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SDCCAG3 Gene

protein-coding   GIFtS: 47
GCID: GC09M139296

Serologically Defined Colon Cancer Antigen 3

  See SDCCAG3-related disease
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Serologically Defined Colon Cancer Antigen 31 2
Antigen NY-CO-32 3
NY-CO-32

External Ids:    HGNC: 106671   Entrez Gene: 108072   Ensembl: ENSG000001656897   UniProtKB: Q96C923   

Export aliases for SDCCAG3 gene to outside databases

Previous GC identifers: GC09M130364 GC09M130985 GC09M132737 GC09M134653 GC09M136572 GC09M138417 GC09M108755


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for SDCCAG3 Gene:
SDCCAG3 (serologically defined colon cancer antigen 3) is a protein-coding gene. Diseases associated with SDCCAG3 include colon cancer.

UniProtKB/Swiss-Prot: SDCG3_HUMAN, Q96C92
Function: May be involved in modulation of TNF response. May be involved in presentation of TNFRSF1A on the cell
surface (By similarity)




(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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000009.11  NT_008470.20  NC_018920.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the SDCCAG3 gene promoter:
         AML1a   NRF-2   Pbx1a   p53   MyoD   Lmo2   c-Myb   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for SDCCAG3

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SDCCAG3


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

Entrez Gene cytogenetic band: 9q34.3   Ensembl cytogenetic band:  9q34.3   HGNC cytogenetic band: 9q34.3

SDCCAG3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SDCCAG3 gene location

GeneLoc information about chromosome 9         GeneLoc Exon Structure

GeneLoc location for GC09M139296:  view genomic region     (about GC identifiers)

Start:
139,296,374 bp from pter      End:
139,305,061 bp from pter
Size:
8,688 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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, Cloud-Clone Corp., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: SDCG3_HUMAN, Q96C92 (See protein sequence)
Recommended Name: Serologically defined colon cancer antigen 3  
Size: 435 amino acids; 47961 Da
Sequence caution: Sequence=BAA91607.1; Type=Erroneous initiation; Note=Translation N-terminally extended;
Sequence=CAI13936.1; Type=Erroneous gene model prediction; Sequence=CAI13942.2; Type=Erroneous gene model
prediction; Sequence=CAI13943.2; Type=Erroneous gene model prediction;
Secondary accessions: A6NCP1 O60525 Q5SXN1 Q5SXN2 Q5SXN3 Q5SXN4 Q5SXN8 Q6V704 Q9NVY5
Alternative splicing: 4 isoforms:  Q96C92-1   Q96C92-2   Q96C92-3   Q96C92-4   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for SDCCAG3: NX_Q96C92

Explore proteomics data for SDCCAG3 at MOPED

Post-translational modifications: 

  • Ubiquitination2 at Lys349
  • Modification sites at PhosphoSitePlus

  • See SDCCAG3 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (3 alternative transcripts): 
    NP_001034796.1  NP_001034797.1  NP_006634.3  

    ENSEMBL proteins: 
     ENSP00000349929   ENSP00000298537   ENSP00000360790   ENSP00000409255   ENSP00000360788  
     ENSP00000409357  

    SDCCAG3 Human Recombinant Protein Products:

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    1 InterPro protein domain:
     IPR026757 SDCCAG3

    Graphical View of Domain Structure for InterPro Entry Q96C92

    ProtoNet protein and cluster: Q96C92

    UniProtKB/Swiss-Prot: SDCG3_HUMAN, Q96C92
    Similarity: Belongs to the SDCCAG3 family


    Find genes that share domains with SDCCAG3           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: SDCG3_HUMAN, Q96C92
    Function: May be involved in modulation of TNF response. May be involved in presentation of TNFRSF1A on the cell
    surface (By similarity)

    Animal Models:

       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for SDCCAG3
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       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for SDCCAG3
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    hsa-miR-217 hsa-miR-448
    SwitchGear 3'UTR luciferase reporter plasmidSDCCAG3 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat SDCCAG3

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    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    SDCG3_HUMAN, Q96C92: Cytoplasm (By similarity)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    mitochondrion3
    cytoskeleton1
    cytosol1
    nucleus1
    plasma membrane1

    Gene Ontology (GO): 1 cellular component term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005737cytoplasm IEA--

    Find genes that share ontologies with SDCCAG3           About GenesLikeMe


    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, 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 Apr 2014 via Entrez Gene).
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        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for SDCCAG3
    Interactions:

        Search GeneGlobe Interaction Network for SDCCAG3

    STRING Interaction Network Preview (showing 5 interactants - click image to see 8)

    Selected Interacting proteins for SDCCAG3 (Q96C923 ENSP000003499294) via UniProtKB, MINT, STRING, and/or I2D (see all 11)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    GIT1Q9Y2X73, ENSP000003783384I2D: score=5 STRING: ENSP00000378338
    CD99P142093, ENSP000003705884I2D: score=2 STRING: ENSP00000370588
    WBP5Q9UHQ73, ENSP000003617404I2D: score=1 STRING: ENSP00000361740
    CHD3Q128733I2D: score=5 
    VIMP086703I2D: score=5 
    About this table

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for SDCCAG3 (SDCG3)



    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 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,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for SDCCAG3 gene (3 alternative transcripts): 
    NM_001039707.1  NM_001039708.1  NM_006643.3  

    Unigene Cluster for SDCCAG3:

    Serologically defined colon cancer antigen 3
    Hs.94300  [show with all ESTs]
    Unigene Representative Sequence: NM_001039707
    11 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000357365 ENST00000298537(uc004chi.3 uc004chj.3 uc004chk.3)
    ENST00000371725 ENST00000461693 ENST00000481114 ENST00000417512 ENST00000466579
    ENST00000486441 ENST00000468963 ENST00000371723 ENST00000446833
    miRNA
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    2 qRT-PCR Assays for microRNAs that regulate SDCCAG3:
    hsa-miR-217 hsa-miR-448
    SwitchGear 3'UTR luciferase reporter plasmidSDCCAG3 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat SDCCAG3
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    Additional mRNA sequence: 

    AF039688.1 AK001296.1 AY129014.1 AY349357.1 BC014515.1 

    21 DOTS entries:

    DT.95283865  DT.101961706  DT.100648783  DT.97769569  DT.417733  DT.92432054  DT.417731  DT.121153888 
    DT.95283867  DT.97848004  DT.100794128  DT.100794126  DT.121153873  DT.92432056  DT.100794124  DT.121153865 
    DT.40118559  DT.92432053  DT.95284475  DT.100829219  DT.121153853 

    Selected AceView cDNA sequences (see all 321):

    BU182743 BQ689099 BM764879 CR615820 BG774102 BI333751 BM721727 CR610693 
    CN482783 BM510169 BX333885 CF132712 AL525186 BQ058325 AI240557 AW772535 
    BM475187 AW272204 AA251287 BP429397 BU680919 CR597452 BI334949 AI474207 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for SDCCAG3 (see all 13)    About this scheme

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


    ECgene alternative splicing isoforms for SDCCAG3

    (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™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    SDCCAG3 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GCCTGAGTGC
    SDCCAG3 Expression
    About this image

    SDCCAG3 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    SDCCAG3 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.94300
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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)
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    This gene was present in the common ancestor of chordates.

    Orthologs for SDCCAG3 gene from Selected species (see all 11)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Sdccag31 , 5 serologically defined colon cancer antigen 31, 5 81.54(n)1
    81.07(a)1
      2 (18.88 cM)5
    681121  NM_026563.31  NP_080839.21 
     263828025 
    chicken
    (Gallus gallus)
    Aves SDCCAG36
    serologically defined colon cancer antigen 3
    49(a)
    1 ↔ 1
    17(7889812-7892185)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia Str.6042 Transcribed sequence with weak similarity to protein more 76.06(n)    AL870101.2 
    zebrafish
    (Danio rerio)
    Actinopterygii sdccag36
    serologically defined colon cancer antigen 3
    32(a)
    1 ↔ 1
    5(52886655-52895312) ENSDARG00000095515


    ENSEMBL Gene Tree for SDCCAG3 (if available)
    TreeFam Gene Tree for SDCCAG3 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for SDCCAG3 gene

    Find genes that share paralogs with SDCCAG3           About GenesLikeMe


    2 Pseudogenes.org Pseudogenes for SDCCAG3
    PGOHUM00000234940 PGOHUM00000244346


    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, 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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for SDCCAG3 (see all 299)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 9 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs125532661,2
    H--139296062(+) TGTAGA/CTAAGG 3 -- ds50010--------
    rs125532671,2
    H--139296068(+) TAAGGC/TTAGGG 3 -- ds50010--------
    rs561059931,2
    C--139296188(+) CACACA/GTCCAT 3 -- ds50010--------
    rs1475160061,2
    --139296193(+) GTCCAC/TCACGT 3 -- ds50010--------
    rs768984801,2
    F--139296235(+) TGGTCT/CGAGTC 3 -- ds50011Minor allele frequency- C:0.01EA 120
    rs1818133171,2
    --139296319(+) TGAGGG/TGTGGA 3 -- ds50010--------
    rs5631,2
    C,F,A,H--139296485(+) TGCTCA/GTCGCC 3 -- ut3119Minor allele frequency- G:0.17NS EA NA WA 2344
    rs1847153041,2
    --139296575(+) CCTGCA/GTTGTA 3 -- ut310--------
    rs1454835051,2
    --139296628(+) AGGCAC/TATCTG 3 -- ut310--------
    rs1476614351,2
    C--139296680(+) GGTCCC/TGGAGG 3 -- ut310--------

    HapMap Linkage Disequilibrium report for SDCCAG3 (139296374 - 139305061 bp)

    Structural Variations
         Database of Genomic Variants (DGV) Selected variations for SDCCAG3 (see all 24):    About this table    
    Variant IDTypeSubtypePubMed ID
    esv2739360CNV Deletion23290073
    esv2739359CNV Deletion23290073
    esv2661983CNV Deletion23128226
    nsv509333CNV Insertion20534489
    nsv894367CNV Loss21882294
    nsv894364CNV Loss21882294
    nsv894366CNV Loss21882294
    nsv894294CNV Loss21882294
    nsv894365CNV Loss21882294
    dgv8390n71CNV Loss21882294

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing SDCCAG3
    DNA2.0 Custom Variant and Variant Library Synthesis for SDCCAG3

    (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.)
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    1 disease for SDCCAG3:    
    About MalaCards
    colon cancer


    Find genes that share disorders with SDCCAG3           About GenesLikeMe


    Export disorders for SDCCAG3 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)
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    PubMed articles for SDCCAG3 gene, integrated from 10 sources (see all 26):
    (articles sorted by number of sources associating them with SDCCAG3)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Characterization of human colon cancer antigens recognized by autologous antibodies. (PubMed id 9610721)1, 2, 3 Scanlan M.J.... Old L.J. (Int. J. Cancer 1998)
    2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 2004)
    3. VCP phosphorylation-dependent interaction partners prevent apoptosis in Helicobacter pylori-infected gastric epithelial cells. (PubMed id 23383273)1 Yu C.C....Chow L.P. (PLoS ONE 2013)
    4. Interlaboratory reproducibility of large-scale human protein-complex analysis by standardized AP-MS. (PubMed id 23455922)1 Varjosalo M....Superti-Furga G. (Nat. Methods 2013)
    5. Protein interaction network of the mammalian Hippo pathway reveals mechanisms of kinase-phosphatase interactions. (PubMed id 24255178)1 Couzens A.L....Gingras A.C. (Sci Signal 2013)
    6. The serologically defined colon cancer antigen-3 interacts with the protein tyrosine phosphatase PTPN13 and is involved in the regulation of cytokinesis. (PubMed id 23108400)1 Hagemann N....Erdmann K.S. (Oncogene 2013)
    7. Host-microbe interactions have shaped the genetic architecture of inflammatory bowel disease. (PubMed id 23128233)1 Jostins L....Cho J.H. (Nature 2012)
    8. Activity-based chemical proteomics accelerates inhibitor development for deubiquitylating enzymes. (PubMed id 22118674)1 Altun M....Kessler B.M. (amp 2011)
    9. A proteome-wide, quantitative survey of in vivo ubiquitylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (amp 2011)
    10. Toward an understanding of the protein interaction network of the human liver. (PubMed id 21988832)1 Wang J....Yang X. (Mol. Syst. Biol. 2011)

    (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: 10807 HGNC: 10667 AceView: SDCCAG3 Ensembl:ENSG00000165689 euGenes: HUgn10807
    ECgene: SDCCAG3 H-InvDB: SDCCAG3

    (According to HUGE)
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    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for SDCCAG3 Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for SDCCAG3 Genetics and Cytogenetics in Oncology and Haematology

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for SDCCAG3 gene:
    Search GeneIP for patents involving SDCCAG3

    GeneCards and IP:
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