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ZIM2 Gene

protein-coding   GIFtS: 39
GCID: GC19M057290

Zinc Finger, Imprinted 2

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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
Zinc Finger, Imprinted 21 2
Zinc Finger Protein 6562 3
ZNF6562 3
Zinc Finger Imprinted 22

External Ids:    HGNC: 128751   Entrez Gene: 236192   Ensembl: ENSG000002696997   UniProtKB: Q9NZV73   

Export aliases for ZIM2 gene to outside databases

Previous GC identifers: GC19M058168 GC19M057740 GC19M061851 GC19M061978 GC19M061395 GC19M061979 GC19M061980 GC19M057289


(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 ZIM2 Gene:
In human, ZIM2 and PEG3 (GeneID:5178) are two distinct genes that share a set of 5' exons and have a common
promoter, and both genes are paternally expressed. Alternative splicing events connect the shared exons either
with the remaining 4 exons unique to ZIM2, or with the remaining 2 exons unique to PEG3. This is in contrast to
mouse and cow, where ZIM2 and PEG3 genes do not share exons in common, and the imprinting status of ZIM2 is also
not conserved amongst mammals. Additional 5' alternatively spliced transcripts encoding the same protein have
been found for the human ZIM2 gene. (provided by RefSeq, Oct 2010)

GeneCards Summary for ZIM2 Gene:
ZIM2 (zinc finger, imprinted 2) is a protein-coding gene. An important paralog of this gene is ZNF713.

UniProtKB/Swiss-Prot: ZIM2_HUMAN, Q9NZV7
Function: May be involved in transcriptional regulation




(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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Regulatory elements:
   Regulatory transcription factor binding sites in the ZIM2 gene promoter:
         CREB   AML1a   FOXF2   Sp1   deltaCREB   GATA-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidZIM2 promoter sequence
   Search Chromatin IP Primers for ZIM2

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat ZIM2


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

Entrez Gene cytogenetic band: 19q13.4   Ensembl cytogenetic band:  19q13.43   HGNC cytogenetic band: 19q13.4

ZIM2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ZIM2 gene location

GeneLoc information about chromosome 19         GeneLoc Exon Structure

GeneLoc location for GC19M057290:  view genomic region     (about GC identifiers)

Start:
57,285,915 bp from pter      End:
57,352,097 bp from pter
Size:
66,183 bases      Orientation:
minus 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: ZIM2_HUMAN, Q9NZV7 (See protein sequence)
Recommended Name: Zinc finger imprinted 2  
Size: 527 amino acids; 61164 Da
Secondary accessions: Q2M3K1

Explore the universe of human proteins at neXtProt for ZIM2: NX_Q9NZV7

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus
  • REFSEQ proteins (3 alternative transcripts): 
    NP_001139798.1  NP_001139799.1  NP_056178.3  

    ENSEMBL proteins: 
     ENSP00000472306   ENSP00000469185   ENSP00000471643   ENSP00000470326   ENSP00000468984  
     ENSP00000469173   ENSP00000375589   ENSP00000221722  
    Reactome Protein details: Q9NZV7

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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:
    ZNF: Zinc fingers, C2H2-type

    4 InterPro protein domains:
     IPR001909 Krueppel-associated_box
     IPR015880 Znf_C2H2-like
     IPR013087 Znf_C2H2/integrase_DNA-bd
     IPR007087 Znf_C2H2

    Graphical View of Domain Structure for InterPro Entry Q9NZV7

    ProtoNet protein and cluster: Q9NZV7

    1 Blocks protein domain: IPB001909 KRAB box

    UniProtKB/Swiss-Prot: ZIM2_HUMAN, Q9NZV7
    Similarity: Belongs to the krueppel C2H2-type zinc-finger protein family
    Similarity: Contains 5 C2H2-type zinc fingers
    Similarity: Contains 1 KRAB domain


    Find genes that share domains with ZIM2           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: ZIM2_HUMAN, Q9NZV7
    Function: May be involved in transcriptional regulation

         Gene Ontology (GO): 5 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003676nucleic acid binding ----
    GO:0003677DNA binding IEA--
    GO:0003700sequence-specific DNA binding transcription factor activity IBA--
    GO:0008270zinc ion binding NAS10708526
    GO:0046872metal ion binding ----
         
    Find genes that share ontologies with ZIM2           About GenesLikeMe


    Animal Models:
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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
    ZIM2_HUMAN, Q9NZV7: Nucleus (Probable)

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005575cellular_component ND--
    GO:0005622intracellular ----
    GO:0005634nucleus IEA--

    Find genes that share ontologies with ZIM2           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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    SuperPaths for ZIM2 About    
    See pathways by source

    SuperPathContained pathways About
    1Gene Expression
    Generic Transcription Pathway0.40
    Gene Expression0.40


    Find genes that share SuperPaths with ZIM2           About GenesLikeMe

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways


    1 Reactome Pathway for ZIM2
        Generic Transcription Pathway


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    Interactions:

        Search GeneGlobe Interaction Network for ZIM2

    Gene Ontology (GO): 2 biological process terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006351transcription, DNA-templated IEA--
    GO:0006355regulation of transcription, DNA-templated NAS10708526

    Find genes that share ontologies with ZIM2           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
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for ZIM2



    (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 ZIM2 gene (3 alternative transcripts): 
    NM_001146326.1  NM_001146327.1  NM_015363.4  

    9 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000593711 ENST00000595671 ENST00000597281 ENST00000601070 ENST00000599935
    ENST00000596270 ENST00000593931 ENST00000391708(uc002qnq.2 uc010etp.2)
    ENST00000221722(uc002qnr.2 uc010ygs.1)
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    Selected AceView cDNA sequences (see all 273):

    AF208968 AA383002 BU753605 AA448856 BM967197 AF166122 AF208967 BG622420 
    BI494893 BQ023924 BM697482 BE502379 AI174652 AA350686 BF732186 AW086429 
    T26612 AV708395 AF208970 BF446947 AA460030 CA950554 AV708452 BM512435 

    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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    ZIM2 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    ZIM2 Expression
    About this image

    ZIM2 Protein expression data from MOPED1, PaxDb2 and MaxQB3 --

    UniProtKB/Swiss-Prot: ZIM2_HUMAN, Q9NZV7
    Tissue specificity: Highest levels of expression in adult testis; modest levels in fetal kidney and brain

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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 ZIM2 gene from Selected species (see all 3)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Zim25 zinc finger, imprinted 2   --   7 6651747 


    ENSEMBL Gene Tree for ZIM2 (if available)
    TreeFam Gene Tree for ZIM2 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for ZIM2 gene
    ZNF7132  ZFP69B2  ZFP692  ZNF5142  
    15 SIMAP similar genes for ZIM2 using alignment to 4 protein entries:     ZIM2_HUMAN (see all proteins):
    ZNF250    PEG3    ZNF10    ZNF323    ZNF501    ZNF684
    ZNF80    KIAA0287    ZNF25    ZNF569    ZNF696    ZNF184
    ZNF30    ZNF558    ZNF568

    Find genes that share paralogs with ZIM2           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 ZIM2 (see all 640)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 19 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs616941991,2
    C--57285915(+) TTTTTT/-ACCAC 3 -- ut311Minor allele frequency- -:0.50NA 2
    rs567762531,2
    C--57287469(+) GTCTC-/AAAAAAA 3 -- int10--------
    rs676309571,2
    C,F--57287480(-) TTTTC-/C/TT  
            
    TTTTT
    3 -- int12NA 4
    rs664924271,2
    C--57291614(-) AAAAA-/AGAAAA 3 -- int12Minor allele frequency- A:0.25NA 4
    rs562892311,2
    C--57299079(+) TTTTT-/TGGTTG 3 -- int11Minor allele frequency- T:0.00NA 2
    rs360870821,2
    C--57303392(+) AGGAG-/T/TT  
            
    TTTTT
    3 -- int10--------
    rs3695008311,2
    C--57309688(+) ATCTT-/TGTGTGT 3 -- int10--------
    rs72543051,2
    C,F,A,H--57310049(+) CTTACA/GGCATG 3 -- int15Minor allele frequency- G:0.04NS EA WA 524
    rs581970541,2
    C--57310608(+) TGGTAC/TGTATA 3 -- int10--------
    rs1115969261,2
    C,F--57310824(+) GGTGCG/AGAGTG 3 -- int12Minor allele frequency- A:0.03CSA WA 120

    HapMap Linkage Disequilibrium report for ZIM2 (57285915 - 57352097 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 1 variation for ZIM2:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv833884CNV Loss17160897

    Site Specific Mutation Identification with PCR Assays
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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.)
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      --

    (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 ZIM2 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with ZIM2)
        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. Exon sharing of a novel human zinc-finger gene, ZIM2, and paternally expressed gene 3 (PEG3). (PubMed id 10708526)1, 2 Kim J.... Stubbs L. (Genomics 2000)
    3. Pathway Analysis of ChIP-Seq-Based NRF1 Target Genes Suggests a Logical Hypothesis of their Involvement in the Pathogenesis of Neurodegenerative Diseases. (PubMed id 24250222)1 Satoh J....Yamamoto Y. (Gene Regul Syst Bio 2013)
    4. Lineage-specific imprinting and evolution of the zinc-finger gene ZIM2. (PubMed id 15203203)1 Kim J....Stubbs L. (Genomics 2004)
    5. 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)

    (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: 23619 HGNC: 12875 AceView: PEG3 Ensembl:ENSG00000269699 euGenes: HUgn23619
    ECgene: ZIM2 H-InvDB: ZIM2

    (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 ZIM2 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 ZIM2 gene:
    Search GeneIP for patents involving ZIM2

    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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     Block miRNA regulation of human, mouse, rat ZIM2 using miScript Target Protectors SeqTarget long-range PCR primers for resequencing ZIM2
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     QuantiFast Probe-based Assays in human, mouse, rat ZIM2 QuantiTect SYBR Green Assays in human, mouse, rat ZIM2
     Custom PCR Arrays for ZIM2 Search Chromatin IP Primers for ZIM2
     Pre-validated RT2 qPCR Primer Assay in human, mouse / rat ZIM2  Search GeneGlobe Interaction Network for ZIM2
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     Vector-based siRNA and miRNA, Ready for Transfection Gene Mutant Library, Variants up to 10^11
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     Search Tocris compounds for ZIM2
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     Search www.enzolifesciences.com for proteins, assays, substrates, inhibitors & antibodies

     Novus Tissue Slides
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     Proteins for ZIM2
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     Browse ESI BIO Cell Lines and PureStem Progenitors for ZIM2
     Gene Synthesis
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     Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for ZIM2
     SwitchGear 3'UTR luciferase reporter plasmids for ZIM2
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     Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat ZIM2
     Browse compounds at ApexBio
     Search Addgene for plasmids for ZIM2
      Search eBioscience for proteins for ZIM2
      Search eBioscience for elisas for ZIM2
      eBioscience FlowRNA Probe Sets
     genOway: Develop your customized and physiologically relevant rodent model for ZIM2
     antibodies-online antibodies for ZIM2 (11 products)
     antibodies-online kits for ZIM2 (2 products)
      Search antibodies-online for peptides for ZIM2
     antibodies-online proteins for ZIM2 (3 products)
           
    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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