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

ZCCHC8 Gene

protein-coding   GIFtS: 46
GCID: GC12M122958

zinc finger, CCHC domain containing 8

  Search for ZCCHC8
in our new
 Human Malady Compendium 
Biological research products
for ZCCHC8
    

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

Aliases
Zinc Finger, CCHC Domain Containing 81 2
DKFZp434E22201
Zinc Finger CCHC Domain-Containing Protein 82

External Ids:    HGNC: 252651   Entrez Gene: 555962   Ensembl: ENSG000000330307   UniProtKB: Q6NZY43   

Export aliases for ZCCHC8 gene to outside databases

Previous GC identifers: GC12M121395 GC12M121482 GC12M119918


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

UniProtKB/Swiss-Prot: ZCHC8_HUMAN, Q6NZY4
Function: May be involved in pre-mRNA splicing

Gene Wiki entry for ZCCHC8


(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_000012.11  NC_018923.1  NT_009755.19  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the ZCCHC8 gene promoter:
         Egr-2   HEN1   PPAR-gamma1   Lmo2   PPAR-gamma2   E4BP4   Evi-1   RSRFC4   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidZCCHC8 promoter sequence
   Search SABiosciences Chromatin IP Primers for ZCCHC8

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat ZCCHC8


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

Entrez Gene cytogenetic band: 12q24.31   Ensembl cytogenetic band:  12q24.31   HGNC cytogenetic band: 12q24.31

ZCCHC8 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ZCCHC8 gene location

GeneLoc information about chromosome 12         GeneLoc Exon Structure

GeneLoc location for GC12M122958:  view genomic region     (about GC identifiers)

Start:
122,957,417 bp from pter      End:
122,985,518 bp from pter
Size:
28,102 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: ZCHC8_HUMAN, Q6NZY4 (See protein sequence)
Recommended Name: Zinc finger CCHC domain-containing protein 8  
Size: 707 amino acids; 78577 Da
Subunit: Identified in the spliceosome C complex
Secondary accessions: Q7L2P6 Q8N2K5 Q96SK7 Q9NSS2 Q9NSS3
Alternative splicing: 2 isoforms:  Q6NZY4-1   Q6NZY4-2   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for ZCCHC8: NX_Q6NZY4

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q6NZY4

  • ZCCHC8 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_060082.2  
    ENSEMBL proteins: 
     ENSP00000441423   ENSP00000438993   ENSP00000440028   ENSP00000443818   ENSP00000441112  
     ENSP00000437578   ENSP00000440234   ENSP00000337313  

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    Uscn Proteins for ZCCHC8

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IDA--
    GO:0005730NOT nucleolus IDA--
    GO:0071013catalytic step 2 spliceosome IDA11991638


    ZCCHC8 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

    ZCCHC8 for domains           About GeneDecksing

    2 InterPro domains/families:
     IPR006568 PSP
     IPR001878 Znf_CCHC

    Graphical View of Domain Structure for InterPro Entry Q6NZY4

    ProtoNet protein and cluster: Q6NZY4

    2 Blocks protein families:
    IPB001878 C2HC-type zinc-finger signature
    IPB006568 PSP


    UniProtKB/Swiss-Prot: ZCHC8_HUMAN, Q6NZY4
    Similarity: Belongs to the ZCCHC8 family
    Similarity: Contains 1 CCHC-type zinc finger


    (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: ZCHC8_HUMAN, Q6NZY4
    Function: May be involved in pre-mRNA splicing

    miRNA
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    Gene Ontology (GO): 3 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003676nucleic acid binding IEA--
    GO:0005515protein binding IPI17525332
    GO:0008270zinc ion binding IEA--


    ZCCHC8 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 ZCCHC8

    STRING Interaction Network Preview (showing 5 interactants - click image to see 11)

    5/17 Interacting proteins for ZCCHC8 (Q6NZY41, 2, 3 ENSP000003373134) via UniProtKB, MINT, STRING, and/or I2D (see all 17)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    PRPF40AO754002, 3MINT-61872 MINT-61861 I2D: score=4 
    BRCA1P383981, 3, ENSP000003502834EBI-1263058,EBI-349905 I2D: score=2 STRING: ENSP00000350283
    MAP1LC3AQ9H4923, ENSP000003639704I2D: score=1 STRING: ENSP00000363970
    PPP2R1AP301533, ENSP000003248044I2D: score=1 STRING: ENSP00000324804
    PPP2R2BQ000053, ENSP000003365914I2D: score=1 STRING: ENSP00000336591
    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:0000398mRNA splicing, via spliceosome IC11991638


    ZCCHC8 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 ZCCHC8
    Search CenterWatch for drugs/clinical trials and news about ZCCHC8 / ZCHC8 

    (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 ZCCHC8 gene: 
    NM_017612.3  

    Unigene Cluster for ZCCHC8:

    Zinc finger, CCHC domain containing 8
    Hs.37706  [show with all ESTs]
    Unigene Representative Sequence: NM_017612
    10 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000536306(uc001ucm.3 uc009zxq.3) ENST00000543897(uc009zxp.3)
    ENST00000538116(uc001ucl.3) ENST00000542892 ENST00000544054 ENST00000536663
    ENST00000546149 ENST00000540586 ENST00000538493 ENST00000336229(uc001ucn.3)


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    hsa-miR-548j hsa-miR-579 hsa-miR-607 hsa-miR-376a* hsa-miR-3613-3p hsa-miR-29a* hsa-miR-548a-5p hsa-miR-30b*
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    OriGene siRNA: ZCCHC8
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat ZCCHC8
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    Additional cDNA sequence: 

    AK027702.1 AK074638.1 AK291174.1 BC017704.2 BC065918.1 

    9 DOTS entries:

    DT.97814830  DT.100781638  DT.306444  DT.95171065  DT.92426976  DT.100781636  DT.100781641  DT.100781640 
    DT.91944467 

    24/129 AceView cDNA sequences (see all 129):

    AA946686 CA312333 AA493394 BQ230988 AK074638 BQ224742 BC017704 AI654797 
    AW008380 AL157433 BP351934 BI830236 BX090586 AK027702 AW327925 AI090552 
    BM681945 AW327884 AI337815 AI378627 N40588 CN481601 AI701924 NM_017612 

    GeneLoc Exon Structure

    5/9 Alternative Splicing Database (ASD) splice patterns (SP) for ZCCHC8 (see all 9)    About this scheme

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

    ExUns: 16a · 16b
    SP1:            
    SP2:            
    SP3:            
    SP4:            
    SP5:            


    ECgene alternative splicing isoforms for ZCCHC8

    (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

    ZCCHC8 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: TGTCAATTTT

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

    About this image
    See ZCCHC8 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for ZCCHC8

    SOURCE GeneReport for Unigene cluster: Hs.37706
        SABiosciences Custom PCR Arrays for ZCCHC8
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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)
    About This Section

    This gene was present in the common ancestor of eukaryotes.

    Orthologs for ZCCHC8 gene from 9/23 species (see all 23)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Zcchc81 , 5 zinc finger, CCHC domain containing 81, 5 83.17(n)1
    81.28(a)1
      5 (63.14 cM)5
    706501  NM_027494.31  NP_081770.31 
     1236983025 
    chicken
    (Gallus gallus)
    Aves ZCCHC81 zinc finger, CCHC domain containing 8 70.18(n)
    68.42(a)
      416862  NM_001030662.1  NP_001025833.1 
    lizard
    (Anolis carolinensis)
    Reptilia ZCCHC86
    --
    60(a)
    1 ↔ 1
    GL343423.1(192248-208591)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.26472 Xenopus laevis transcribed sequence with weak similarity more 77.23(n)    CA788185.1 
    zebrafish
    (Danio rerio)
    Actinopterygii Dr.173302 Transcribed sequence with weak similarity to protein more 73.89(n)    CK027495.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG46221 CG4622 45(n)
    37.78(a)
      37919  NM_138085.3  NP_611929.1 
    worm
    (Caenorhabditis elegans)
    Secernentea ZK632.116
    Y34D9A.76
    Protein Y34D9A.7
    23(a)
    18(a)
    many → 1
    many → 1
    III(9827822-9829633)
    I(1041487-1048249)
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT1G672106
    AT5G386006
    zinc finger CCHC domain-containing protein 8
    17(a)
    14(a)
    many → 1
    many → 1
    1(25140815-25144043)
    5(15456595-15460767)
    rice
    (Oryza sativa)
    Liliopsida --
    PSP domain containing protein, expressed
    15(a)
    1 ↔ 1
    6(17271732-17279408)


    ENSEMBL Gene Tree for ZCCHC8 (if available)
    TreeFam Gene Tree for ZCCHC8 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
      --

    (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

    10/426 NCBI SNPs in ZCCHC8 are shown (see all 426    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 12 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1927281511,2
    --122955684(+) CAGCAC/GTTAAG 1 -- int10--------
    rs79625921,2
    C,F,H,--122955727(+) TTAGAT/ATTACT 1 -- int16Minor allele frequency- A:0.07NS EA WA 540
    rs1841299441,2
    --122955985(+) AGGGAA/CTAGTC 1 -- int10--------
    rs1501434581,2
    --122956020(+) TAAGAA/TCCACT 1 -- int10--------
    rs1146485771,2
    F,--122956262(+) TTCTCT/GCTTTA 1 -- ut311Minor allele frequency- G:0.17WA 118
    rs1386208601,2
    --122956355(+) TTTCTA/GTTTTG 1 -- ut310--------
    rs1873559131,2
    --122956366(+) CTCCCC/TCTGTT 1 -- ut310--------
    rs1922163841,2
    --122956416(+) CAAGAC/TGATCT 1 -- ut310--------
    rs798627691,2
    F,--122956550(+) TTTAAT/CTTTTA 1 -- ut311Minor allele frequency- C:0.02WA 118
    rs116087111,2
    C,A,H,--122956842(+) CTCCCC/ACTCCC 1 -- ut312Minor allele frequency- A:0.25NA 4

    HapMap Linkage Disequilibrium report for ZCCHC8 (122957417 - 122985518 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for ZCCHC8: --
    Human Gene Mutation Database (HGMD): ZCCHC8

    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing ZCCHC8
    DNA2.0 Custom Variant and Variant Library Synthesis for ZCCHC8

    (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

    ZCCHC8 for disorders           About MalaCards

    ZCCHC8 for disorders           About GeneDecksing


    Export disorders for ZCCHC8 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 ZCCHC8 gene, integrated from 9 sources (see all 24):
    (articles sorted by number of sources associating them with ZCCHC8)
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    1. ATM and ATR substrate analysis reveals extensive protein networks responsive to DNA damage. (PubMed id 17525332)1, 2 Matsuoka S.... Elledge S.J. (2007)
    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. Purification and characterization of native spliceosomes suitable for three-dimensional structural analysis. (PubMed id 11991638)1, 2 Jurica M.S.... Moore M.J. (2002)
    5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1, 3 Strausberg R.L....Marra M.A. (2002)
    6. Zcchc8 is a glycogen synthase kinase-3 substrate that interacts with RNA-binding proteins. (PubMed id 16263084)1, 9 Gustafson M.P....Clurman B.E. (2005)
    7. A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (2012)
    8. Functional proteomics establishes the interaction of S IRT7 with chromatin remodeling complexes and expands its role in regulation of R NA polymerase I transcription. (PubMed id 22586326)1 Tsai Y.C....Cristea I.M. (2012)
    9. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
    10. A proteome-wide, quantitative survey of in vivo ubiqui tylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (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: 55596 HGNC: 25265 AceView: ZCCHC8 Ensembl:ENSG00000033030 euGenes: HUgn55596
    ECgene: ZCCHC8 H-InvDB: ZCCHC8

    (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 ZCCHC8 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 ZCCHC8 gene:
    Search GeneIP for patents involving ZCCHC8

    GeneCards and IP:
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