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ZNF439 Gene

protein-coding   GIFtS: 50
GCID: GC19P011960

Zinc Finger Protein 439

  Search for ZNF439
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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This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
Zinc Finger Protein 4391 2

External Ids:    HGNC: 208731   Entrez Gene: 905942   Ensembl: ENSG000001712917   UniProtKB: Q8NDP43   
ORGUL members:         

Export aliases for ZNF439 gene to outside databases

Previous GC identifers: GC19P011804 GC19P011837 GC19P011552


(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 ZNF439 Gene:
ZNF439 (zinc finger protein 439) is a protein-coding gene. An important paralog of this gene is ZNF669.

UniProtKB/Swiss-Prot: ZN439_HUMAN, Q8NDP4
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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RefSeq DNA sequence:
NC_000019.10  NT_011295.12  NC_018930.2  
Regulatory elements:
   Search for regulatory transcription factor binding sites for ZNF439
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidZNF439 promoter sequence
   Search Chromatin IP Primers for ZNF439

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat ZNF439


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: 19p13.13

ZNF439 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ZNF439 gene location

GeneLoc information about chromosome 19         GeneLoc Exon Structure

GeneLoc location for GC19P011960:  view genomic region     (about GC identifiers)

Start:
11,959,541 bp from pter      End:
11,994,565 bp from pter
Size:
35,025 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: ZN439_HUMAN, Q8NDP4 (See protein sequence)
Recommended Name: Zinc finger protein 439  
Size: 499 amino acids; 58395 Da
Sequence caution: Sequence=BAB55187.1; Type=Erroneous initiation;
Secondary accessions: Q8IYZ7 Q96SU1

Explore the universe of human proteins at neXtProt for ZNF439: NX_Q8NDP4

Explore proteomics data for ZNF439 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See ZNF439 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_689475.1  
    ENSEMBL proteins: 
     ENSP00000395632   ENSP00000388234   ENSP00000305077  
    Reactome Protein details: Q8NDP4

    ZNF439 Human Recombinant Protein Products:

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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 Q8NDP4

    ProtoNet protein and cluster: Q8NDP4

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


    UniProtKB/Swiss-Prot: ZN439_HUMAN, Q8NDP4
    Similarity: Belongs to the krueppel C2H2-type zinc-finger protein family
    Similarity: Contains 11 C2H2-type zinc fingers
    Similarity: Contains 1 KRAB domain


    ZNF439 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: ZN439_HUMAN, Q8NDP4
    Function: May be involved in transcriptional regulation

         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--
         
    ZNF439 for ontologies           About GeneDecksing


    Animal Models:
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    miRNA
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    6 qRT-PCR Assays for microRNAs that regulate ZNF439:
    hsa-miR-188-3p hsa-miR-181c hsa-miR-181a hsa-miR-181d hsa-miR-4262 hsa-miR-181b
    SwitchGear 3'UTR luciferase reporter plasmidZNF439 3' UTR sequence
    Inhib. RNA
    Products:
        
    OriGene RNAi products in human, mouse, rat for ZNF439
    Predesigned siRNA for gene silencing in human, mouse, rat ZNF439

    Gene Editing
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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
    ZN439_HUMAN, Q8NDP4: Nucleus (Potential)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus3
    cytosol2

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

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

    ZNF439 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 ZNF439 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 ZNF439
        Generic Transcription Pathway



    ZNF439 for pathways           About GeneDecksing

        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for ZNF439
    Interactions:

        Search GeneGlobe Interaction Network for ZNF439

    STRING Interaction Network Preview (showing 2 interactants - click image to see more details)

    4 Interacting proteins for ZNF439 (Q8NDP42, 3 ENSP000003050774) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    KRTAP4-12Q9BQ662, 3, ENSP000003775824MINT-67088 I2D: score=5 STRING: ENSP00000377582
    MDFIQ997502, 3, ENSP000002303214MINT-67229 I2D: score=6 STRING: ENSP00000230321
    MTUS2Q5JR593I2D: score=1 
    NKAPQ8N5F73I2D: score=1 
    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--

    ZNF439 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 ZNF439 (ZN439)



    (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 ZNF439 gene: 
    NM_152262.2  

    Unigene Cluster for ZNF439:

    Zinc finger protein 439
    Hs.528731  [show with all ESTs]
    Unigene Representative Sequence: AL833935
    5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000592495 ENST00000455282(uc002msr.3) ENST00000592534 ENST00000442091
    ENST00000304030(uc002mss.3)
    miRNA
    Products:
         
    Block miRNA regulation of human, mouse, rat ZNF439 using miScript Target Protectors
    6 qRT-PCR Assays for microRNAs that regulate ZNF439:
    hsa-miR-188-3p hsa-miR-181c hsa-miR-181a hsa-miR-181d hsa-miR-4262 hsa-miR-181b
    SwitchGear 3'UTR luciferase reporter plasmidZNF439 3' UTR sequence
    Inhib. RNA
    Products:
         
    OriGene RNAi products in human, mouse, rat for ZNF439
    Predesigned siRNA for gene silencing in human, mouse, rat ZNF439
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat ZNF439
    Primer
    Products:
        
    OriGene qPCR primer pairs and template standards for ZNF439
    OriGene qSTAR qPCR primer pairs in human, mouse for ZNF439
    Pre-validated RT2 qPCR Primer Assay in human, mouse / rat ZNF439
      QuantiTect SYBR Green Assays in human, mouse, rat ZNF439
      QuantiFast Probe-based Assays in human, mouse, rat ZNF439

    Additional mRNA sequence: 

    AF024693.1 AK027542.1 AK094739.1 AL833935.1 BC032857.1 

    13 DOTS entries:

    DT.100022039  DT.99933309  DT.404909  DT.92414483  DT.97808567  DT.100813705  DT.92028181  DT.95328684 
    DT.100721204  DT.100751095  DT.101975455  DT.432463  DT.99959058 

    Selected AceView cDNA sequences (see all 37):

    BU902145 BF436917 AL833935 NM_152262 N57019 BQ424701 BX090322 AK027542 
    BQ061210 AV745689 BQ012928 BQ888384 AV745540 BC032857 BP335152 AW088537 
    AW206752 BE219111 CA336048 AW088552 N29327 AA133978 AA772083 BQ011606 

    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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    ZNF439 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TATTAGATCA
    ZNF439 Expression
    About this image

    ZNF439 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    ZNF439 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.528731
        Custom PCR Arrays for ZNF439
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for ZNF439

    (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 mammals.

    Orthologs for ZNF439 gene from Selected species (see all 3)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    cow
    (Bos taurus)
    Mammalia --
    Uncharacterized protein
    45(a)
    many ↔ many
    7(14307682-14311244)


    ENSEMBL Gene Tree for ZNF439 (if available)
    TreeFam Gene Tree for ZNF439 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for ZNF439 gene
    ZNF6692  ZNF5642  ZNF4902  ZNF4412  ZNF625-ZNF202  ZNF8782  ENSG000002671792  ZNF142  
    ENSG000002697552  ENSG000001968262  ZNF7002  ZNF692  ZNF4402  ZNF4432  ZNF670-ZNF6952  ZNF442  
    ZNF8232  ENSG000001884742  ZNF4912  ZNF5552  ENSG000002688702  ZNF7092  ZNF6252  ZNF7992  
    ZNF202  ZNF7882  ZNF1012  ZNF7912  ZNF4422  ZNF4332  ZNF572  ZNF6272  
    ZNF5632  ENSG000002573552  ZNF1362  ZNF5562  ZNF7632  ENSG000002687442  ZNF8442  ZNF772  
    Selected SIMAP similar genes for ZNF439 using alignment to 2 protein entries:     ZN439_HUMAN (see all proteins) (see all similar genes):
    ZNF440    ZNF700    ZNF69    ZNF763    ZNF625-ZNF20    MGC12518
    ZNF300P1    ZNF738    ZNF235    ZNF625    ZNF844    ZNF169
    ZNF596    ZNF224    ZNF846    ZNF669    ZNF721    KRBOX4

    ZNF439 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 ZNF439 (see all 177)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 19 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs170017151,2
    C,F--11974870(+) CATATG/AGAATC 1 -- us2k13Minor allele frequency- A:0.01NA 142
    rs763652181,2
    C,F--11974883(+) CTCTTG/ATATAT 1 -- us2k11Minor allele frequency- A:0.09WA 118
    rs1887368781,2
    --11974908(+) GTTTTC/TAATCA 1 -- us2k10--------
    rs1490794231,2
    --11975133(+) TTTGAA/GATGGA 1 -- us2k10--------
    rs1431495221,2
    --11975139(+) ATGGAA/GTCTCA 1 -- us2k10--------
    rs1811733971,2
    --11975322(+) AGCCAA/GGCTGG 1 -- us2k10--------
    rs1416194201,2
    --11975324(+) CCAGGC/TTGGTC 1 -- us2k10--------
    rs747503141,2
    C--11975377(+) AAAGTC/GCTGGG 1 -- us2k10--------
    rs1470631881,2
    --11975417(+) GCTACC/TGTGAT 1 -- us2k10--------
    rs177055801,2
    C,F,H--11975425(+) GATTTG/CTTATC 1 -- us2k122Minor allele frequency- C:0.04NA NS EA 2218

    HapMap Linkage Disequilibrium report for ZNF439 (11959541 - 11994565 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 5 variations for ZNF439:    About this table    
    Variant IDTypeSubtypePubMed ID
    esv2718185CNV Deletion23290073
    nsv458356CNV Gain19166990
    nsv525966CNV Gain19592680
    nsv482214CNV Gain20164927
    nsv911068CNV Gain21882294

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing ZNF439
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    (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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      --

    (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 ZNF439 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with ZNF439)
        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. 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)
    4. The full-ORF clone resource of the German cDNA consortium. (PubMed id 17974005)2 Bechtel S.... Schupp I. (BMC Genomics 2007)
    5. Towards a proteome-scale map of the human protein-protein interaction network. (PubMed id 16189514)1 Rual J.F....Vidal M. (Nature 2005)
    6. 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: 90594 HGNC: 20873 AceView: ZNF439 Ensembl:ENSG00000171291 euGenes: HUgn90594
    ECgene: ZNF439 H-InvDB: ZNF439

    (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 ZNF439 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 ZNF439 gene:
    Search GeneIP for patents involving ZNF439

    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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     Block miRNA regulation of human, mouse, rat ZNF439 using miScript Target Protectors SeqTarget long-range PCR primers for resequencing ZNF439
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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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