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ZNF546 Gene

protein-coding   GIFtS: 48
GCID: GC19P040503

Zinc Finger Protein 546


(Previous symbol: ZNF49)
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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 Protein 5461 2
ZNF491 2 3
Zinc Finger Protein 492 3

External Ids:    HGNC: 286711   Entrez Gene: 3393272   Ensembl: ENSG000001871877   UniProtKB: Q86UE33   

Export aliases for ZNF546 gene to outside databases

Previous GC identifers: GC19P045195 GC19P045196 GC19P036939


(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 ZNF546 Gene:
ZNF546 (zinc finger protein 546) is a protein-coding gene. An important paralog of this gene is ZNF616.

UniProtKB/Swiss-Prot: ZN546_HUMAN, Q86UE3
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 ZNF546 gene promoter:
         AREB6   CHOP-10   p53   FOXD1   TGIF   Ik-3   C/EBPalpha   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidZNF546 promoter sequence
   Search Chromatin IP Primers for ZNF546

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat ZNF546


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

Entrez Gene cytogenetic band: 19q13.2   Ensembl cytogenetic band:  19q13.2   HGNC cytogenetic band: 19q13.2

ZNF546 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ZNF546 gene location

GeneLoc information about chromosome 19         GeneLoc Exon Structure

GeneLoc location for GC19P040503:  view genomic region     (about GC identifiers)

Start:
40,490,041 bp from pter      End:
40,523,514 bp from pter
Size:
33,474 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: ZN546_HUMAN, Q86UE3 (See protein sequence)
Recommended Name: Zinc finger protein 546  
Size: 836 amino acids; 98405 Da
Secondary accessions: A8K913

Explore the universe of human proteins at neXtProt for ZNF546: NX_Q86UE3

Explore proteomics data for ZNF546 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See ZNF546 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_848639.2  
    ENSEMBL proteins: 
     ENSP00000469334   ENSP00000470423   ENSP00000469168   ENSP00000469540   ENSP00000339823  
     ENSP00000472403  
    Reactome Protein details: Q86UE3

    ZNF546 Human Recombinant Protein Products:

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    Cloud-Clone Corp. Proteins for ZNF546

     
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    antibodies-online peptides for ZNF546

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    antibodies-online antibodies for ZNF546 (5 products) 

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    Cloud-Clone Corp. ELISAs for ZNF546
    Cloud-Clone Corp. CLIAs for ZNF546
    Search eBioscience for ELISAs for ZNF546 
    antibodies-online kits for ZNF546 (2 products) 


    (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 Q86UE3

    ProtoNet protein and cluster: Q86UE3

    1 Blocks protein domain: IPB001909 KRAB box

    UniProtKB/Swiss-Prot: ZN546_HUMAN, Q86UE3
    Similarity: Belongs to the krueppel C2H2-type zinc-finger protein family
    Similarity: Contains 22 C2H2-type zinc fingers
    Similarity: Contains 1 KRAB domain


    Find genes that share domains with ZNF546           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: ZN546_HUMAN, Q86UE3
    Function: May be involved in transcriptional regulation

         Gene Ontology (GO): 4 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:0046872metal ion binding IEA--
         
    Find genes that share ontologies with ZNF546           About GenesLikeMe


    Phenotypes:
         1 GenomeRNAi human phenotype for ZNF546:
     Decreased POU5F1-GFP protein e 

    Animal Models:
       genOway: Develop your customized and physiologically relevant rodent model for ZNF546

    miRNA
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    Block miRNA regulation of human, mouse, rat ZNF546 using miScript Target Protectors
    1 qRT-PCR Assays for microRNA that regulate ZNF546:
    hsa-miR-188-3p
    SwitchGear 3'UTR luciferase reporter plasmidZNF546 3' UTR sequence
    Inhib. RNA
    Products:
        
    OriGene RNAi products in human, mouse, rat for ZNF546
    Predesigned siRNA for gene silencing in human, mouse, rat ZNF546

    Gene Editing
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    Clone
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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
    ZN546_HUMAN, Q86UE3: Nucleus (Probable)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus4
    cytosol2

    Gene Ontology (GO): 2 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005622intracellular ----
    GO:0005634nucleus IEA--

    Find genes that share ontologies with ZNF546           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 ZNF546 About    
    See pathways by source

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


    Find genes that share SuperPaths with ZNF546           About GenesLikeMe

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways


    1 Reactome Pathway for ZNF546
        Generic Transcription Pathway


        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for ZNF546
    Interactions:

        Search GeneGlobe Interaction Network for ZNF546

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

    1 Interacting protein for ZNF546 (ENSP000003398234) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    CBX4ENSP000002693974STRING: ENSP00000269397
    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 IBA--

    Find genes that share ontologies with ZNF546           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 ZNF546 (ZN546)



    (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 ZNF546 gene: 
    NM_178544.3  

    9 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000597363 ENST00000599504 ENST00000596894 ENST00000593687 ENST00000601138
    ENST00000600094 ENST00000347077(uc002oms.2 uc002omt.2) ENST00000602253
    ENST00000595225
    miRNA
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    1 qRT-PCR Assays for microRNA that regulate ZNF546:
    hsa-miR-188-3p
    SwitchGear 3'UTR luciferase reporter plasmidZNF546 3' UTR sequence
    Inhib. RNA
    Products:
         
    OriGene RNAi products in human, mouse, rat for ZNF546
    Predesigned siRNA for gene silencing in human, mouse, rat ZNF546
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    Primer
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      QuantiTect SYBR Green Assays in human, mouse, rat ZNF546
      QuantiFast Probe-based Assays in human, mouse, rat ZNF546

    Selected AceView cDNA sequences (see all 26):

    BU674437 AK122968 AL039876 AI871774 AI268476 CD677747 NM_178544 BC045649 
    AW072437 AI342853 AL039875 AL713040 BU187956 AW613481 AA600843 AK172809 
    BE670785 T56944 BE091796 AI123273 T48582 BE548749 T56945 BE091778 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for ZNF546 (see all 6)    About this scheme

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


    ECgene alternative splicing isoforms for ZNF546

    (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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    ZNF546 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TGAGAGGAAG
    ZNF546 Expression
    About this image

    ZNF546 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    ZNF546 Protein Expression
        Custom PCR Arrays for ZNF546
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for ZNF546

    (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.

    Orthologs for ZNF546 gene from Selected species (see all 9)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Zfp111 , 5 zinc finger protein 111, 5 60.22(n)1
    54.75(a)1
      5 (68.22 cM)5
    226481  NM_172462.41  NP_766050.11 
     1296545935 
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia BX759592.12   -- 75.23(n)    BX759592.1 
    worm
    (Caenorhabditis elegans)
    Secernentea egrh-21 egrh-2 55.06(n)
    52.59(a)
      190308  NM_067618.2  NP_500019.2 


    ENSEMBL Gene Tree for ZNF546 (if available)
    TreeFam Gene Tree for ZNF546 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for ZNF546 gene
    ZNF6162  ZNF4732  ZNF1602  ZNF4932  ZNF992  ZNF8362  ZNF7212  ZNF5942  
    ZFP622  ZNF8412  ZNF432  ZNF780B2  ZNF1972  ZNF1072  ZNF585A2  ZNF8082  
    ZNF3472  ZNF8452  ZNF585B2  ZNF6582  ZNF6292  ZNF6242  ZNF2682  ZNF8142  
    Selected SIMAP similar genes for ZNF546 using alignment to 6 protein entries:     ZN546_HUMAN (see all proteins) (see all similar genes):
    NPLOC4    EML2    EDRF1    DPP9    APOD    ZNF721
    ZNF320    ZNF701    PKN1    SHANK2    UTY    WARS
    YTHDF3    ZNF78L1    ZNF83    AAMDC    CRCP    FAM3A

    Find genes that share paralogs with ZNF546           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 ZNF546 (see all 524)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 19 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    VAR_0355874
    A breast cancer sample4--see VAR_0355872 L V mis40--------
    rs104067381,2
    C,F,H--40501055(+) agaaaA/Cctccg 1 -- us2k112Minor allele frequency- C:0.27NS EA NA WA CSA 772
    rs1886406091,2
    --40501059(+) AACTCC/TGGATA 1 -- us2k10--------
    rs1507955691,2
    C--40501060(+) ACTCCA/GGATAT 1 -- us2k10--------
    rs1380926861,2
    --40501084(+) ACTAAC/TTTACA 1 -- us2k10--------
    rs800501701,2
    C,F--40501107(+) GTGTAC/TAAGTG 1 -- us2k12Minor allele frequency- T:0.03NA 122
    rs1811311301,2
    --40501147(+) TTGTCA/GTCTTT 1 -- us2k10--------
    rs2020826971,2
    --40501595(+) ATTTG-/GGGC  
            
    GGGGG
    1 -- us2k10--------
    rs1414417981,2
    C--40501596(+) TTTGG-/GGCGGGGG 1 -- cds10--------
    rs723077251,2
    C--40501597(+) TTGGG-/GGCGGGGG 1 -- cds10--------

    HapMap Linkage Disequilibrium report for ZNF546 (40490041 - 40523514 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 1 variation for ZNF546:    About this table    
    Variant IDTypeSubtypePubMed ID
    dgv1082e1CNV Complex17122850

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing ZNF546
    DNA2.0 Custom Variant and Variant Library Synthesis for ZNF546

    (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 ZNF546 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with ZNF546)
        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. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 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. 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)
    5. Methods for quantification of in vivo changes in protein ubiquitination following proteasome and deubiquitinase inhibition. (PubMed id 22505724)1 Udeshi N.D....Carr S.A. (amp 2012)
    6. A germline-specific class of small RNAs binds mammalian Piwi proteins. (PubMed id 16751776)1 Girard A....Carmell M.A. (Nature 2006)
    7. The consensus coding sequences of human breast and colorectal cancers. (PubMed id 16959974)2 Sjoeblom T.... Velculescu V.E. (Science 2006)
    8. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (Genome Res. 2006)
    9. Clustering of C2-H2 zinc finger motif sequences within telomeric and fragile site regions of human chromosomes. (PubMed id 1505991)1 Lichter P.... Ward D.C. (Genomics 1992)

    (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: 339327 HGNC: 28671 AceView: ZNF546 Ensembl:ENSG00000187187 euGenes: HUgn339327
    ECgene: ZNF546 H-InvDB: ZNF546

    (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 ZNF546 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    (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
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