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CYLC1 Gene

protein-coding   GIFtS: 46
GCID: GC0XP083116

Cylicin, Basic Protein Of Sperm Head Cytoskeleton 1

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(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
Cylicin, Basic Protein Of Sperm Head Cytoskeleton 11 2     CYCL12
Cylicin I2 3     cylicin-12
Multiple-Band Polypeptide I2 3     CYL3
Cylicin 11     CYL13

External Ids:    HGNC: 25821   Entrez Gene: 15382   Ensembl: ENSG000001830357   OMIM: 3007685   UniProtKB: P356633   

Export aliases for CYLC1 gene to outside databases

Previous GC identifers: GC0XP078495 GC0XP080192 GC0XP081163 GC0XP081888 GC0XP082922 GC0XP076689


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for CYLC1 Gene:
This gene encodes a sperm head cytoskeletal protein. The encoded protein is associated with the calyx of
spermatozoa and spermatids. Alternative splicing results in multiple transcript variants. (provided by RefSeq,
Nov 2012)

GeneCards Summary for CYLC1 Gene:
CYLC1 (cylicin, basic protein of sperm head cytoskeleton 1) is a protein-coding gene. GO annotations related to this gene include structural molecule activity and structural constituent of cytoskeleton. An important paralog of this gene is CYLC2.

UniProtKB/Swiss-Prot: CYLC1_HUMAN, P35663
Function: Possible architectural role during spermatogenesis. May be involved in spermatid differentiation




(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_000023.10  NT_011651.18  NC_018934.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the CYLC1 gene promoter:
         Bach1   FOXJ2 (long isoform)   FOXJ2   LCR-F1   FOXL1   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for CYLC1

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat CYLC1


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

Entrez Gene cytogenetic band: Xq21.1   Ensembl cytogenetic band:  Xq21.1   HGNC cytogenetic band: Xq21.1

CYLC1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CYLC1 gene location

GeneLoc information about chromosome X         GeneLoc Exon Structure

GeneLoc location for GC0XP083116:  view genomic region     (about GC identifiers)

Start:
83,116,154 bp from pter      End:
83,141,705 bp from pter
Size:
25,552 bases      Orientation:
plus 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., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: CYLC1_HUMAN, P35663 (See protein sequence)
Recommended Name: Cylicin-1  
Size: 651 amino acids; 74242 Da
Developmental stage: Specific to late spermatogenesis
Secondary accessions: A0AVQ8 Q5JQQ9

Explore the universe of human proteins at neXtProt for CYLC1: NX_P35663

Explore proteomics data for CYLC1 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See CYLC1 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (2 alternative transcripts): 
    NP_001258609.1  NP_066941.1  

    ENSEMBL proteins: 
     ENSP00000331556  

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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:
     IPR026189 CYLC

    Graphical View of Domain Structure for InterPro Entry P35663

    ProtoNet protein and cluster: P35663


    Find genes that share domains with CYLC1           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, 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: CYLC1_HUMAN, P35663
    Function: Possible architectural role during spermatogenesis. May be involved in spermatid differentiation

         Gene Ontology (GO): 2 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005198structural molecule activity NAS8354692
    GO:0005200structural constituent of cytoskeleton IEA--
         
    Find genes that share ontologies with CYLC1           About GenesLikeMe


    Animal Models:
       genOway: Develop your customized and physiologically relevant rodent model for CYLC1

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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
    CYLC1_HUMAN, P35663: Cytoplasm, cytoskeleton, perinuclear theca, calyx. Note=Sperm head cytoskeletal structure
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    cytoskeleton5
    vacuole5
    nucleus3
    cytosol2

    Gene Ontology (GO): 3 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005856cytoskeleton ----
    GO:0033150cytoskeletal calyx IEA--
    GO:0043159acrosomal matrix IDA8354692

    Find genes that share ontologies with CYLC1           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 CYLC1
    Interactions:

        Search GeneGlobe Interaction Network for CYLC1

    Gene Ontology (GO): 3 biological process terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0007275multicellular organismal development IEA--
    GO:0007283spermatogenesis NAS8354692
    GO:0030154cell differentiation IEA--

    Find genes that share ontologies with CYLC1           About GenesLikeMe



    (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
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    Browse Tocris compounds for CYLC1

    1 Novoseek inferred chemical compound relationship for CYLC1 gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    tripeptide s 77.5 3 7737358 (2), 8354692 (1)



    Find genes that share compounds with CYLC1           About GenesLikeMe



    (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 CYLC1 gene (2 alternative transcripts): 
    NM_001271680.1  NM_021118.2  

    Unigene Cluster for CYLC1:

    Cylicin, basic protein of sperm head cytoskeleton 1
    Hs.444230  [show with all ESTs]
    Unigene Representative Sequence: NM_021118
    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000329312(uc004eeh.1 uc004eei.1)
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    Additional mRNA sequence: 

    BC021669.1 BC038787.1 BC058019.1 BC070355.1 BC126461.1 Z22780.1 

    4 DOTS entries:

    DT.97828814  DT.121305868  DT.99997575  DT.40113581 

    13 AceView cDNA sequences:

    BC058019 BX110674 CD243347 AA974987 BC070355 BI462336 BC038787 Z22780 
    BQ441229 BU853602 CD300214 BC021669 BE972768 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for CYLC1 (see all 6)    About this scheme

    ExUns: 1a · 1b · 1c · 1d ^ 2 ^ 3 ^ 4a · 4b · 4c · 4d ^ 5 ^ 6
    SP1:                                                                        
    SP2:                                                                        
    SP3:                                      -     -     -     -     -         
    SP4:                          -                                             
    SP5:                          -                                             


    ECgene alternative splicing isoforms for CYLC1

    (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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    CYLC1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    CYLC1 Expression
    About this image


    CYLC1 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 3) fully expand
     
     Umbilical Cord (Extraembryonic Tissues)    fully expand to see all 2 entries
             Umbilical cord blood-derived hematopoietic stem cells
     
     Blood (Hematopoietic System)    fully expand to see all 2 entries
             Umbilical cord blood-derived hematopoietic stem cells
     
     Testis (Reproductive System)
    CYLC1 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    CYLC1 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.444230

    UniProtKB/Swiss-Prot: CYLC1_HUMAN, P35663
    Tissue specificity: Testis

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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 human and mouse.

    Orthologs for CYLC1 gene from Selected species (see all 5)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Cylc15 cylicin, basic protein of sperm head cytoskeleton 1   --   X (48.20 cM) 111110458 


    ENSEMBL Gene Tree for CYLC1 (if available)
    TreeFam Gene Tree for CYLC1 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for CYLC1 gene
    CYLC22  
    1 SIMAP similar gene for CYLC1 using alignment to 4 protein entries:     CYLC1_HUMAN (see all proteins):
    CYLC2

    Find genes that share paralogs with CYLC1           About GenesLikeMe



    (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 CYLC1 (see all 385)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr X posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs735134221,2
    C,F--83114242(+) GCTAGT/CTGGTA 2 -- us2k13Minor allele frequency- C:0.25WA CSA 4
    rs66530271,2
    C,H--83114367(+) tcccaT/Aaaggt 2 -- us2k14Minor allele frequency- A:0.00NS EA 418
    rs1840649891,2
    --83114380(+) AAACTA/GAGTAG 2 -- us2k10--------
    rs1883069281,2
    --83114449(+) CACTGC/TAGATG 2 -- us2k10--------
    rs1807043211,2
    --83114685(+) GTGGAA/GTGAAG 2 -- us2k10--------
    rs1852772761,2
    --83115132(+) TTTCAA/TATACA 2 -- us2k10--------
    rs1455039281,2
    --83115317(+) TAAAAG/TATAAA 2 -- us2k10--------
    rs1908279991,2
    --83115399(+) AATAAA/GAACTA 2 -- us2k10--------
    rs1820123111,2
    --83115507(+) GGTTTC/TTTATC 2 -- us2k10--------
    rs1871075051,2
    --83115593(+) CATAAC/TAAGAG 2 -- us2k10--------

    HapMap Linkage Disequilibrium report for CYLC1 (83116154 - 83141705 bp)

    Structural Variations
          Database of Genomic Variants (DGV) variations for CYLC1: --
    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing CYLC1
    DNA2.0 Custom Variant and Variant Library Synthesis for CYLC1

    (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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    OMIM gene information: 300768    OMIM disorders: --


    Find genes that share disorders with CYLC1           About GenesLikeMe

    Genetic Association Database (GAD): CYLC1
    Human Genome Epidemiology (HuGE) Navigator: CYLC1 (1 document)

    Export disorders for CYLC1 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 CYLC1 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with CYLC1)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Molecular characterization of mammalian cylicin, a basic protein of the sperm head cytoskeleton. (PubMed id 8354692)1, 2, 3, 9 Hess H.... Franke W.W. (J. Cell Biol. 1993)
    2. The protein complexity of the cytoskeleton of bovine and human sperm heads: the identification and characterization of cylicin II. (PubMed id 7737358)1, 3, 9 Hess H.... Franke W.W. (Exp. Cell Res. 1995)
    3. X chromosomal variation is associated with slow progression to AIDS in HIV-1-infected women. (PubMed id 19679225)1, 4 Siddiqui R.A....Platzer M. (Am. J. Hum. Genet. 2009)
    4. The DNA sequence of the human X chromosome. (PubMed id 15772651)1, 2 Ross M.T.... Bentley D.R. (Nature 2005)
    5. 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. (Genome Res. 2004)
    6. Phosphoproteome analysis of capacitated human sperm. Evidence of tyrosine phosphorylation of a kinase-anchoring protein 3 and valosin- containing protein/p97 during capacitation. (PubMed id 12509440)1 Ficarro S....Visconti P.E. (J. Biol. Chem. 2003)
    7. 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. (Proc. Natl. Acad. Sci. U.S.A. 2002)
    8. Novel actin-related proteins Arp-T1 and Arp-T2 as components of the cytoskeletal calyx of the mammalian sperm head. (PubMed id 12243744)9 Heid H.W.... Franke W.W. (Exp. Cell Res. 2002)
    9. CP beta3, a novel isoform of an actin-binding protein, is a component of the cytoskeletal calyx of the mammalian sperm head. (PubMed id 9184090)9 von BA1low M....Franke W.W. (Exp. Cell Res. 1997)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 1538 HGNC: 2582 AceView: CYLC1 Ensembl:ENSG00000183035 euGenes: HUgn1538
    ECgene: CYLC1 H-InvDB: CYLC1

    (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 CYLC1 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for CYLC1 gene:
    Search GeneIP for patents involving CYLC1

    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, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, eBioscience, antibodies-online, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from genOway)
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    GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014 , 21 Aug 2014 , 8 Sep 2014 , 7 Oct 2014

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