcellular location: Membrane; Multi-pass membrane protein (Potential)
Secondary accessions: B9A1T3

Explore the universe of human proteins at neXtProt for SPNS2: NX_Q8IVW8

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q8IVW8

  • SPNS2 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_001118230.1  
    ENSEMBL proteins: 
     ENSP00000333292   ENSP00000461410  

    Human Recombinant Protein Products: 
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    Uscn Proteins for SPNS2

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0016021integral to membrane IEA--


    SPNS2 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

    SPNS2 for domains           About GeneDecksing

    3 InterPro domains/families:
     IPR020846 MFS_dom
     IPR011701 MFS
     IPR016196 MFS_dom_general_subst_transpt

    Graphical View of Domain Structure for InterPro Entry Q8IVW8

    ProtoNet protein and cluster: Q8IVW8

    UniProtKB/Swiss-Prot: SPNS2_HUMAN, Q8IVW8
    Similarity: Belongs to the major facilitator (TC 2.A.1) superfamily. Spinster (TC 2.A.1.49) family


    (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: SPNS2_HUMAN, Q8IVW8
    Function: Sphingolipid transporter required for migration of myocardial precursors. Transports sphingosine 1-phosphate
    (S1P), a secreted lipid mediator that plays critical roles in cardiovascular, immunological, and neural development
    and function. Mediates the export of S1P from cells in the extraembryonic yolk syncytial layer (YSL), thereby
    regulating myocardial precursor migration

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    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat SPNS2
    8/31 QIAGEN miScript miRNA Assays for microRNAs that regulate SPNS2 (see all 31):
    hsa-miR-579 hsa-miR-485-5p hsa-miR-631 hsa-let-7a-2* hsa-miR-578 hsa-miR-181a-2* hsa-miR-650 hsa-miR-3661
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
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    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for SPNS2 (see all 7)
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    OriGene siRNA: SPNS2
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    Clone
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    Animal Models:
         Mouse knock-outs for SPNS2: Spns2tm1b(KOMP)Wtsi Spns2tm1.2Nmoc
         10 MGI mutant phenotypes (inferred from 5 alleles(MGI details for Spns2):
     behavior/neurological  cardiovascular system  cellular  hearing/vestibular/ear  hematopoietic system 
     homeostasis/metabolism  immune system  pigmentation  skeleton  vision/eye 

    SPNS2 for phenotypes           About GeneDecksing


    (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 SPNS2

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006869lipid transport IEA--
    GO:0055085transmembrane transport IEA--


    SPNS2 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 SPNS2
    Search CenterWatch for drugs/clinical trials and news about SPNS2 

    (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 SPNS2 gene: 
    NM_001124758.1  

    Unigene Cluster for SPNS2:

    Spinster homolog 2 (Drosophila)
    Hs.22824  [show with all ESTs]
    Unigene Representative Sequence: NM_001124758
    8 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000329078(uc002fxx.2) ENST00000571386 ENST00000576635 ENST00000571668
    ENST00000573106 ENST00000573990 ENST00000570641 ENST00000570979(uc002fxy.2)


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    8/31 QIAGEN miScript miRNA Assays for microRNAs that regulate SPNS2 (see all 31):
    hsa-miR-579 hsa-miR-485-5p hsa-miR-631 hsa-let-7a-2* hsa-miR-578 hsa-miR-181a-2* hsa-miR-650 hsa-miR-3661
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
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    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for SPNS2 (see all 7)
    OriGene shRNA RFP: SPNS2
    OriGene siRNA: SPNS2
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    Clone
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SPNS2
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SPNS2

    Additional cDNA sequence: 

    AB441165.1 BC041772.1 BC065221.1 

    16 DOTS entries:

    DT.100798032  DT.100798044  DT.40231828  DT.95367109  DT.100798034  DT.100728624  DT.100798037  DT.100798038 
    DT.455190  DT.95153081  DT.95293132  DT.100717857  DT.100798040  DT.121003724  DT.95373349  DT.97853605 

    24/116 AceView cDNA sequences (see all 116):

    AI268088 BM727337 AI183511 AW055312 BF111023 BX096396 AI184425 BE047248 
    CR602862 BM857149 AI355796 BE042416 AW089043 AI913186 AW450188 BM679233 
    AI124640 AW298213 BM670496 AA535318 AI222569 AW028876 AI244723 AI560219 

    GeneLoc Exon Structure

    5/7 Alternative Splicing Database (ASD) splice patterns (SP) for SPNS2 (see all 7)    About this scheme

    ExUns: 1a · 1b ^ 2 ^ 3a · 3b · 3c ^ 4 ^ 5a · 5b ^ 6a · 6b ^ 7a · 7b · 7c · 7d · 7e
    SP1:                    -     -                 -     -     -                                       
    SP2:                    -     -                                                                     
    SP3:                    -     -                 -     -     -                                       
    SP4:                    -     -                             -                                       
    SP5:                                                        -                                       


    ECgene alternative splicing isoforms for SPNS2

    (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

    SPNS2 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: CACACACCAG

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

    About this image

    SPNS2 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: 4 LifeMap Cells 
    NameCategory
    PureStem™ endothelial progenitor 30-MV2-12 (Embryonic Progenitor Cell)Blood, Endothelium
    PureStem™ endothelial Progenitor 30-SM2-3 (Embryonic Progenitor Cell)Blood, Endothelium
    PureStem™ endothelial progenitor 30-SM2-1 (Embryonic Progenitor Cell)Endothelium
    PureStem™ endothelial progenitor 30-MV2-14 (Embryonic Progenitor Cell)Endothelium
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization

    See SPNS2 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SPNS2

    SOURCE GeneReport for Unigene cluster: Hs.22824
        SABiosciences Custom PCR Arrays for SPNS2
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SPNS2

    (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 eukaryotes.

    Orthologs for SPNS2 gene from 7/24 species (see all 24)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    chicken
    (Gallus gallus)
    Aves SPNS21 spinster homolog 2 (Drosophila) 78.59(n)
    92.89(a)
      417492  XM_415740.3  XP_415740.3 
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia Str.181392 Transcribed sequence with weak similarity to protein more 81.22(n)    AL959825.2 
    zebrafish
    (Danio rerio)
    Actinopterygii spns21 spinster homolog 2 (Drosophila) 68.74(n)
    73.35(a)
      568117  NM_001083847.1  NP_001077316.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta spin6
    spinster
    32(a)
    1 → many
    2R(12012488-12025743)
    worm
    (Caenorhabditis elegans)
    Secernentea Y111B2A.196
    C13C4.56
    (see all 4)
    Protein C13C4.5
    (see all 4)
    35(a)
    34(a)
    (see all 4)
    many ↔ many
    many ↔ many
    (see all 4)
    III(12688172-12697445)
    V(12114972-12117542)
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT5G656876
    AT2G227306
    (see all 3)
    major facilitator protein
    (see all 3)
    22(a)
    21(a)
    (see all 3)
    many ↔ many
    many ↔ many
    (see all 3)
    5(26269856-26272899)
    2(9660964-9664133)
    rice
    (Oryza sativa)
    Liliopsida --
    transporter, major facilitator family, putative, e...
    18(a)
    1 → many
    4(26114305-26122622)


    ENSEMBL Gene Tree for SPNS2 (if available)
    TreeFam Gene Tree for SPNS2 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SPNS2 gene
    SPNS32  SPNS12  
    2 SIMAP similar genes for SPNS2 using alignment to 2 protein entries:     SPNS2_HUMAN (see all proteins):
    SPNS1    SPNS3

    SPNS2 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

    10/886 NCBI SNPs in SPNS2 are shown (see all 886    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 17 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1156823251,2
    C,F,--4400260(+) AAGAGA/CATGCT 1 -- us2k11Minor allele frequency- C:0.07WA 118
    rs1415652931,2
    --4400283(+) AAGGCC/TGAAAG 1 -- us2k10--------
    rs1126876271,2
    C,--4400284(+) AGGCCG/AAAAGT 1 -- us2k12Minor allele frequency- A:0.06NA 122
    rs591652591,2
    C,--4400304(+) GACAGG/CACTGT 1 -- us2k12Minor allele frequency- C:0.07WA 120
    rs116574641,2
    C,F,A,H,--4400333(+) TTTTGA/GGGCAC 1 -- us2k112Minor allele frequency- G:0.23NA WA CSA EA 376
    rs1922283511,2
    --4400338(+) GGGCAC/TGGGAA 1 -- us2k10--------
    rs3331131,2
    C,F,A,H,--4400356(+) CTGGGG/CTTGGG 1 -- us2k116Minor allele frequency- C:0.32NS EA NA WA CSA 853
    rs751750681,2
    --4400372(+) AGTTGC/TGGTTG 1 -- us2k10--------
    rs80749651,2
    C,F,--4400384(+) GCCTCC/ATTCAC 1 -- us2k17Minor allele frequency- A:0.44NA WA CSA 247
    rs116577851,2
    C,F,A,H,--4400392(+) CACCAT/CTAGAC 1 -- us2k17Minor allele frequency- C:0.12NA 134

    HapMap Linkage Disequilibrium report for SPNS2 (4402129 - 4443228 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 1 variation for SPNS2
         1 CNV: 4984

    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SPNS2
    DNA2.0 Custom Variant and Variant Library Synthesis for SPNS2

    (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

    SPNS2 for disorders           About MalaCards

    SPNS2 for disorders           About GeneDecksing

    OMIM gene information: 612584    OMIM disorders: --


    Export disorders for SPNS2 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 SPNS2 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with SPNS2)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. The sphingolipid transporter spns2 functions in migration of zebrafish myocardial precursors. (PubMed id 19074308)1, 2 Kawahara A....Mochizuki N. (2009)
    2. HSpin1, a transmembrane protein interacting with Bcl-2/Bcl-xL, induces a caspase-independent autophagic cell death. (PubMed id 12815463)1, 3 Yanagisawa H.... Yamamoto D. (2003)
    3. The sphingosine 1-phosphate transporter, SPNS2, funct ions as a transporter of the phosphorylated form of the immunomodulating agent FTY720. (PubMed id 21084291)1 Hisano Y....Nishi T. (2011)
    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. (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. (2002)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Free Text  

      Query String
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 124976 HGNC: 26992 AceView: LOC124976 Ensembl:ENSG00000183018 euGenes: HUgn124976
    ECgene: SPNS2 H-InvDB: SPNS2

    (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 SPNS2 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 SPNS2 gene:
    Search GeneIP for patents involving SPNS2

    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: 19 Mar 2013 - Incrementals: 21 Mar 2013 , 15 Apr 2013 , 26 Apr 2013

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