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ZNF415 Gene

protein-coding   GIFtS: 47
GCID: GC19M053611

Zinc Finger Protein 415

  Search for ZNF415
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 4151 2

External Ids:    HGNC: 206361   Entrez Gene: 557862   Ensembl: ENSG000001709547   UniProtKB: Q09FC83   
ORGUL members:         

Export aliases for ZNF415 gene to outside databases

Previous GC identifers: GC19M058287 GC19M058302 GC19M049935


(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 ZNF415 Gene:
ZNF415 (zinc finger protein 415) is a protein-coding gene. An important paralog of this gene is ZNF534.

UniProtKB/Swiss-Prot: ZN415_HUMAN, Q09FC8
Function: Involved in transcriptional regulation. Transcriptional activity differed among the various isoforms.
All isoforms except isoform 3 seem to suppresses the transcriptional activities of AP-1 and p53/TP53




(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_011109.17  NC_018930.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the ZNF415 gene promoter:
         AP-1   p53   ATF-2   c-Jun   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidZNF415 promoter sequence
   Search Chromatin IP Primers for ZNF415

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat ZNF415


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

Entrez Gene cytogenetic band: 19q13.42   Ensembl cytogenetic band:  19q13.42   HGNC cytogenetic band: 19q13.42

ZNF415 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ZNF415 gene location

GeneLoc information about chromosome 19         GeneLoc Exon Structure

GeneLoc location for GC19M053611:  view genomic region     (about GC identifiers)

Start:
53,611,132 bp from pter      End:
53,636,330 bp from pter
Size:
25,199 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, 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: ZN415_HUMAN, Q09FC8 (See protein sequence)
Recommended Name: Zinc finger protein 415  
Size: 603 amino acids; 68798 Da
Secondary accessions: F5H287 Q09FC7 Q09FC9 Q09FD0 Q6NSZ2 Q6P3S0 Q9NUR2
Alternative splicing: 6 isoforms:  Q09FC8-1   Q09FC8-2   Q09FC8-3   Q09FC8-4   Q09FC8-5   Q09FC8-6   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for ZNF415: NX_Q09FC8

Explore proteomics data for ZNF415 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See ZNF415 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (3 alternative transcripts): 
    NP_001129510.2  NP_001157781.1  NP_060825.2  

    ENSEMBL proteins: 
     ENSP00000471834   ENSP00000472911   ENSP00000468917   ENSP00000243643   ENSP00000472516  
     ENSP00000472584   ENSP00000439435   ENSP00000469656   ENSP00000472673   ENSP00000472797  
     ENSP00000471386   ENSP00000470410   ENSP00000470272   ENSP00000471167   ENSP00000472003  
     ENSP00000471718   ENSP00000469483   ENSP00000473008   ENSP00000396492   ENSP00000395055  
     ENSP00000388787   ENSP00000414601  
    Reactome Protein details: Q09FC8

    ZNF415 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

    3 InterPro protein domains:
     IPR015880 Znf_C2H2-like
     IPR013087 Znf_C2H2/integrase_DNA-bd
     IPR007087 Znf_C2H2

    Graphical View of Domain Structure for InterPro Entry Q09FC8

    ProtoNet protein and cluster: Q09FC8

    UniProtKB/Swiss-Prot: ZN415_HUMAN, Q09FC8
    Similarity: Contains 12 C2H2-type zinc fingers


    ZNF415 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: ZN415_HUMAN, Q09FC8
    Function: Involved in transcriptional regulation. Transcriptional activity differed among the various isoforms.
    All isoforms except isoform 3 seem to suppresses the transcriptional activities of AP-1 and p53/TP53

         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--
         
    ZNF415 for ontologies           About GeneDecksing


    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
    ZN415_HUMAN, Q09FC8: Nucleus. Cytoplasm. Note=Isoforms 1, isoform 2, isoform 4 and isoform 5 showed both nuclear
    and cytoplasm localization. Isoform 3 localized only to nucleus
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus5
    cytoskeleton4
    cytosol3

    Gene Ontology (GO): 4 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005622intracellular ----
    GO:0005730nucleolus IDA--
    GO:0005737cytoplasm IEA--
    GO:0015630microtubule cytoskeleton IDA--

    ZNF415 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 ZNF415 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 ZNF415
        Generic Transcription Pathway



    ZNF415 for pathways           About GeneDecksing

        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for ZNF415
    Interactions:

        Search GeneGlobe Interaction Network for ZNF415

    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--

    ZNF415 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 ZNF415 (ZN415)



    (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 ZNF415 gene (3 alternative transcripts): 
    NM_001136038.2  NM_001164309.1  NM_018355.3  

    Unigene Cluster for ZNF415:

    Zinc finger protein 415
    Hs.147765  [show with all ESTs]
    Unigene Representative Sequence: NR_028343
    Selected Ensembl transcripts including schematic representations, and UCSC links where relevant (see all 29):
    ENST00000600120 ENST00000601493 ENST00000597503 ENST00000243643 ENST00000595193
    ENST00000594011 ENST00000500065(uc010yds.2 uc010ydt.2) ENST00000597748
    ENST00000598578 ENST00000602024 ENST00000601215 ENST00000595174 ENST00000601110
    ENST00000595359 ENST00000595813 ENST00000599261 ENST00000598024 ENST00000602110

    miRNA
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      QuantiFast Probe-based Assays in human, mouse, rat ZNF415

    Additional mRNA sequence: 

    AF038179.1 AK002053.1 AK095504.1 AY283600.1 BC063880.1 BC069668.1 DQ925695.1 DQ925696.1 
    DQ925697.1 DQ925698.1 NR_028343.1 

    Selected DOTS entries (see all 27):

    DT.412761  DT.92421002  DT.100835918  DT.121462390  DT.121461763  DT.100014609  DT.121462056  DT.100860761 
    DT.121462049  DT.121462270  DT.121462340  DT.121462407  DT.121462002  DT.121462139  DT.121462368  DT.121462381 
    DT.97773161  DT.100829904  DT.101957311  DT.121462331  DT.121462403  DT.100030166  DT.100683764  DT.100829903 

    Selected AceView cDNA sequences (see all 54):

    BC069668 CD358872 BC063880 NM_018355 AI089163 AU137969 CR621541 AL534796 
    AF038179 BX414948 AA609125 F02439 BP362136 F06725 AK095504 BX454323 
    BX490438 AK002053 AF026102 AI672480 BM908223 BP362097 AY283600 BX417201 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for ZNF415 (see all 23)    About this scheme

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

    ExUns: 10h · 10i · 10j · 10k · 10l · 10m · 10n
    SP1:                                          
    SP2:                                          
    SP3:                                          
    SP4:                                          
    SP5:                                          


    ECgene alternative splicing isoforms for ZNF415

    (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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    ZNF415 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: ATATATATTA
    ZNF415 Expression
    About this image

    ZNF415 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    ZNF415 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.147765

    UniProtKB/Swiss-Prot: ZN415_HUMAN, Q09FC8
    Tissue specificity: Expressed in all tissues examined. Isoforms are differentially expressed. Isoform 3 and
    isoform 5 were highly expressed, isoform 4 moderately expressed, isoform 2 lower expression, the lowest
    expression level was seem with isoform 1

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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 mammals.

    Orthologs for ZNF415 gene from Selected species (see all 3)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    dog
    (Canis familiaris)
    Mammalia --
    Uncharacterized protein
    52(a)
    many ↔ many
    1(104669844-104682971)


    ENSEMBL Gene Tree for ZNF415 (if available)
    TreeFam Gene Tree for ZNF415 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for ZNF415 gene
    ZNF5342  ZNF321P2  ZNF4682  ZNF5782  ZNF8802  ZNF7662  ZNF3202  ZNF5252  
    ZNF8602  ZNF6002  ZNF282  ZNF5282  ZNF6112  ZNF6772  ZNF832  ZNF8162  
    ZNF6102  ZNF7012  ZNF7652  ZNF4802  ZNF8132  
    Selected SIMAP similar genes for ZNF415 using alignment to 13 protein entries:     ZN415_HUMAN (see all proteins) (see all similar genes):
    pp12301    COX7A2    KLHDC1    NSD1    RBP7    WDR6
    ZNF83    SNRPF    ZNF616    ZNF320    ZNF677    ZNF845
    FANCA    IPO7    KIAA1651    NSRP1    SH2B3    ZNF56

    ZNF415 for paralogs           About GeneDecksing


    1 Pseudogenes.org Pseudogene for ZNF415
    PGOHUM00000234986


    (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 ZNF415 (see all 754)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 19 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs358471661,2
    C,F--53610658(+) GGCTGT/GTCTTG 4 -- int15Minor allele frequency- G:0.40NA 10
    rs1923399781,2
    --53610662(+) GGTCTC/TGAACT 4 -- int10--------
    rs110842191,2
    C,F,H--53610766(+) GTCAGT/GTTGCA 4 -- int116Minor allele frequency- G:0.48NS EA NA WA CSA 775
    rs1458998511,2
    --53610792(+) GTAACC/TCAAAG 4 -- int10--------
    rs112832741,2
    C,F--53610800(+) AGTGC-/AAGG  
     T
    /AGGGT
    CGTCT
    4 -- int12NA CSA 4
    rs674592731,2
    C--53610801(+) GTGCC-/AAGG  
     T
    /AGGGT
    GTCTA
    4 -- int10--------
    rs1852412571,2
    --53610801(+) AGTGCA/C/TGTCTA 4 -- int10--------
    rs46354421,2
    C,H--53610848(+) CAACAT/CCATCA 4 -- int111Minor allele frequency- C:0.16NA WA CSA EA 373
    rs1898227951,2
    --53611114(+) ATTTTA/TAAATC 4 -- int10--------
    rs38141,2
    C,F,A,H--53611187(+) TAACAC/TATTTG 4 -- ut31 nc-transcript-variant34Minor allele frequency- T:0.47EA MN NA NS WA CSA 4213

    HapMap Linkage Disequilibrium report for ZNF415 (53611132 - 53636330 bp)

    Structural Variations
         Database of Genomic Variants (DGV) Selected variations for ZNF415 (see all 24):    About this table    
    Variant IDTypeSubtypePubMed ID
    esv2718811CNV Deletion23290073
    esv2718787CNV Deletion23290073
    esv2488809CNV Deletion19546169
    nsv435700CNV Deletion17901297
    esv1316926CNV Deletion17803354
    esv2718810CNV Deletion23290073
    esv2228870CNV Deletion18987734
    esv1006571CNV Deletion20482838
    esv8151CNV Loss19470904
    nsv428370CNV Loss18775914

    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, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    ZNF415 for disorders           About GeneDecksing

    Genetic Association Database (GAD): ZNF415

    Export disorders for ZNF415 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 ZNF415 gene, integrated from 10 sources (see all 11):
    (articles sorted by number of sources associating them with ZNF415)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2, 3 Ota T.... Sugano S. (Nat. Genet. 2004)
    2. A novel human gene ZNF415 with five isoforms inhibits AP-1- and p53- mediated transcriptional activity. (PubMed id 17055453)1, 2 Cheng Y.... Liu M. (Biochem. Biophys. Res. Commun. 2006)
    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. Toward a confocal subcellular atlas of the human proteome. (PubMed id 18029348)1 Barbe L....Andersson-Svahn H. (amp 2008)
    5. 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)
    6. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S.... Malek J. (Genome Res. 2004)
    7. The DNA sequence and biology of human chromosome 19. (PubMed id 15057824)2 Grimwood J.... Lucas S.M. (Nature 2004)
    8. 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)
    9. Large-scale concatenation cDNA sequencing. (PubMed id 9110174)1 Yu W.... Gibbs R.A. (Genome Res. 1997)
    10. A "double adaptor" method for improved shotgun library construction. (PubMed id 8619474)1 Andersson B.... Gibbs R.A. (Anal. Biochem. 1996)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
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      Query String
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    OMIM
    NCBI Bookshelf
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 55786 HGNC: 20636 AceView: ZNF415 Ensembl:ENSG00000170954 euGenes: HUgn55786
    ECgene: ZNF415 H-InvDB: ZNF415

    (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 ZNF415 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 ZNF415 gene:
    Search GeneIP for patents involving ZNF415

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



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