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

SLC39A3 Gene

protein-coding   GIFtS: 51
GCID: GC19M002732

solute carrier family 39 (zinc transporter), member 3

 Explore 6 diseases affiliated with
SLC39A3 via our new
 Human Malady Compendium 
Biological research products
for SLC39A3
    

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

Aliases
Solute Carrier Family 39 (Zinc Transporter), Member 31 2
ZIP31 2 3 5
Solute Carrier Family 39 Member 32 3
Zrt- And Irt-Like Protein 32 3
ZIP-32 3
Zinc Transporter ZIP32

External Ids:    HGNC: 171281   Entrez Gene: 299852   Ensembl: ENSG000001418737   OMIM: 6121685   UniProtKB: Q9BRY03   

Export aliases for SLC39A3 gene to outside databases

Previous GC identifers: GC19M002795 GC19M002672 GC19M002683 GC19M002502


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

UniProtKB/Swiss-Prot: S39A3_HUMAN, Q9BRY0
Function: Acts as a zinc-influx transporter (Potential)

Gene Wiki entry for SLC39A3


(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_000019.9  NC_018930.1  NT_011255.14  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SLC39A3 gene promoter:
         E2F-4   E2F-3a   NF-1   NF-1/L   E2F-5   Pax-5   E2F-2   E47   E2F   E2F-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSLC39A3 promoter sequence
   Search SABiosciences Chromatin IP Primers for SLC39A3

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SLC39A3


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

Entrez Gene cytogenetic band: 19p13.3   Ensembl cytogenetic band:  19p13.3   HGNC cytogenetic band: 19p13.3

SLC39A3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SLC39A3 gene location

GeneLoc information about chromosome 19         GeneLoc Exon Structure

GeneLoc location for GC19M002732:  view genomic region     (about GC identifiers)

Start:
2,732,202 bp from pter      End:
2,740,150 bp from pter
Size:
7,949 bases      Orientation:
minus 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: S39A3_HUMAN, Q9BRY0 (See protein sequence)
Recommended Name: Zinc transporter ZIP3  
Size: 314 amino acids; 33601 Da
Subcellular location: Membrane; Multi-pass membrane protein (Potential)
Secondary accessions: B3KMJ3 Q8WUG1
Alternative splicing: 2 isoforms:  Q9BRY0-1   Q9BRY0-2   

Explore the universe of human proteins at neXtProt for SLC39A3: NX_Q9BRY0

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q9BRY0

  • SLC39A3 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins (2 alternative transcripts): 
    NP_653165.2  NP_998733.1  

    ENSEMBL proteins: 
     ENSP00000445345   ENSP00000269740   ENSP00000465383   ENSP00000466969   ENSP00000393715  
    Reactome Protein details: Q9BRY0
    Human Recombinant Protein Products: 
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    Novus Biologicals SLC39A3 Proteins
    Novus Biologicals SLC39A3 Lysates
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    Browse ProSpec Recombinant Proteins
    Uscn Proteins for SLC39A3

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005886plasma membrane TAS--
    GO:0016020membrane ----
    GO:0016021integral to membrane IEA--


    SLC39A3 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

    SLC39A3 for domains           About GeneDecksing

    1 InterPro domain/family:
     IPR003689 ZIP

    Graphical View of Domain Structure for InterPro Entry Q9BRY0

    ProtoNet protein and cluster: Q9BRY0

    1 Blocks protein family: IPB003689 Zinc transporter ZIP

    UniProtKB/Swiss-Prot: S39A3_HUMAN, Q9BRY0
    Similarity: Belongs to the ZIP transporter (TC 2.A.5) 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: S39A3_HUMAN, Q9BRY0
    Function: Acts as a zinc-influx transporter (Potential)

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005385zinc ion transmembrane transporter activity IEA--
    GO:0046873metal ion transmembrane transporter activity ----


    SLC39A3 for ontologies           About GeneDecksing


    2 GenomeRNAi human phenotypes for SLC39A3:
     Decreased cell number  Increased gamma-H2AX phosphory 

    Animal Models:
         9 MGI mutant phenotypes (inferred from 1 allele(MGI details for Slc39a3):
     cellular  craniofacial  embryogenesis  growth/size  hematopoietic system 
     immune system  integument  limbs/digits/tail  other 

    SLC39A3 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

    Unified GeneCards pathways  About this table 
    See pathways by source

    Super-pathwaycontained gene-specific pathways
    1Zinc transporters
    Zinc transporters1.00
    Zinc influx into cells by the SLC39 gene family0.59
    Metal ion SLC transporters0.68
    2SLC-mediated transmembrane transport
    SLC-mediated transmembrane transport1.00
    Transport of glucose and other sugars, bile salts and organic acids, metal ions and amine compounds0.38
    Transmembrane transport of small molecules0.50
    3Senescence and Autophagy
    Senescence and Autophagy1.00

    Pathway sources
    See GeneCards unified pathways
    Show all pathways


    1 BioSystems Pathway for SLC39A3 
        Senescence and Autophagy

    5/6        Reactome Pathways for SLC39A3 (see all 6)
        SLC-mediated transmembrane transport
    Transmembrane transport of small molecules
    Transport of glucose and other sugars, bile salts and organic acids, metal ions and amine compounds
    Metal ion SLC transporters
    Zinc transporters



    SLC39A3 for pathways           About GeneDecksing

    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SLC39A3

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006829zinc ion transport ----
    GO:0055085transmembrane transport TAS--
    GO:0071577zinc ion transmembrane transport ----


    SLC39A3 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

    SLC39A3 for compounds           About GeneDecksing

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

    Browse Tocris compounds for SLC39A3
    1 Novoseek chemical compound relationship for SLC39A3 gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    zinc 49.9 12 17550612 (5), 14525987 (2), 9618566 (2), 16579854 (1)

    Search CenterWatch for drugs/clinical trials and news about SLC39A3 / S39A3 

    (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 SLC39A3 gene (2 alternative transcripts): 
    NM_144564.4  NM_213568.1  

    Unigene Cluster for SLC39A3:

    Solute carrier family 39 (zinc transporter), member 3
    Hs.515046  [show with all ESTs]
    Unigene Representative Sequence: NM_213568
    6 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000545664(uc010xgy.1) ENST00000269740(uc002lwg.3) ENST00000589363
    ENST00000589166 ENST00000455372(uc002lwh.3) ENST00000590875

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    Additional cDNA sequence: 

    AF052125.1 AK002044.1 AK302600.1 BC000815.1 BC005869.2 BC017009.1 BC020571.2 

    9 DOTS entries:

    DT.92467834  DT.40109064  DT.100695526  DT.114968  DT.100695540  DT.97870631  DT.100695521  DT.92467889 
    DT.75135177 

    24/270 AceView cDNA sequences (see all 270):

    CR591681 BM423900 BE561420 AI648534 AW294494 BQ217868 NM_144564 BQ575165 
    BC005869 CF140560 AW438707 BI830404 BE792986 BG740036 BM671256 BX281206 
    BM725926 BF060728 CB155213 CR598984 CA447580 CR591971 CR618109 BU184570 

    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

    SLC39A3 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: ATCCCCCTGG

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

    About this image

    SLC39A3 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
    ES04(HES-4) (Embryonic Stem Cell)Early Embryo, Inner Cell Mass
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization

    See SLC39A3 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SLC39A3

    SOURCE GeneReport for Unigene cluster: Hs.515046
        SABiosciences Custom PCR Arrays for SLC39A3
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SLC39A3

    (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 SLC39A3 gene from 7/24 species (see all 24)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Slc39a31 , 5 solute carrier family 39 (zinc transporter), member more1, 5 81.74(n)1
    84.08(a)1
      10 (39.72 cM)5
    1069471  NM_134135.11  NP_598896.11 
     810285385 
    chicken
    (Gallus gallus)
    Aves SLC39A31 solute carrier family 39 (zinc transporter), member more 76.89(n)
    73.16(a)
      429050  XM_003642874.1  XP_003642922.1 
    African clawed frog
    (Xenopus laevis)
    Amphibia BJ611819.12   -- 70.6(n)    BJ611819.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta ZIP16
    CG94306
    (see all 4)
    --
    24(a)
    23(a)
    (see all 4)
    possible ortholog
    possible ortholog
    (see all 4)
    2R(2603847-2605312)
    2R(2605785-2607038)
    worm
    (Caenorhabditis elegans)
    Secernentea Y54G9A.46
    F30B5.76
    (see all 4)
    Protein F30B5.7
    (see all 4)
    24(a)
    20(a)
    (see all 4)
    possible ortholog
    possible ortholog
    (see all 4)
    II(13712949-13715802)
    IV(4229130-4231854)
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons ZIP116
    ZIP26
    zinc transporter 2
    22(a)
    18(a)
    many ↔ many
    many ↔ many
    1(20906134-20907413)
    5(23991253-23992798)
    rice
    (Oryza sativa)
    Liliopsida --
    ZIP26
    (see all 4)
    metal cation transporter, putative, expressed
    (see all 4)
    23(a)
    20(a)
    (see all 4)
    many ↔ many
    many ↔ many
    (see all 4)
    8(26644120-26644540)
    3(17006829-17010137)


    ENSEMBL Gene Tree for SLC39A3 (if available)
    TreeFam Gene Tree for SLC39A3 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SLC39A3 gene
    SLC39A12  SLC39A22  
    2 SIMAP similar genes for SLC39A3 using alignment to 4 protein entries:     S39A3_HUMAN (see all proteins):
    SLC39A1    SLC39A2

    SLC39A3 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

    10/227 NCBI SNPs in SLC39A3 are shown (see all 227    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 19 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1892345891,2
    --2732215(+) GAGCCC/TGGCTG 1 -- ds50010--------
    rs1810104971,2
    --2732228(+) CCATCA/GCAGTG 1 -- ds50010--------
    rs1164131421,2
    F,--2732348(+) ACAGGC/TGGCGC 1 -- ds50011Minor allele frequency- T:0.03WA 118
    rs1474997501,2
    --2732349(+) CAGGCA/GGCGCG 1 -- ds50010--------
    rs1485650131,2
    --2732353(+) CGGCGC/TGGCCC 1 -- ds50010--------
    rs747233131,2
    --2732388(+) GCTCCC/TGTCCT 1 -- ds50010--------
    rs1510585661,2
    --2732448(+) CTCACC/TGGGAC 1 -- ds50010--------
    rs1398282661,2
    --2732495(+) CCCACA/GGCCCG 1 -- ds50010--------
    rs1439504701,2
    --2732664(+) CTCTT-/GGGGGA
    CGCGCGGCC
    GGGGG
    1 -- ut310--------
    rs1860748961,2
    --2732679(+) CGGCCA/GGGGGA 1 -- ut310--------

    HapMap Linkage Disequilibrium report for SLC39A3 (2732202 - 2740150 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for SLC39A3: --

    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SLC39A3
    DNA2.0 Custom Variant and Variant Library Synthesis for SLC39A3

    (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

    SLC39A3 for disorders           About GeneDecksing

    OMIM gene information: 612168    OMIM disorders: --

    6 diseases for SLC39A3:    About MalaCards
    bipolar disorder    prostate cancer, progression of    prostate cancer    prostatitis
    adenocarcinoma    pancreatitis

    Human Genome Epidemiology (HuGE) Navigator: SLC39A3 (1 document)

    Export disorders for SLC39A3 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 SLC39A3 gene, integrated from 9 sources (see all 22):
    (articles sorted by number of sources associating them with SLC39A3)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    2. Functional expression of the human hZIP2 zinc transporter. (PubMed id 10681536)1, 3 Gaither L.A. and Eide D.J. (2000)
    3. hZip2 and hZip3 zinc transporters are down regulated in human prostate adenocarcinomatous glands. (PubMed id 17550612)1, 9 Desouki M.M....Costello L.C. (2007)
    4. Structure, function, and regulation of a subfamily of mouse zinc transporter genes. (PubMed id 14525987)1, 9 Dufner-Beattie J....Andrews G.K. (2003)
    5. Expression of the zinc transporters genes and metallot hionein in obese women. (PubMed id 21053094)1 dos Santos Rocha P.B....do Nascimento Marreiro D. (2011)
    6. Decreased zinc and downregulation of ZIP3 zinc uptake transporter in the development of pancreatic adenocarcinoma. (PubMed id 21613827)1 Costello L.C....Franklin R.B. (2011)
    7. Mass spectrometric analysis of lysine ubiquitylation r eveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (2011)
    8. Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis. (PubMed id 20068231)2 Olsen J.V....Mann M. (2010)
    9. 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)
    10. Findings from bipolar disorder genome-wide association studies replicate in a Finnish bipolar family-cohort. (PubMed id 19308021)1 Ollila H.M....Paunio T. (2009)

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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 29985 HGNC: 17128 AceView: SLC39A3 Ensembl:ENSG00000141873 euGenes: HUgn29985
    ECgene: SLC39A3 H-InvDB: SLC39A3

    (According to HUGE)
    About This Section
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    (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 SLC39A3 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
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    IP news from LifeMap Sciences, Inc.)
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    Patent Information for SLC39A3 gene:
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