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ZNF254 Gene

protein-coding   GIFtS: 44
GCID: GC19P024217

Zinc Finger Protein 254

(Previous name: zinc finger protein 539)
(Previous symbols: ZNF91L, ZNF539)
  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 Protein 2541 2     Hematopoietic Cell-Derived Zinc Finger Protein 12 3
ZNF91L1 2 3 5     BMZF-52 3
Zinc Finger Protein 5391 2 3     HD-ZNF12 3
ZNF5391 2 3     BMZF53
Bone Marrow Zinc Finger 52 3     Zinc Finger Protein 91-Like3

External Ids:    HGNC: 130471   Entrez Gene: 95342   Ensembl: ENSG000002130967   OMIM: 6047685   UniProtKB: O754373   

Export aliases for ZNF254 gene to outside databases

Previous GC identifers: GC19U990156 GC19P024605 GC19P023992 GC19P024061 GC19P024048 GC19P024269 GC19P023824


(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 ZNF254 Gene:
Zinc finger proteins have been shown to interact with nucleic acids and to have diverse functions. The zinc finger
domain is a conserved amino acid sequence motif containing 2 specifically positioned cysteines and 2 histidines
that are involved in coordinating zinc. Kruppel-related proteins form 1 family of zinc finger proteins. See ZFP93
(MIM 604749) for additional information on zinc finger proteins.(supplied by OMIM, Jul 2002)

GeneCards Summary for ZNF254 Gene:
ZNF254 (zinc finger protein 254) is a protein-coding gene. Diseases associated with ZNF254 include squamous cell carcinoma, and lung cancer. An important paralog of this gene is ZNF85.

UniProtKB/Swiss-Prot: ZN254_HUMAN, O75437
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:
   Search for regulatory transcription factor binding sites for ZNF254
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidZNF254 promoter sequence
   Search Chromatin IP Primers for ZNF254

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat ZNF254


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

Entrez Gene cytogenetic band: 19p12   Ensembl cytogenetic band:  19p12   HGNC cytogenetic band: 19p13

ZNF254 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ZNF254 gene location

GeneLoc information about chromosome 19         GeneLoc Exon Structure

GeneLoc location for GC19P024217:  view genomic region     (about GC identifiers)

Start:
24,216,276 bp from pter      End:
24,312,654 bp from pter
Size:
96,379 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, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: ZN254_HUMAN, O75437 (See protein sequence)
Recommended Name: Zinc finger protein 254  
Size: 659 amino acids; 77160 Da
Secondary accessions: A4QPC0 Q86XL7
Alternative splicing: 2 isoforms:  O75437-1   O75437-2   

Explore the universe of human proteins at neXtProt for ZNF254: NX_O75437

Explore proteomics data for ZNF254 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See ZNF254 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (8 alternative transcripts): 
    NP_001265590.1  NP_001265591.1  NP_001265592.1  NP_001265593.1  NP_001265594.1  NP_001265606.1  NP_001265607.1  NP_975011.3  

    ENSEMBL proteins: 
     ENSP00000470845   ENSP00000341573   ENSP00000349494   ENSP00000472863   ENSP00000445527  
    Reactome Protein details: O75437

    ZNF254 Human Recombinant Protein Products:

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    Cloud-Clone Corp. Proteins for ZNF254

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    Cloud-Clone Corp. CLIAs for ZNF254


    (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 O75437

    ProtoNet protein and cluster: O75437

    2 Blocks protein domains:
    IPB001909 KRAB box
    IPB007086 C2H2-type zinc finger signature


    UniProtKB/Swiss-Prot: ZN254_HUMAN, O75437
    Similarity: Belongs to the krueppel C2H2-type zinc-finger protein family
    Similarity: Contains 15 C2H2-type zinc fingers
    Similarity: Contains 1 KRAB domain


    ZNF254 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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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: ZN254_HUMAN, O75437
    Function: May be involved in transcriptional regulation

         Genatlas biochemistry entry for ZNF254:
    zinc finger protein254

         Gene Ontology (GO): 3 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003676nucleic acid binding ----
    GO:0003677DNA binding IEA--
    GO:0046872metal ion binding IEA--
         
    ZNF254 for ontologies           About GeneDecksing


    Phenotypes:
         2 GenomeRNAi human phenotypes for ZNF254:
     Increased gamma-H2AX phosphory  Synthetic lethal with Ras 

    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for ZNF254
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       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for ZNF254
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for ZNF254

    miRNA
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    miRTarBase miRNAs that target ZNF254:
    hsa-mir-155-5p (MIRT020788)

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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for ZNF254


    (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
    ZN254_HUMAN, O75437: 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--

    ZNF254 for ontologies           About GeneDecksing


    (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 ZNF254 About    
    See pathways by source

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

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways


    1 Reactome Pathway for ZNF254
        Generic Transcription Pathway



    ZNF254 for pathways           About GeneDecksing

        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for ZNF254
    Interactions:

        Search GeneGlobe Interaction Network for ZNF254

    Gene Ontology (GO): 3 biological process terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000122negative regulation of transcription from RNA polymerase II promoter TAS10585455
    GO:0006351transcription, DNA-templated IEA--
    GO:0006355regulation of transcription, DNA-templated ----

    ZNF254 for ontologies           About GeneDecksing



    (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 ZNF254 (ZN254)



    (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, Primers from OriGene, and/or QIAGEN )
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    REFSEQ mRNAs for ZNF254 gene (9 alternative transcripts): 
    NM_004876.2  NM_001278661.1  NM_001278662.1  NM_001278663.1  NM_001278664.1  NM_001278665.1  NM_001278677.1  NM_001278678.1  
    NM_203282.3  

    6 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000594886 ENST00000339642(uc002nrt.1) ENST00000357002(uc002nru.3)
    ENST00000595187 ENST00000593783 ENST00000342944(uc002nrr.1 uc002nrs.1 uc010xrk.2)

    miRNA
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    SwitchGear 3'UTR luciferase reporter plasmidZNF254 3' UTR sequence
    Inhib. RNA
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    Primer
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      QuantiTect SYBR Green Assays in human, mouse, rat ZNF254
      QuantiFast Probe-based Assays in human, mouse, rat ZNF254

    Selected AceView cDNA sequences (see all 127):

    AI983886 BX643663 AA653304 BM552186 BE270008 BQ233470 BC044906 AV725690 
    BM976089 BE513641 BM876253 BI771875 BU075580 BX092056 BG493185 BU783214 
    AA347105 AA757703 BG403073 BI761470 BC056243 BM824018 CD710506 BX499128 

    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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    ZNF254 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    ZNF254 Expression
    About this image

    ZNF254 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    ZNF254 Protein Expression
        Custom PCR Arrays for ZNF254
    Primer
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for ZNF254

    (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 ZNF254 gene from Selected species (see all 6)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    lizard
    (Anolis carolinensis)
    Reptilia --
    --
    (see all 8)
    Uncharacterized protein
    (see all 8)
    53(a)
    45(a)
    (see all 8)
    many ↔ many
    many ↔ many
    (see all 8)
    AAWZ02037240(11818-13836)
    GL343434.1(292314-296903)
            Species with no ortholog for ZNF254

    ENSEMBL Gene Tree for ZNF254 (if available)
    TreeFam Gene Tree for ZNF254 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for ZNF254 gene
    ZNF852  ZNF4862  ZNF1952  ZNF922  ZNF1002  ZNF7322  ZNF6752  ZNF1382  
    ZNF5062  ZNF662  ZNF2732  ZNF6952  ZNF6262  ZNF6802  ZNF4792  ZNF2532  
    ZNF932  ZNF6822  ZNF4922  ZNF6762  ZNF6812  ZNF1412  ZNF7362  ZNF6792  
    ZNF2572  ZNF7372  ZNF724P2  ZNF982  ZNF7162  ZNF7142  ZNF4292  ZNF5192  
    ZNF4302  ZNF7302  ZNF7082  ZNF1172  ZNF4312  ZNF902  ZNF7262  ZNF7282  
    Selected SIMAP similar genes for ZNF254 using alignment to 5 protein entries:     ZN254_HUMAN (see all proteins) (see all similar genes):
    MGC12518    ZNF818P    ZNF726    ZNF98    ZNF675    ZNF724P
    ZNF273    ZNF492    ZNF730    ZNF429    ZNF91    ZFS-6
    ZNF728    ZNF676    ZNF506    ZNF66    DKFZp762K012    ZNF78L1

    ZNF254 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 ZNF254 (see all 964)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 19 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs178542581,2
    Cuntested124310146(+) TCAACC/G/TCTTAC 2 T syn10--------
    rs49329431,2
    C,F,A--23822499(+) ggtctC/Tgaact 1 -- us2k14Minor allele frequency- T:0.50NA CSA 8
    rs1402321441,2
    --24267976(+) TGATCC/TACCCA 1 -- us2k10--------
    rs1830995201,2
    --24268028(+) TGCACC/GCAGCC 1 -- us2k10--------
    rs666707021,2
    C,F--24268109(+) TAAACG/ATCTTT 1 -- us2k14Minor allele frequency- A:0.22WA CSA NA 242
    rs1866784731,2
    C--24268229(+) ATATAA/TAAACT 1 -- us2k10--------
    rs1995609721,2
    C--24268266(+) TTTAT-/AGAG  
            
    AGTGT
    1 -- us2k10--------
    rs1379141571,2
    --24268361(+) TCGAGC/TTTAGG 1 -- us2k10--------
    rs1424594061,2
    --24268400(+) AAATTC/TCAGTC 1 -- us2k10--------
    rs735241231,2
    C,F--24268582(+) TAAAAG/AAACAG 1 -- us2k13Minor allele frequency- A:0.40WA CSA 5

    HapMap Linkage Disequilibrium report for ZNF254 (24216276 - 24312654 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 9 variations for ZNF254:    About this table    
    Variant IDTypeSubtypePubMed ID
    esv2662304CNV Deletion23128226
    nsv833791CNV Loss17160897
    nsv911480CNV Gain21882294
    nsv524183CNV Gain19592680
    esv2751784CNV Gain17911159
    dgv3823n71CNV Gain21882294
    dgv3821n71CNV Gain21882294
    dgv3822n71CNV Gain21882294
    nsv833793CNV Gain+Loss17160897

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing ZNF254
    DNA2.0 Custom Variant and Variant Library Synthesis for ZNF254

    (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: 604768    OMIM disorders: --

    2 diseases for ZNF254:    
    About MalaCards
    squamous cell carcinoma    lung cancer


    ZNF254 for disorders           About GeneDecksing


    Export disorders for ZNF254 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 ZNF254 gene, integrated from 10 sources (see all 13):
    (articles sorted by number of sources associating them with ZNF254)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Identification of genes expressed in human CD34(+) hematopoietic stem/progenitor cells by expressed sequence tags and efficient full- length cDNA cloning. (PubMed id 9653160)1, 2, 3 Mao M.... Chen Z. (Proc. Natl. Acad. Sci. U.S.A. 1998)
    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. Molecular cloning of six novel Kruppel-like zinc finger genes from hematopoietic cells and identification of a novel transregulatory domain KRNB. (PubMed id 10585455)1, 2 Han Z.-G.... Chen Z. (J. Biol. Chem. 1999)
    4. Biomarkers of human cutaneous squamous cell carcinoma from tissues and cell lines identified by DNA microarrays and qRT-PCR. (PubMed id 12821146)1, 9 Dooley T.P....Davis R.L. (Biochem. Biophys. Res. Commun. 2003)
    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. Genetic association with overall survival of taxane-treated lung cancer patients - a genome-wide association study in human lymphoblastoid cell lines followed by a clinical association study. (PubMed id 23006423)1 Niu N....Wang L. (BMC Cancer 2012)
    7. Global analysis of host-pathogen interactions that regulate early-stage HIV-1 replication. (PubMed id 18854154)1 KAPnig R....Chanda S.K. (Cell 2008)
    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. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1 Ota T.... Sugano S. (Nat. Genet. 2004)
    10. Transcriptome characterization elucidates signaling networks that control human ES cell growth and differentiation. (PubMed id 15146197)1 Brandenberger R.... Stanton L.W. (Nat. Biotechnol. 2004)

    (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: 9534 HGNC: 13047 AceView: ZNF254 Ensembl:ENSG00000213096 euGenes: HUgn9534
    ECgene: ZNF254 H-InvDB: ZNF254

    (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 ZNF254 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 ZNF254 gene:
    Search GeneIP for patents involving ZNF254

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



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