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

IGDCC3 Gene

protein-coding   GIFtS: 49
GCID: GC15M065619

immunoglobulin superfamily, DCC subclass, member 3

(Previous name: putative neuronal cell adhesion molecule )
(Previous symbol: PUNC)
 Explore 2 diseases affiliated with
IGDCC3 via our new
 Human Malady Compendium 
Biological research products
for IGDCC3
    

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

Aliases
Immunoglobulin Superfamily, DCC Subclass, Member 31 2
PUNC1 2 3 5
Putative Neuronal Cell Adhesion Molecule1 2 3
HsT188801 2
Immunoglobulin Superfamily DCC Subclass Member 32

External Ids:    HGNC: 97001   Entrez Gene: 95432   Ensembl: ENSG000001744987   OMIM: 6041845   UniProtKB: Q8IVU13   

Export aliases for IGDCC3 gene to outside databases

Previous GC identifers: GC15M063406 GC15M042443


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

  --

(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_000015.9  NC_018926.1  NT_010194.17  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the IGDCC3 gene promoter:
         AREB6   STAT1   NRSF form 1   STAT3   POU3F2 (N-Oct-5b)   POU3F2 (N-Oct-5a)   AP-4   NRSF form 2   POU3F2   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidIGDCC3 promoter sequence
   Search SABiosciences Chromatin IP Primers for IGDCC3

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat IGDCC3


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

Entrez Gene cytogenetic band: 15q22.3-q23   Ensembl cytogenetic band:  15q22.31   HGNC cytogenetic band: 15q22.3-q23

IGDCC3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
IGDCC3 gene location

GeneLoc information about chromosome 15         GeneLoc Exon Structure

GeneLoc location for GC15M065619:  view genomic region     (about GC identifiers)

Start:
65,619,465 bp from pter      End:
65,670,378 bp from pter
Size:
50,914 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: IGDC3_HUMAN, Q8IVU1 (See protein sequence)
Recommended Name: Immunoglobulin superfamily DCC subclass member 3 precursor  
Size: 814 amino acids; 86724 Da
Subcellular location: Membrane; Single-pass type I membrane protein
Secondary accessions: O95215

Explore the universe of human proteins at neXtProt for IGDCC3: NX_Q8IVU1

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q8IVU1

  • IGDCC3 Protein expression data from MOPED and PaxDb:    About this image 
    IGDCC3 Protein Expression
    REFSEQ proteins: NP_004875.2  
    ENSEMBL proteins: 
     ENSP00000332773   ENSP00000454105   ENSP00000452838  

    Human Recombinant Protein Products for IGDCC3: 
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    Browse ProSpec Recombinant Proteins
    Uscn Proteins for IGDCC3

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005887integral to plasma membrane IEA--

    IGDCC3 for ontologies           About GeneDecksing



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    Uscn ELISAs and CLIAs for IGDCC3


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

    IGDCC3 for domains           About GeneDecksing

    5 InterPro domains/families:
     IPR003598 Ig_sub2
     IPR003961 Fibronectin_type3
     IPR013098 Ig_I-set
     IPR013783 Ig-like_fold
     IPR007110 Ig-like_dom

    Graphical View of Domain Structure for InterPro Entry Q8IVU1

    ProtoNet protein and cluster: Q8IVU1

    2 Blocks protein families:
    IPB003598 Immunoglobulin C-2 type
    IPB003599 Immunoglobulin subtype


    UniProtKB/Swiss-Prot: IGDC3_HUMAN, Q8IVU1
    Similarity: Belongs to the immunoglobulin superfamily. DCC family
    Similarity: Contains 2 fibronectin type-III domains
    Similarity: Contains 4 Ig-like C2-type (immunoglobulin-like) 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

    Phenotypes:
         2 GenomeRNAi human phenotypes for IGDCC3:
     Decreased viability of wild-ty  Increased HPV18 LCR reporter a 

         1 MGI mutant phenotype (inferred from 3 alleles(MGI details for Igdcc3):
     behavior/neurological 

    IGDCC3 for phenotypes           About GeneDecksing

    Animal Models:
       inGenious Targeting Laboratory - Customizable classic, inducible, and humanized mouse model solutions for IGDCC3 

    miRNA
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    hsa-miR-520e hsa-miR-520f hsa-miR-631 hsa-miR-761 hsa-miR-520b hsa-miR-4324 hsa-miR-1298 hsa-miR-130a*
    SwitchGear 3'UTR luciferase reporter plasmidIGDCC3 3' UTR sequence
    Inhib. RNA
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    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for IGDCC3
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    Clone
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    Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore
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    In Situ Assay
    Products:
       

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for IGDCC3


    (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 IGDCC3

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

    2 Interacting proteins for IGDCC3 (Q8IVU13 ENSP000003327734) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    FTLP027923, ENSP000003665254I2D: score=1 STRING: ENSP00000366525
    TAPBPLENSP000002665564STRING: ENSP00000266556
    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:0050885neuromuscular process controlling balance IEA--

    IGDCC3 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 IGDCC3
    Search CenterWatch for drugs/clinical trials and news about IGDCC3 / IGDC3 

    (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 IGDCC3 gene: 
    NM_004884.3  

    Unigene Cluster for IGDCC3:

    Immunoglobulin superfamily, DCC subclass, member 3
    Hs.128292  [show with all ESTs]
    Unigene Representative Sequence: NM_004884
    5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000327987(uc002aos.2 uc002aor.1) ENST00000558354 ENST00000559231
    ENST00000559058 ENST00000559947

    miRNA
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    Browse OriGene MicroRNA Expression Plasmids
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat IGDCC3
    8/73 QIAGEN miScript miRNA Assays for microRNAs that regulate IGDCC3 (see all 73):
    hsa-miR-520e hsa-miR-520f hsa-miR-631 hsa-miR-761 hsa-miR-520b hsa-miR-4324 hsa-miR-1298 hsa-miR-130a*
    SwitchGear 3'UTR luciferase reporter plasmidIGDCC3 3' UTR sequence
    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 IGDCC3
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    Additional cDNA sequence: 

    AF063936.1 AK095529.1 BC042054.1 BC067107.1 

    7 DOTS entries:

    DT.97788800  DT.100019445  DT.306344  DT.308680  DT.102827139  DT.40266764  DT.97858000 

    24/53 AceView cDNA sequences (see all 53):

    BQ650842 BF515654 BE252669 CR623830 BX331927 BQ644258 AW235450 BQ646105 
    BF312550 D80658 BC042054 BV194295 AW204060 D80574 AA973158 AA953395 
    BX093294 BC067107 BX389424 AK095529 AI740721 AF063936 BG329402 BM726906 

    GeneLoc Exon Structure

    5/6 Alternative Splicing Database (ASD) splice patterns (SP) for IGDCC3 (see all 6)    About this scheme

    ExUns: 1 ^ 2a · 2b ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8a · 8b ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14a · 14b ^ 15 ^ 16 ^ 17 ^ 18 ^ 19a · 19b
    SP1:                    -     -     -                             -                                                                           
    SP2:                                -                             -                                                                           
    SP3:                                                                                                                                          
    SP4:                                                                                                                                          
    SP5:                                                                                                                                          


    ECgene alternative splicing isoforms for IGDCC3

    (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

    IGDCC3 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: ACTTGGAACT
    IGDCC3 Expression
    About this image

    IGDCC3 expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table

    7 LifeMap In Vivo Development Anatomical Compartments/Cells 
    Tissue Anatomical Compartment CellCategory (developmental path)
    BrainCerebral CortexBrain
    BrainHypothalamusBrain
    KidneyMetanephrosKidney
    Neural TubeDiencephalic Ventricular ZoneNeural Tube
    Neural TubeDiencephalonNeural Tube
    Neural TubeTelencephalonNeural Tube
    Reproductive SystemMesonephrosReproductive System
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization

    See IGDCC3 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for IGDCC3

    SOURCE GeneReport for Unigene cluster: Hs.128292
        SABiosciences Custom PCR Arrays for IGDCC3
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for IGDCC3

    (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 IGDCC3 gene from 4/12 species (see all 12)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    chicken
    (Gallus gallus)
    Aves IGDCC31 immunoglobulin superfamily, DCC subclass, member 3 69.62(n)
    67.93(a)
      415535  XM_413904.3  XP_413904.2 
    lizard
    (Anolis carolinensis)
    Reptilia IGDCC36
    --
    77(a)
    1 ↔ 1
    1(194518537-194551085)
    zebrafish
    (Danio rerio)
    Actinopterygii igdcc31 immunoglobulin superfamily, DCC subclass, member 3 65.67(n)
    65.37(a)
      555947  XM_003198969.1  XP_003199017.1 
    honey bee
    (Apis mellifera)
    Insecta --
    --
    14(a)
    1 → many
    Group4.19(39194-45176)


    ENSEMBL Gene Tree for IGDCC3 (if available)
    TreeFam Gene Tree for IGDCC3 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for IGDCC3 gene
    CDON2  ROBO22  NEO12  ROBO12  ROBO42  IGDCC42  BOC2  DCC2  
    PRTG2  ROBO32  
    15 SIMAP similar genes for IGDCC3 using alignment to 3 protein entries:     IGDC3_HUMAN (see all proteins):
    PRTG    MUSK    DCC    PTPRS    HMCN2    PXDN
    HSPG2    PTPRD    ROBO3    SDK1    IGLV3-16    IGLV3-25
    V2-7    PAPLN    PXDNL

    IGDCC3 for paralogs           About GeneDecksing


    1 Pseudogenes.org Pseudogene for IGDCC3
    PGOHUM00000262135


    (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

    10/929 NCBI SNPs in IGDCC3 are shown (see all 929    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 15 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1817557071,2
    --65618972(+) GACCAC/GCCAGG 1 -- ds50010--------
    rs1847490521,2
    --65619006(+) TCACCA/GCTTTG 1 -- ds50010--------
    rs129051331,2
    C,F,H--65619042(+) GAGATT/CGGAAG 1 -- ds500123Minor allele frequency- C:0.42NS EA NA WA CSA 2345
    rs1483435221,2
    --65619235(+) GGCAAC/GAGAGT 1 -- ds50010--------
    rs1415223241,2
    --65619289(+) ACTAGC/TATATC 1 -- ds50010--------
    rs110718391,2
    C,F,A,H--65619427(+) GCCCCT/ACCCCC 1 -- ds500112Minor allele frequency- A:0.46NA WA CSA EA 379
    rs118569701,2
    C,F,H--65619582(+) GGGAGA/TGGGAG 1 -- ut311Minor allele frequency- T:0.33NA 6
    rs1896712281,2
    --65619605(+) AGCTGC/TTTTGG 1 -- ut310--------
    rs568358631,2
    --65619702(+) AAGTCC/AACGCG 1 -- ut311Minor allele frequency- A:0.01WA 118
    rs6398121,2
    C,F,O,A,H--65619797(-) CCCAAC/TCCTCT 1 -- ut3127Minor allele frequency- T:0.15EA NA MN NS WA CSA 2342

    HapMap Linkage Disequilibrium report for IGDCC3 (65619465 - 65670378 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 1 variation for IGDCC3
         1 CNV: 72268

    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing IGDCC3
    DNA2.0 Custom Variant and Variant Library Synthesis for IGDCC3

    (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

    IGDCC3 for disorders           About GeneDecksing

    OMIM gene information: 604184    OMIM disorders: --

    2 diseases for IGDCC3:    About MalaCards
    bardet-biedl syndrome    neuronitis

    Human Genome Epidemiology (HuGE) Navigator: IGDCC3 (1 document)

    Export disorders for IGDCC3 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 IGDCC3 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with IGDCC3)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Genomic structure and chromosomal localization of the mouse gene Punc. (PubMed id 9922388)1, 2, 3 Salbaum J.M. (1999)
    2. 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)
    3. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PubMed id 20379614)1 Rose J.E....Uhl G.R. (2010)
    4. Analysis of the DNA sequence and duplication history of human chromosome 15. (PubMed id 16572171)2 Zody M.C....Nusbaum C. (2006)
    5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1 Ota T.... Sugano S. (2004)
    6. 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)
    7. Protein-protein interaction panel using mouse full-length cDNAs. (PubMed id 11591653)1 Suzuki H....Hayashizaki Y. (2001)

    (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)
    About This Section
    Entrez Gene: 9543 HGNC: 9700 AceView: PUNC Ensembl:ENSG00000174498 euGenes: HUgn9543
    ECgene: IGDCC3 H-InvDB: IGDCC3

    (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 IGDCC3 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 IGDCC3 gene:
    Search GeneIP for patents involving IGDCC3

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



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