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

ZMYM6 Gene

protein-coding   GIFtS: 47
GCID: GC01M035445

zinc finger, MYM-type 6

(Previous names: zinc finger protein 258, zinc finger, MYM-type containing...)
(Previous symbol: ZNF258)
 Explore 3 diseases affiliated with
ZMYM6 via our new
 Human Malady Compendium 
Biological research products
for ZMYM6
    

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

Aliases
Zinc Finger, MYM-Type 61 2     ZNF198L41 2
Zinc Finger Protein 2581 2 3     Zinc Finger, MYM-Type Containing 61 2
ZNF2581 2 3     Zinc Finger MYM-Type Protein 62
Buster21 2     KIAA13533
MYM1 2     

External Ids:    HGNC: 130501   Entrez Gene: 92042   Ensembl: ENSG000001638677   OMIM: 6135675   UniProtKB: O957893   

Export aliases for ZMYM6 gene to outside databases

Previous GC identifers: GC01M035111 GC01M035219 GC01M033569


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

UniProtKB/Swiss-Prot: ZMYM6_HUMAN, O95789
Function: Plays a role in the regulation of cell morphology and cytoskeletal organization




(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_032977.9  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the ZMYM6 gene promoter:
         USF1   SREBP-1c   USF2   USF-1:USF-2   C/EBPalpha   SREBP-1b   SREBP-1a   USF-1   Msx-1   ATF6   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidZMYM6 promoter sequence
   Search SABiosciences Chromatin IP Primers for ZMYM6

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat ZMYM6


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

Entrez Gene cytogenetic band: 1p34.2   Ensembl cytogenetic band:  1p34.3   HGNC cytogenetic band: 1p34.2

ZMYM6 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ZMYM6 gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01M035445:  view genomic region     (about GC identifiers)

Start:
35,447,134 bp from pter      End:
35,497,569 bp from pter
Size:
50,436 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: ZMYM6_HUMAN, O95789 (See protein sequence)
Recommended Name: Zinc finger MYM-type protein 6  
Size: 1325 amino acids; 148089 Da
Subcellular location: Nucleus (Potential)
Sequence caution: Sequence=AAH33903.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A
sequence; Sequence=AAI07881.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence;
Sequence=BAA92591.1; Type=Erroneous initiation;
Secondary accessions: B4DRJ6 Q32Q23 Q4G108 Q5SVZ9 Q5SW00 Q69YL4 Q96IY0 Q9NWF1 Q9P2J4
Alternative splicing: 5 isoforms:  O95789-3   O95789-2   O95789-1   O95789-4   O95789-5   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for ZMYM6: NX_O95789

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_O95789

  • ZMYM6 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_009098.3  
    ENSEMBL proteins: 
     ENSP00000421752   ENSP00000349708   ENSP00000391337   ENSP00000326695   ENSP00000362430  
     ENSP00000362437  

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    Uscn Proteins for ZMYM6

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

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


    ZMYM6 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

    ZMYM6 for domains           About GeneDecksing

    4 InterPro domains/families:
     IPR025398 DUF4371
     IPR010507 Znf_MYM
     IPR012337 RNaseH-like_dom
     IPR011017 TRASH_dom

    Graphical View of Domain Structure for InterPro Entry O95789

    ProtoNet protein and cluster: O95789

    2 Blocks protein families:
    IPB010507 MYM-type zinc finger
    IPB011017 TRASH


    UniProtKB/Swiss-Prot: ZMYM6_HUMAN, O95789
    Similarity: Contains 8 MYM-type zinc fingers


    (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: ZMYM6_HUMAN, O95789
    Function: Plays a role in the regulation of cell morphology and cytoskeletal organization

    miRNA
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for ZMYM6

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003677DNA binding TAS10486218
    GO:0008270zinc ion binding IEA--


    ZMYM6 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 ZMYM6

    STRING Interaction Network Preview (showing 5 interactants - click image to see 19)

    5/20 Interacting proteins for ZMYM6 (O957893 ENSP000003497084) via UniProtKB, MINT, STRING, and/or I2D (see all 20)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    KLHL13Q9P2N73, ENSP000002628204I2D: score=2 STRING: ENSP00000262820
    CDK9P507503, ENSP000003623614I2D: score=1 STRING: ENSP00000362361
    FOSP011003I2D: score=1 
    C1orf146ENSP000003594014STRING: ENSP00000359401
    CRYZENSP000003393994STRING: ENSP00000339399
    About this table

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0007010cytoskeleton organization IMP--
    GO:0007275multicellular organismal development TAS10486218
    GO:0022604regulation of cell morphogenesis IMP--


    ZMYM6 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 ZMYM6
    Search CenterWatch for drugs/clinical trials and news about ZMYM6 

    (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 ZMYM6 gene: 
    NM_007167.3  

    Unigene Clusters for ZMYM6:

    Zinc finger, MYM-type 6
    Hs.623978 , Hs.729053  [show with all ESTs]
    Unigene Representative Sequences: BC043174, AL833263
    11 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000487874(uc001byf.1) ENST00000493328(uc021olg.1 uc009vur.1 uc001byh.3 uc010oht.2 uc009vup.3)
    ENST00000357182 ENST00000466345 ENST00000472971 ENST00000415531 ENST00000317538(uc001byi.2 uc001byj.2 uc001byk.2)
    ENST00000460607 ENST00000373333 ENST00000471566 ENST00000373340(uc009vuq.1)


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    hsa-miR-3140-3p hsa-miR-300 hsa-miR-3065-5p hsa-miR-381 hsa-miR-944 hsa-miR-570 hsa-miR-373* hsa-miR-370
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    Inhib. RNA
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    Additional cDNA sequence: 

    AB037774.1 AK000927.1 AK092067.1 AK299293.1 AK301461.1 AK310703.1 AK310938.1 AL389985.1 
    AL832911.1 AL833263.1 BC007070.1 BC017791.1 BC033903.1 BC068534.1 BC107880.1 BC117463.1 
    BT007117.1 

    16 DOTS entries:

    DT.302674  DT.95158278  DT.92041213  DT.95367124  DT.91955950  DT.75100421  DT.95210015  DT.75161791 
    DT.100042005  DT.100687616  DT.307656  DT.75106119  DT.121356633  DT.121356689  DT.91851474  DT.99957844 

    24/222 AceView cDNA sequences (see all 222):

    AA358326 AL705390 AK092067 BC021230 BE222458 AI262074 AI797616 NM_007167 
    AA846430 AI418627 AI679115 BX100911 AI125924 AA582409 BU428774 CA436657 
    AA496005 AI129594 BG194526 BC042172 AI679691 BQ632193 AL703958 AI201302 

    GeneLoc Exon Structure

    5/12 Alternative Splicing Database (ASD) splice patterns (SP) for ZMYM6 (see all 12)    About this scheme

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

    ExUns: 19b ^ 20a · 20b ^ 21a · 21b ^ 22 ^ 23a · 23b
    SP1:                                                
    SP2:  -                                             
    SP3:                                                
    SP4:                                                
    SP5:                                                


    ECgene alternative splicing isoforms for ZMYM6

    (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

    ZMYM6 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: AACACTGAAA

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

    About this image
    See ZMYM6 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for ZMYM6

    SOURCE GeneReport for Unigene clusters: Hs.623978 Hs.729053

    UniProtKB/Swiss-Prot: ZMYM6_HUMAN, O95789
    Tissue specificity: Expressed at high levels in heart, skeletal muscle, kidney and liver

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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for ZMYM6

    (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 ZMYM6 gene from 4/14 species (see all 14)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    lizard
    (Anolis carolinensis)
    Reptilia --
    --
    50(a)
    1 → many
    GL343558.1(321532-328034)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia Str.5552 Transcribed sequence with weak similarity to protein more 74.88(n)    137726423 
    zebrafish
    (Danio rerio)
    Actinopterygii si:ch211-173p18.36
    CR774184.16
    (see all 3)
    --
    20(a)
    20(a)
    (see all 3)
    many ↔ many
    many ↔ many
    (see all 3)
    19(41076319-41126889)
    17(14572557-14615356)
    fruit fly
    (Drosophila melanogaster)
    Insecta woc6
    without children
    9(a)
    1 → many
    3R(23082315-23089758)


    ENSEMBL Gene Tree for ZMYM6 (if available)
    TreeFam Gene Tree for ZMYM6 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for ZMYM6 gene
    ZMYM42  ZMYM12  ZMYM52  ZMYM32  ZMYM22  QRICH12  
    5 SIMAP similar genes for ZMYM6 using alignment to 1 protein entry:     ZMYM6_HUMAN:
    ZMYM4    FAM200A    ZMYM1    ZBED5    C5orf54

    ZMYM6 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

    10/762 NCBI SNPs in ZMYM6 are shown (see all 762    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 1 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1512516851,2
    --35451313(+) AACTCA/GGTTCT 2 -- ds5001 us2k10--------
    rs1392707151,2
    --35451429(+) ATTAAG/TTATTA 2 -- us2k1 ds50010--------
    rs66880911,2
    C,F,H,--35451539(+) AGAGGC/ATTTCA 2 -- ds5001 us2k122Minor allele frequency- A:0.13NS EA NA WA 2132
    rs797976701,2
    C--35451609(+) AAGCTA/GGGATG 2 -- ds5001 us2k10--------
    rs774943421,2
    C--35451611(+) GCTGGC/GATGGG 2 -- ds5001 us2k10--------
    rs1500031101,2
    --35451625(+) ACCATG/TGGCCA 2 -- us2k1 ds50010--------
    rs1857900891,2
    --35452041(+) GCACGG/TTGGCT 2 -- ut31 us2k10--------
    rs1917055291,2
    --35452079(+) GGCCGA/TGGCAG 2 -- ut31 us2k10--------
    rs1833721631,2
    --35452083(+) GAGGCA/CGGTGG 2 -- us2k1 ut310--------
    rs1887839981,2
    --35452188(+) TGCCTA/GTAACC 2 -- us2k1 ut310--------

    HapMap Linkage Disequilibrium report for ZMYM6 (35447134 - 35497569 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for ZMYM6: --

    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing ZMYM6
    DNA2.0 Custom Variant and Variant Library Synthesis for ZMYM6

    (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

    ZMYM6 for disorders           About GeneDecksing

    OMIM gene information: 613567    OMIM disorders: --

    3 diseases for ZMYM6:    About MalaCards
    stem cell leukemia    t-cell leukemia    leukemia

    2 diseases from the University of Copenhagen DISEASES database for ZMYM6:
    non-specific X-linked mental retardation     Stem cell leukemia

    Export disorders for ZMYM6 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 ZMYM6 gene, integrated from 9 sources (see all 13):
    (articles sorted by number of sources associating them with ZMYM6)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Cloning and mapping of members of the MYM family. (PubMed id 10486218)1, 2, 3 Smedley D.... Shipley J. (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. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    4. Prediction of the coding sequences of unidentified human genes. XVI. The complete sequences of 150 new cDNA clones from brain which code for large proteins in vitro. (PubMed id 10718198)1, 2 Nagase T.... Ohara O. (2000)
    5. Identification and characterization of a set of conserved and new regulators of cytoskeletal organisation, cell morphology and migration. (PubMed id 21834987)2 Bai S.W.... Ridley A.J. (2011)
    6. System-wide changes to SUMO modifications in response to heat shock. (PubMed id 19471022)1 Golebiowski F....Hay R.T. (2009)
    7. Defining the human deubiquitinating enzyme interactio n landscape. (PubMed id 19615732)1 Sowa M.E....Harper J.W. (2009)
    8. Toward a confocal subcellular atlas of the human proteome. (PubMed id 18029348)1 Barbe L....Andersson-Svahn H. (2008)
    9. The full-ORF clone resource of the German cDNA consortium. (PubMed id 17974005)2 Bechtel S.... Schupp I. (2007)
    10. The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)2 Gregory S.G.... Bentley D.R. (2006)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 9204 HGNC: 13050 AceView: ZNF258 Ensembl:ENSG00000163867 euGenes: HUgn9204
    ECgene: ZMYM6 H-InvDB: ZMYM6

    (According to HUGE)
    About This Section
    HUGE: KIAA1353

    (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 ZMYM6 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 ZMYM6 gene:
    Search GeneIP for patents involving ZMYM6

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



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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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