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ZNF653 Gene

protein-coding   GIFtS: 46
GCID: GC19M011594

Zinc Finger Protein 653

  Search for ZNF653
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 Protein 6531 2
Zinc Finger Protein Zip672 3
67 KDa Zinc Finger Protein2 3
ZIP672 3
E430039K05Rik2

External Ids:    HGNC: 251961   Entrez Gene: 1159502   Ensembl: ENSG000001619147   OMIM: 6113715   UniProtKB: Q96CK03   

Export aliases for ZNF653 gene to outside databases

Previous GC identifers: GC19M011457 GC19M011168


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for ZNF653 Gene:
ZNF653 (zinc finger protein 653) is a protein-coding gene. An important paralog of this gene is ZNF692.

UniProtKB/Swiss-Prot: ZN653_HUMAN, Q96CK0
Function: Transcriptional repressor. May repress NR5A1, PPARG, NR1H3, NR4A2, ESR1 and NR3C1 transcriptional
activity




(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_000019.10  NC_018930.2  NT_011295.12  
Regulatory elements:
   Regulatory transcription factor binding sites in the ZNF653 gene promoter:
         Elk-1   AML1a   FOXO3   IRF-1   FOXO3b   Max   MZF-1   FOXO3a   c-Myc   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidZNF653 promoter sequence
   Search Chromatin IP Primers for ZNF653

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat ZNF653


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

Entrez Gene cytogenetic band: 19p13.2   Ensembl cytogenetic band:  19p13.2   HGNC cytogenetic band: 19p13.2

ZNF653 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ZNF653 gene location

GeneLoc information about chromosome 19         GeneLoc Exon Structure

GeneLoc location for GC19M011594:  view genomic region     (about GC identifiers)

Start:
11,594,242 bp from pter      End:
11,616,738 bp from pter
Size:
22,497 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., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: ZN653_HUMAN, Q96CK0 (See protein sequence)
Recommended Name: Zinc finger protein 653  
Size: 615 amino acids; 67235 Da
Subunit: Interacts with NR5A1
Secondary accessions: Q96AS7

Explore the universe of human proteins at neXtProt for ZNF653: NX_Q96CK0

Explore proteomics data for ZNF653 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See ZNF653 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_620138.2  
    ENSEMBL proteins: 
     ENSP00000465166   ENSP00000293771   ENSP00000465955   ENSP00000467069   ENSP00000465674  

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    Cloud-Clone Corp. Proteins for ZNF653

     
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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:
     IPR017956 AT_hook_DNA-bd_motif
     IPR015880 Znf_C2H2-like
     IPR013087 Znf_C2H2/integrase_DNA-bd
     IPR007087 Znf_C2H2

    Graphical View of Domain Structure for InterPro Entry Q96CK0

    ProtoNet protein and cluster: Q96CK0

    UniProtKB/Swiss-Prot: ZN653_HUMAN, Q96CK0
    Similarity: Belongs to the krueppel C2H2-type zinc-finger protein family
    Similarity: Contains 5 C2H2-type zinc fingers


    Find genes that share domains with ZNF653           About GenesLikeMe


    (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, 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: ZN653_HUMAN, Q96CK0
    Function: Transcriptional repressor. May repress NR5A1, PPARG, NR1H3, NR4A2, ESR1 and NR3C1 transcriptional
    activity

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003677DNA binding IEA--
    GO:0046872metal ion binding IEA--
         
    Find genes that share ontologies with ZNF653           About GenesLikeMe


    Phenotypes:
         1 GenomeRNAi human phenotype for ZNF653:
     Decreased number of cells in m 

    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for ZNF653
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    3 qRT-PCR Assays for microRNAs that regulate ZNF653:
    hsa-miR-216b hsa-miR-216a hsa-miR-1180
    SwitchGear 3'UTR luciferase reporter plasmidZNF653 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 UniProtKB/Swiss-Prot
    ZN653_HUMAN, Q96CK0: Nucleus (Probable)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus4

    Gene Ontology (GO): 1 cellular component term:    About this table

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

    Find genes that share ontologies with ZNF653           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 ZNF653
    Interactions:

        Search GeneGlobe Interaction Network for ZNF653

    STRING Interaction Network Preview (showing 1 interactants - click image to see more details)

    1 Interacting protein for ZNF653 (Q96CK03 ENSP000002937714) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    NR5A1Q132853, ENSP000003626904I2D: score=1 STRING: ENSP00000362690
    About this table

    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 IEA--

    Find genes that share ontologies with ZNF653           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 ZNF653 (ZN653)



    (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 ZNF653 gene: 
    NM_138783.3  

    Unigene Cluster for ZNF653:

    Zinc finger protein 653
    Hs.465928  [show with all ESTs]
    Unigene Representative Sequence: NM_138783
    7 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000590296 ENST00000293771(uc002mrz.2) ENST00000589051 ENST00000590548
    ENST00000592756 ENST00000588541 ENST00000593191
    miRNA
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    3 qRT-PCR Assays for microRNAs that regulate ZNF653:
    hsa-miR-216b hsa-miR-216a hsa-miR-1180
    SwitchGear 3'UTR luciferase reporter plasmidZNF653 3' UTR sequence
    Inhib. RNA
    Products:
         
    OriGene RNAi products in human, mouse, rat for ZNF653
    Predesigned siRNA for gene silencing in human, mouse, rat ZNF653
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      QuantiTect SYBR Green Assays in human, mouse, rat ZNF653
      QuantiFast Probe-based Assays in human, mouse, rat ZNF653

    Additional mRNA sequence: 

    AK131037.1 AY072704.1 BC014187.2 BC016816.1 

    7 DOTS entries:

    DT.100883838  DT.101980316  DT.91724807  DT.92023168  DT.95157537  DT.91698825  DT.121505214 

    Selected AceView cDNA sequences (see all 409):

    BI833479 CR616028 CR602583 BE295484 BE384996 AI783500 AI475087 AI091320 
    AI457754 BM801779 CR616122 BU857031 BM929576 CR613109 BQ643039 CD676033 
    BM662700 AI336311 CR618925 BM470967 BM467897 BM832183 NM_016581 BC008279 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for ZNF653 (see all 7)    About this scheme

    ExUns: 1 ^ 2a · 2b · 2c ^ 3 ^ 4a · 4b ^ 5a · 5b ^ 6 ^ 7a · 7b ^ 8a · 8b ^ 9a · 9b · 9c ^ 10a · 10b
    SP1:        -     -     -                 -                                                           -               
    SP2:        -     -     -                 -                 -     -     -     -                       -               
    SP3:                                                                                                                  
    SP4:                                                                                            -     -               
    SP5:                                      -                                                                           


    ECgene alternative splicing isoforms for ZNF653

    (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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    ZNF653 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: AAGAAGCACA
    ZNF653 Expression
    About this image

    ZNF653 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    ZNF653 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.465928

    UniProtKB/Swiss-Prot: ZN653_HUMAN, Q96CK0
    Tissue specificity: Highly expressed in testis, cerebellum, temporal lobe, hippocampus and the adrenal gland.
    Moderately expressed in spleen, uterus, thymus, pancreas, kidney, stomach and rectum

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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)
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    This gene was present in the common ancestor of chordates.

    Orthologs for ZNF653 gene from Selected species (see all 12)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Zfp6531 , 5 zinc finger protein 6531, 5 87.73(n)1
    92.98(a)1
      9 (8.18 cM)5
    3196011  NM_177318.21  NP_796292.11 
     220554605 
    lizard
    (Anolis carolinensis)
    Reptilia --
    Uncharacterized protein
    74(a)
    1 → many
    2(78629099-78643213)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.154162 Xenopus laevis transcribed sequence with weak similarity more 74.97(n)    BX853915.1 
    zebrafish
    (Danio rerio)
    Actinopterygii znf6536
    zinc finger protein 653
    52(a)
    1 → many
    3(14176506-14210811) ENSDARG00000093469


    ENSEMBL Gene Tree for ZNF653 (if available)
    TreeFam Gene Tree for ZNF653 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for ZNF653 gene
    ZNF6922  ZFP912  ENSG000002674772  ZFP91-CNTF2  ZNF2762  
    Selected SIMAP similar genes for ZNF653 using alignment to 5 protein entries:     ZN653_HUMAN (see all proteins) (see all similar genes):
    WT1    ZNF692    OVOL3    kr-znf3    ZNF263    ZFS-6
    HZF16    ZNF600    ZNF628    KLF1    ZNF410    ZNF
    KLF13    ZNF72    ZNF785    DKFZp686N0199    DKFZp434J0650    DKFZp547H249

    Find genes that share paralogs with ZNF653           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 ZNF653 (see all 548)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 19 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs788955811,2
    C,F--11593858(+) AGAGGC/TCCTCC 1 -- int11Minor allele frequency- T:0.17NA 120
    rs118788491,2
    C,F,H--11594045(+) GAAATT/CAGGGT 1 -- int117Minor allele frequency- C:0.10NS EA NA WA 2338
    rs1116443341,2
    C,F--11594136(+) GCTGGG/CCCCAG 1 -- int12Minor allele frequency- C:0.07CSA WA 120
    rs1442197841,2
    --11594225(+) ATTCAC/GGCCTA 1 -- int10--------
    rs1465539961,2
    --11594431(+) CCAGGC/TCCCGG 1 -- ut310--------
    rs2010983851,2
    C,F--11594490(+) TGGTCA/GGGTGG 1 -- ut311Minor allele frequency- G:0.01EU 955
    rs1511651161,2
    C--11594548(+) ACGCTG/CTCCAG 2 /D /E mis11Minor allele frequency- C:0.00NA 4542
    rs2019493841,2
    --11594661(+) GTAGCC/TACAGA 2 S G mis10--------
    rs2013858781,2
    --11594970(+) GGTGGA/GGACCG 1 -- int10--------
    rs1410805661,2
    --11595001(+) TGGGGC/TGTCTC 1 -- int10--------

    HapMap Linkage Disequilibrium report for ZNF653 (11594242 - 11616738 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 4 variations for ZNF653:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv911066CNV Loss21882294
    nsv911062CNV Loss21882294
    nsv911065CNV Loss21882294
    nsv519802CNV Loss19592680

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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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    OMIM gene information: 611371    OMIM disorders: --


    Find genes that share disorders with ZNF653           About GenesLikeMe


    Export disorders for ZNF653 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 ZNF653 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with ZNF653)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Cloning and characterization of a novel zinc finger protein that modulates the transcriptional activity of nuclear receptors. (PubMed id 12920234)1, 2, 9 Borud B.... Bakke M. (Mol. Endocrinol. 2003)
    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. (Genome Res. 2004)
    3. 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. (Proc. Natl. Acad. Sci. U.S.A. 2002)
    4. Normalization and subtraction: two approaches to facilitate gene discovery. (PubMed id 8889548)1 Bonaldo M.F.... Soares M.B. (Genome Res. 1996)

    (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: 115950 HGNC: 25196 AceView: SITPECandZIP67 Ensembl:ENSG00000161914 euGenes: HUgn115950
    ECgene: ZNF653 H-InvDB: ZNF653

    (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 ZNF653 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 ZNF653 gene:
    Search GeneIP for patents involving ZNF653

    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, eBioscience, 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
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