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

TATDN3 Gene

protein-coding   GIFtS: 46
GCID: GC01P212965

TatD DNase domain containing 3

 Explore 5 diseases affiliated with
TATDN3 via our new
 Human Malady Compendium 
Biological research products
for TATDN3
    

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

Aliases
TatD DNase Domain Containing 31 2
Putative Deoxyribonuclease TATDN32
EC 3.1.21.-3
EC 3.1.218

External Ids:    HGNC: 270101   Entrez Gene: 1283872   Ensembl: ENSG000002037057   UniProtKB: Q17R313   

Export aliases for TATDN3 gene to outside databases

Previous GC identifers: GC01P209354 GC01P211031 GC01P183641


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

UniProtKB/Swiss-Prot: TATD3_HUMAN, Q17R31
Function: Putative deoxyribonuclease




(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_000001.10  NC_018912.1  NT_167186.1  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the TATDN3 gene promoter:
         AML1a   FOXO3   XBP-1   FOXO3b   RORalpha1   POU2F1   POU2F1a   FOXO4   Cart-1   FOXO3a   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for TATDN3

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TATDN3


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

Entrez Gene cytogenetic band: 1q32.3   Ensembl cytogenetic band:  1q32.3   HGNC cytogenetic band: 1q32.3

TATDN3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TATDN3 gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01P212965:  view genomic region     (about GC identifiers)

Start:
212,965,170 bp from pter      End:
212,990,167 bp from pter
Size:
24,998 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: TATD3_HUMAN, Q17R31 (See protein sequence)
Recommended Name: Putative deoxyribonuclease TATDN3  
Size: 274 amino acids; 30333 Da
Cofactor: Binds 2 divalent metal cations per subunit
Subcellular location: Nucleus (Potential)
Sequence caution: Sequence=AAH48115.1; Type=Erroneous initiation; Note=Translation N-terminally shortened;
1 PDB 3D structure from and Proteopedia for TATDN3:
2Y1H (3D)    
Secondary accessions: A6NGS3 B7Z1C1 B7Z978 B7ZLQ6 E9PJE5 E9PNH3 G3V151 Q4G0L1
Alternative splicing: 5 isoforms:  Q17R31-1   Q17R31-2   Q17R31-3   Q17R31-4   Q17R31-5   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for TATDN3: NX_Q17R31

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q17R31

  • 2 DME Specific Peptides for TATDN3 (Q17R31)
     AIGEVGL  PSVAMEGV 

    TATDN3 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins (5 alternative transcripts): 
    NP_001036017.1  NP_001036018.1  NP_001139641.1  NP_001139642.1  NP_001139643.1  

    ENSEMBL proteins: 
     ENSP00000431376   ENSP00000355941   ENSP00000432730   ENSP00000434801   ENSP00000433755  
     ENSP00000355940   ENSP00000436364   ENSP00000434428   ENSP00000431379   ENSP00000433143  
     ENSP00000434276   ENSP00000432006  

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    Browse Sino Biological Recombinant Proteins
    ProSpec Recombinant Protein for TATDN3
    Uscn Proteins for TATDN3

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IEA--
    GO:0005739mitochondrion ----


    TATDN3 for ontologies           About GeneDecksing



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    Uscn ELISAs and CLIAs for TATDN3


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

    TATDN3 for domains           About GeneDecksing

    1 InterPro domain/family:
     IPR001130 TatD_family

    Graphical View of Domain Structure for InterPro Entry Q17R31

    ProtoNet protein and cluster: Q17R31

    1 Blocks protein family: IPB001130 TatD-related deoxyribonuclease

    UniProtKB/Swiss-Prot: TATD3_HUMAN, Q17R31
    Similarity: Belongs to the TatD DNase 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: TATD3_HUMAN, Q17R31
    Function: Putative deoxyribonuclease

    Enzyme Numbers (IUBMB): EC 3.1.212 EC 3.1.21.-1

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    hsa-miR-182* hsa-miR-4311 hsa-miR-589* hsa-miR-876-3p hsa-miR-105
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TATDN3

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0016888endodeoxyribonuclease activity, producing 5'-phosphomonoesters IEA--
    GO:0046872metal ion binding IEA--


    TATDN3 for ontologies           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 TATDN3

    STRING Interaction Network Preview (showing 5 interactants - click image to see 21)

    5/21 Interacting proteins for TATDN3 (ENSP000003559414) via UniProtKB, MINT, STRING, and/or I2D (see all 21)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    APBB1IPENSP000003654114STRING: ENSP00000365411
    APOBEC4ENSP000003106224STRING: ENSP00000310622
    ATPIF1ENSP000003352034STRING: ENSP00000335203
    C1orf105ENSP000003567004STRING: ENSP00000356700
    C1orf138ENSP000003580314STRING: ENSP00000358031
    About this table

    (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 TATDN3
    Search CenterWatch for drugs/clinical trials and news about TATDN3 / TATD3 

    (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 TATDN3 gene (5 alternative transcripts): 
    NM_001042552.2  NM_001042553.2  NM_001146169.1  NM_001146170.1  NM_001146171.1  

    Unigene Cluster for TATDN3:

    TatD DNase domain containing 3
    Hs.530538  [show with all ESTs]
    Unigene Representative Sequence: NM_001146171
    16 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000532324 ENST00000366974(uc001hjo.2 uc010ptj.1 uc010ptk.1 uc001hjp.2 uc010ptl.1 uc010ptm.1)
    ENST00000530441 ENST00000526641 ENST00000531963 ENST00000366973 ENST00000526997
    ENST00000533650 ENST00000532433 ENST00000488246 ENST00000525574 ENST00000497768
    ENST00000530399 ENST00000525569 ENST00000530392 ENST00000527693

    miRNA
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    hsa-miR-182* hsa-miR-4311 hsa-miR-589* hsa-miR-876-3p hsa-miR-105
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat TATDN3
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    Additional cDNA sequence: 

    AK293129.1 AK295335.1 AK304557.1 AL832248.1 BC048115.1 BC113638.1 BC117485.1 BC143956.1 
    BC143957.1 

    7 DOTS entries:

    DT.452530  DT.100739606  DT.75133493  DT.95362685  DT.100742801  DT.99984295  DT.302776 

    24/75 AceView cDNA sequences (see all 75):

    BE501397 AL526258 BM989374 CA433356 AW611562 BM271845 CR619489 AV710525 
    AI655590 AL562488 BG777155 BI667889 BI545444 BF796613 BX387124 BF791509 
    BC048115 AA812080 BM907308 BI334853 AI274071 AA906896 BE241708 AL832248 

    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

    TATDN3 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: GAAGGAGTAA

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

    About this image
    See TATDN3 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for TATDN3

    SOURCE GeneReport for Unigene cluster: Hs.530538
        SABiosciences Custom PCR Arrays for TATDN3
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TATDN3

    (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 last universal common ancestor (LUCA).

    Orthologs for TATDN3 gene from 8/31 species (see all 31)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    chicken
    (Gallus gallus)
    Aves TATDN31 TatD DNase domain containing 3 74.03(n)
    76.03(a)
      421366  XM_419426.3  XP_419426.3 
    lizard
    (Anolis carolinensis)
    Reptilia TATDN26
    TATDN36
    (see all 3)
    --
    8(a)
    76(a)
    (see all 3)
    possible ortholog
    1 ↔ 1
    (see all 3)
    GL343273.1(872079-882898)
    1(238696474-238708679)
    zebrafish
    (Danio rerio)
    Actinopterygii LOC5719121 TatD DNase domain containing 3-like 67.05(n)
    69.32(a)
      571912  NM_001200022.1  NP_001186951.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG33086
    CG33586
    --
    22(a)
    20(a)
    possible ortholog
    possible ortholog
    3R(17096800-17099537)
    2R(2810875-2812434)
    worm
    (Caenorhabditis elegans)
    Secernentea B0432.81 Protein B0432.8 48.69(n)
    40.55(a)
      181990  NM_061290.3  NP_493691.2 
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT5G175701 TatD related DNase 43.99(n)
    32.39(a)
      831623  NM_121763.1  NP_568352.1 
    rice
    (Oryza sativa)
    Liliopsida Os04g05775001 hypothetical protein 42.59(n)
    33.33(a)
      4336745  NM_001060167.1  NP_001053632.1 
    E. coli
    (Escherichia coli)
    Gamma proteobacteria ycfH6
    yjjV6
    (see all 3)
    predicted DNase
    (see all 3)
    31(a)
    29(a)
    (see all 3)
    1 ↔ 1
    possible ortholog
    (see all 3)
    Chromosome(1156000-1156797)
    Chromosome(4611504-4612283)


    ENSEMBL Gene Tree for TATDN3 (if available)
    TreeFam Gene Tree for TATDN3 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for TATDN3 gene
    TATDN12  
    1 SIMAP similar gene for TATDN3 using alignment to 8 protein entries:     TATD3_HUMAN (see all proteins):
    TATDN1

    TATDN3 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

    10/436 NCBI SNPs in TATDN3 are shown (see all 436    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 1 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs779251861,2
    --212967202(+) AAGGAA/CTAGGT 5 -- int12Minor allele frequency- C:0.09CSA WA 120
    rs111200281,2
    C,A,H,--212967421(+) ATCGAC/GACCAT 5 -- int10--------
    rs124097871,2
    C,F,A,H,--212967492(+) GCAGCG/ATGTGC 5 -- int14Minor allele frequency- A:0.50NA WA CSA 8
    rs75335141,2
    C,A,H,--212967576(+) CGAGAG/TCGTGA 5 -- int18Minor allele frequency- T:0.00NA WA CSA 17
    rs1897635491,2
    --212967609(+) CAGAGC/TGAGAC 5 -- int10--------
    rs1138229901,2
    C,--212967610(+) AGAGCG/AAGACT 5 -- int11Minor allele frequency- A:0.50NA 2
    rs1423404141,2
    --212967660(+) GGGTTC/TGATGG 5 -- int10--------
    rs1169471491,2
    F,--212967661(+) GGTTCG/AATGGC 5 -- int11Minor allele frequency- A:0.03EA 120
    rs75195821,2
    C,--212967766(+) CATCTC/TTACTA 5 -- int13Minor allele frequency- T:0.17NA WA 6
    rs18137051,2
    C,A,--212967871(-) ATTGCA/CACCTC 5 -- int18Minor allele frequency- C:0.34NA WA CSA EA 134

    HapMap Linkage Disequilibrium report for TATDN3 (212965170 - 212990167 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 1 variation for TATDN3
         1 CNV: 2347

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    (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

    TATDN3 for disorders           About GeneDecksing

    5 diseases for TATDN3:    About MalaCards
    intrahepatic cholangiocarcinoma    cholangiocarcinoma    pneumonia    tuberculosis
    mycobacterium tuberculosis

    Human Genome Epidemiology (HuGE) Navigator: TATDN3 (1 document)

    Export disorders for TATDN3 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 TATDN3 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with TATDN3)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
    2. Genetic variants in nuclear-encoded mitochondrial gen es influence AIDS progression. (PubMed id 20877624)1 Hendrickson S.L....O'Brien S.J. (2010)
    3. Identification of intrahepatic cholangiocarcinoma related genes by comparison with normal liver tissues using expressed sequence tags. (PubMed id 16712791)1 Wang A.G....Kim N.S. (2006)
    4. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (2006)
    5. The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)2 Gregory S.G.... Bentley D.R. (2006)
    6. 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)
    7. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)2 Ota T.... Sugano S. (2004)
    8. 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)
    9. NotI flanking sequences: a tool for gene discovery and verification of the human genome. (PubMed id 12136098)1 Kutsenko A.S....Zabarovsky E.R. (2002)

    (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: 128387 HGNC: 27010 AceView: LOC128387 Ensembl:ENSG00000203705 euGenes: HUgn128387
    ECgene: TATDN3 H-InvDB: TATDN3

    (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 TATDN3 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 TATDN3 gene:
    Search GeneIP for patents involving TATDN3

    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),
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    GeneCards Homepage - Last full update: 18 Mar 2013 - Incrementals: 21 Mar 2013 , 15 Apr 2013 , 26 Apr 2013

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