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ZCCHC13 Gene

protein-coding   GIFtS: 49
GCID: GC0XP073524

Zinc Finger, CCHC Domain Containing 13

Microbiology & Infectious Diseases Congress
  See related diseases
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
Zinc Finger, CCHC Domain Containing 131 2
CNBP22
ZNF9L2
Zinc Finger CCHC Domain-Containing Protein 132

External Ids:    HGNC: 317491   Entrez Gene: 3898742   Ensembl: ENSG000001879697   UniProtKB: Q8WW363   

Export aliases for ZCCHC13 gene to outside databases

Previous GC identifers: GC0XP073307 GC0XP073440 GC0XP067159


(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 ZCCHC13 Gene:
This gene appears to represent an intronless retrocopy of a related multi-exon gene located on chromosome 3.
However, the CDS of this intronless gene remains relatively intact, it is conserved in other mammalian species,
it is known to be transcribed, and it is therefore thought to encode a functional protein. The encoded protein
contains six CCHC-type zinc fingers, and is thus thought to function as a transcription factor. (provided by
RefSeq, May 2010)

GeneCards Summary for ZCCHC13 Gene:
ZCCHC13 (zinc finger, CCHC domain containing 13) is a protein-coding gene. Diseases associated with ZCCHC13 include myotonic dystrophy type 2, and myotonic dystrophy. GO annotations related to this gene include nucleic acid binding. An important paralog of this gene is CNBP.




(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:
NC_000023.11  NC_018934.2  NT_011651.18  
Regulatory elements:
   Regulatory transcription factor binding sites in the ZCCHC13 gene promoter:
         Spz1   AML1a   HSF1 (long)   C/EBPalpha   Evi-1   AREB6   Max   Cart-1   HSF1short   c-Myc   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidZCCHC13 promoter sequence
   Search Chromatin IP Primers for ZCCHC13

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat ZCCHC13


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

Entrez Gene cytogenetic band: Xq13.2   Ensembl cytogenetic band:  Xq13.2   HGNC cytogenetic band: Xq13.2

ZCCHC13 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ZCCHC13 gene location

GeneLoc information about chromosome X         GeneLoc Exon Structure

GeneLoc location for GC0XP073524:  view genomic region     (about GC identifiers)

Start:
73,524,025 bp from pter      End:
73,524,869 bp from pter
Size:
845 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, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
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UniProtKB/Swiss-Prot: ZCH13_HUMAN, Q8WW36 (See protein sequence)
Recommended Name: Zinc finger CCHC domain-containing protein 13  
Size: 166 amino acids; 18005 Da

Explore the universe of human proteins at neXtProt for ZCCHC13: NX_Q8WW36

Explore proteomics data for ZCCHC13 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See ZCCHC13 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_976048.1  
    ENSEMBL proteins: 
     ENSP00000345633  

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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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    HGNC Gene Families:
    ZCCHC: Zinc fingers, CCHC domain containing

    1 InterPro protein domain:
     IPR001878 Znf_CCHC

    Graphical View of Domain Structure for InterPro Entry Q8WW36

    ProtoNet protein and cluster: Q8WW36

    UniProtKB/Swiss-Prot: ZCH13_HUMAN, Q8WW36
    Similarity: Contains 6 CCHC-type zinc fingers


    ZCCHC13 for domains           About GeneDecksing


    (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, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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         Gene Ontology (GO): 2 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003676nucleic acid binding IEA--
    GO:0008270zinc ion binding IEA--
         
    ZCCHC13 for ontologies           About GeneDecksing


    Phenotypes:
         1 GenomeRNAi human phenotype for ZCCHC13:
     Synthetic lethal with Ras 

    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for ZCCHC13
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    hsa-mir-335-5p (MIRT017712)

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    1 qRT-PCR Assays for microRNA that regulate ZCCHC13:
    hsa-miR-1238
    SwitchGear 3'UTR luciferase reporter plasmidZCCHC13 3' UTR sequence
    Inhib. RNA
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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 COMPARTMENTS: 

    CompartmentConfidence
    extracellular2
    nucleus2
    cytosol1

    (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 ZCCHC13
    Interactions:

        Search GeneGlobe Interaction Network for ZCCHC13

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    Selected Interacting proteins for ZCCHC13 (Q8WW362, 3 ENSP000003456334) via UniProtKB, MINT, STRING, and/or I2D (see all 313)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    ATXN1P542532, 3, ENSP000002447694MINT-2879594 I2D: score=3 STRING: ENSP00000244769
    BRIX1ENSP000003388624STRING: ENSP00000338862
    CEBPZENSP000002341704STRING: ENSP00000234170
    DDX51ENSP000003804954STRING: ENSP00000380495
    FBLENSP000002218014STRING: ENSP00000221801
    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 ZCCHC13 (ZCH13)



    (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,
    Conferences by KenesGroup, 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, Primers from OriGene, and/or QIAGEN )
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    REFSEQ mRNAs for ZCCHC13 gene: 
    NM_203303.2  

    Unigene Cluster for ZCCHC13:

    Zinc finger, CCHC domain containing 13
    Hs.157231  [show with all ESTs]
    Unigene Representative Sequence: NM_203303
    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000339534(uc004ebs.4)
    Congresses - knowledge worth sharing:
    European Congress of Clinical Microbiology and Infectious Diseases (ECCMID) 10 - 13 May 2014

    miRNA
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    Block miRNA regulation of human, mouse, rat ZCCHC13 using miScript Target Protectors
    1 qRT-PCR Assays for microRNA that regulate ZCCHC13:
    hsa-miR-1238
    SwitchGear 3'UTR luciferase reporter plasmidZCCHC13 3' UTR sequence
    Inhib. RNA
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      QuantiFast Probe-based Assays in human, mouse, rat ZCCHC13

    Additional mRNA sequence: BC021176.2 

    1 DOTS entry:

    DT.439050 

    6 AceView cDNA sequences:

    NM_203303 BX109166 BI464391 BC021176 AA812774 AA834973 

    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™, 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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    ZCCHC13 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TTAAAGGAGG
    ZCCHC13 Expression
    About this image

    ZCCHC13 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    ZCCHC13 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.157231
        Custom PCR Arrays for ZCCHC13
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for ZCCHC13

    (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 animals and fungi.

    Orthologs for ZCCHC13 gene from Selected species (see all 12)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    chicken
    (Gallus gallus)
    Aves CNBP6
    Gallus gallus CCHC-type zinc finger, nucleic acid ...
    58(a)
    1 → many
    12(5041289-5050563)
    zebrafish
    (Danio rerio)
    Actinopterygii cnbpb6
    cnbpa6
    CCHC-type zinc finger, nucleic acid binding protei...
    CCHC-type zinc finger, nucleic acid binding protei...
    53(a)
    52(a)
    many ↔ many
    many ↔ many
    11(478773-484619) ENSDARG00000070922
    23(4753683-4759792) ENSDARG00000045776
    fruit fly
    (Drosophila melanogaster)
    Insecta CG38006
    --
    30(a)
    1 → many
    2R(18822092-18824453)
    worm
    (Caenorhabditis elegans)
    Secernentea K08D12.36
    Protein K08D12.3, isoform a
    29(a)
    1 → many
    IV(1710265-1711141) WBGene00019537
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes GIS26
    Translational activator for mRNAs with internal ri...
    29(a)
    1 → many
    XIV(167329-167790) YNL255C
            Species with no ortholog for ZCCHC13

    ENSEMBL Gene Tree for ZCCHC13 (if available)
    TreeFam Gene Tree for ZCCHC13 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for ZCCHC13 gene
    CNBP2  
    2 SIMAP similar genes for ZCCHC13 using alignment to 1 protein entry:     ZCH13_HUMAN:
    ZNF9    CNBP

    ZCCHC13 for paralogs           About GeneDecksing



    (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 ZCCHC13 (see all 61)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr X posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs106543481,2
    C--73530170(+) ATGAT-/AAGAAGAA 1 -- cds1 tfbs30--------
    rs1416020961,2
    C--73530171(+) TGATA-/AAGAGAAA 1 -- cds10--------
    rs1865985831,2
    C--73530194(+) TTTAAA/GATAAC 1 -- us2k10--------
    rs59372691,2
    H--73530294(+) aaagcC/Gtaaat 1 -- us2k16Minor allele frequency- G:0.00NS EA NA 398
    rs1741201,2
    C,F--73530439(+) tcccaG/Agttca 1 -- us2k15Minor allele frequency- A:0.12NA WA 8
    rs1913811381,2
    --73530714(+) ACACCC/TGTTTG 1 -- us2k10--------
    rs1845924701,2
    --73530777(+) AGGAAC/TTCAGA 1 -- us2k10--------
    rs1878092571,2
    --73530925(+) GTAAAC/TATATG 1 -- us2k10--------
    rs1458898011,2
    --73530991(+) TGCAGG/TTAATG 1 -- us2k10--------
    rs1930339611,2
    --73531235(+) GTAGCC/TAGCAT 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for ZCCHC13 (73524025 - 73524869 bp)

    Structural Variations
          Database of Genomic Variants (DGV) variations for ZCCHC13: --
    Human Gene Mutation Database (HGMD): ZCCHC13
    Locus Specific Mutation Databases (LSDB): ZCCHC13

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing ZCCHC13
    DNA2.0 Custom Variant and Variant Library Synthesis for ZCCHC13

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    5 diseases for ZCCHC13:    About MalaCards
    myotonic dystrophy type 2    myotonic dystrophy    dementia    ataxia
    endotheliitis


    ZCCHC13 for disorders           About GeneDecksing


    Congresses - knowledge worth sharing:
    Alzheimer's & Parkinson's Diseases Congress (ADPD) 18 - 22 March 2015
    Genetic Association Database (GAD): ZCCHC13

    Export disorders for ZCCHC13 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 ZCCHC13 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with ZCCHC13)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. 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)
    2. A software application for comparing large numbers of high resolution MALDI-FTICR MS spectra demonstrated by searching candidate biomarkers for glioma blood vessel formation. (PubMed id 18312684)1 Titulaer M.K....Luider T.M. (BMC Bioinformatics 2008)
    3. Genome-wide association of echocardiographic dimensions, brachial artery endothelial function and treadmill exercise responses in the Framingham Heart Study. (PubMed id 17903301)4 Vasan R.S....Benjamin E.J. (BMC Med. Genet. 2007)
    4. A protein-protein interaction network for human inherited ataxias and disorders of Purkinje cell degeneration. (PubMed id 16713569)1 Lim J.... Zoghbi H.Y. (Cell 2006)
    5. Identification of nine human-specific frameshift mutations by comparative analysis of the human and the chimpanzee genome sequences. (PubMed id 15961456)1 Hahn Y. and Lee B. (Bioinformatics 2005)
    6. Comparative sequence analysis of the X-inactivation center region in mouse, human, and bovine. (PubMed id 12045143)1 Chureau C....Duret L. (Genome Res. 2002)
    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. Dementias, neurodegeneration, and viral mechanisms of disease from the perspective of human transmissible encephalopathies. (PubMed id 8030947)9 Manuelidis L. (Ann. N. Y. Acad. Sci. 1994)

    (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: 389874 HGNC: 31749 AceView: ZCCHC13 Ensembl:ENSG00000187969 euGenes: HUgn389874
    ECgene: ZCCHC13 H-InvDB: ZCCHC13

    (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 ZCCHC13 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 ZCCHC13 gene:
    Search GeneIP for patents involving ZCCHC13

    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, LSBio, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, 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 inGenious Targeting Laboratory, 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

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