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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

ZNF396 Gene

protein-coding   GIFtS: 47
GCID: GC18M032946

Zinc Finger Protein 396

Microbiology & Infectious Diseases Congress
  See related disease
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Aliases
Zinc Finger Protein 3961 2
Zinc Finger And SCAN Domain-Containing Protein 142 3
ZSCAN142 3

External Ids:    HGNC: 188241   Entrez Gene: 2528842   Ensembl: ENSG000001864967   OMIM: 6096005   UniProtKB: Q96N953   

Export aliases for ZNF396 gene to outside databases

Previous GC identifers: GC18M032978 GC18M032766 GC18M032721 GC18M031198 GC18M031200 GC18M029806


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

GeneCards Summary for ZNF396 Gene: 
ZNF396 (zinc finger protein 396) is a protein-coding gene. Diseases associated with ZNF396 include prostatitis. GO annotations related to this gene include DNA binding and sequence-specific DNA binding transcription factor activity. An important paralog of this gene is ZNF446.

UniProtKB/Swiss-Prot: ZN396_HUMAN, Q96N95
Function: Isoform 1 and isoform 2 act as DNA-dependent transcriptional repressors




(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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000018.9  NT_010966.14  NC_018929.2  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the ZNF396 gene promoter:
         Max1   GATA-3   MyoD   GATA-2   E47   PPAR-alpha   AREB6   Nkx6-1   Cart-1   Msx-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidZNF396 promoter sequence
   Search SABiosciences Chromatin IP Primers for ZNF396

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat ZNF396


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

Entrez Gene cytogenetic band: 18q12   Ensembl cytogenetic band:  18q12.2   HGNC cytogenetic band: 18p12

ZNF396 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ZNF396 gene location

GeneLoc information about chromosome 18         GeneLoc Exon Structure

GeneLoc location for GC18M032946:  view genomic region     (about GC identifiers)

Start:
32,946,661 bp from pter      End:
32,957,301 bp from pter
Size:
10,641 bases      Orientation:
minus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: ZN396_HUMAN, Q96N95 (See protein sequence)
Recommended Name: Zinc finger protein 396  
Size: 335 amino acids; 38612 Da
Subunit: Isoforms 1 and 2 can both homo- and hetero-associate
Subcellular location: Isoform 1: Nucleus
Subcellular location: Isoform 2: Nucleus. Cytoplasm
Secondary accessions: A1L3V0 Q8NF98 Q8TD80
Alternative splicing: 3 isoforms:  Q96N95-1   Q96N95-2   Q96N95-3   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for ZNF396: NX_Q96N95

Explore proteomics data for ZNF396 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q96N95

  • ZNF396 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    ZNF396 Protein Expression
    REFSEQ proteins: NP_665699.1  
    ENSEMBL proteins: 
     ENSP00000302310   ENSP00000466500   ENSP00000467275   ENSP00000468381   ENSP00000465440  

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    Browse Sino Biological Cell Lysates 
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    Cloud-Clone Corp. Proteins for ZNF396 

    Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IEA--
    GO:0005737cytoplasm IEA--

    ZNF396 for ontologies           About GeneDecksing



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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    HGNC Gene Families: 
    ZNF: Zinc fingers, C2H2-type

    5 InterPro protein domains:
     IPR015880 Znf_C2H2-like
     IPR008916 Retrov_capsid_C
     IPR013087 Znf_C2H2/integrase_DNA-bd
     IPR007087 Znf_C2H2
     IPR003309 Tscrpt_reg_SCAN

    Graphical View of Domain Structure for InterPro Entry Q96N95

    ProtoNet protein and cluster: Q96N95

    1 Blocks protein domain: IPB003309 Transcriptional regulator SCAN

    UniProtKB/Swiss-Prot: ZN396_HUMAN, Q96N95
    Similarity: Belongs to the krueppel C2H2-type zinc-finger protein family
    Similarity: Contains 3 C2H2-type zinc fingers
    Similarity: Contains 1 SCAN box domain


    ZNF396 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,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: ZN396_HUMAN, Q96N95
    Function: Isoform 1 and isoform 2 act as DNA-dependent transcriptional repressors

         Gene Ontology (GO): 4 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003677DNA binding IEA--
    GO:0003700sequence-specific DNA binding transcription factor activity IEA--
    GO:0008270zinc ion binding ----
    GO:0046872metal ion binding IEA--
         
    ZNF396 for ontologies           About GeneDecksing


    Animal Models:
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    miRNA
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    SwitchGear 3'UTR luciferase reporter plasmidZNF396 3' UTR sequence
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for ZNF396


    (Pathways according to EMD Millipore, 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 SABiosciences, 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 Oct 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for ZNF396

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

    2 Interacting proteins for ZNF396 (Q96N953 ENSP000003023104) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    ZNF397Q8NF993, ENSP000003315774I2D: score=1 STRING: ENSP00000331577
    ZSCAN1Q8NBB43, ENSP000002823264I2D: score=1 STRING: ENSP00000282326
    About this table

    Gene Ontology (GO): 3 biological process terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006351transcription, DNA-dependent IEA--
    GO:0006355regulation of transcription, DNA-dependent ----
    GO:0016032viral process ----

    ZNF396 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for ZNF396 (ZN396)

    Search CenterWatch for drugs/clinical trials and news about ZNF396 / ZN396

    (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,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for ZNF396 gene: 
    NM_145756.2  

    Unigene Cluster for ZNF396:

    Zinc finger protein 396
    Hs.351005  [show with all ESTs]
    Unigene Representative Sequence: AK055775
    6 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000306346(uc010xcf.1) ENST00000589332 ENST00000586585 ENST00000586687
    ENST00000585522 ENST00000587422
    Congresses - knowledge worth sharing:  
    European Congress of Clinical Microbiology and Infectious Diseases (ECCMID) 10 - 13 May 2014

    miRNA
    Products:
         
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    8/14 QIAGEN miScript miRNA Assays for microRNAs that regulate ZNF396 (see all 14):
    hsa-miR-1290 hsa-miR-187* hsa-miR-1283 hsa-miR-516b hsa-miR-4251 hsa-miR-29a hsa-miR-29c hsa-miR-3647-3p
    SwitchGear 3'UTR luciferase reporter plasmidZNF396 3' UTR sequence
    Inhib. RNA
    Products:
         
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      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat ZNF396

    Additional mRNA sequence: 

    AF492004.3 AF533251.2 AK055775.1 BC130288.1 BC136314.1 

    4 DOTS entries:

    DT.75173220  DT.95362071  DT.97835087  DT.97798153 

    20 AceView cDNA sequences:

    AF533251 BC036765 BC031580 BM713411 AA852801 H38834 F04323 BM546448 
    AI950122 AK055775 AF492004 NM_145756 AA909548 AA019834 AV753241 H38591 
    F08086 N20629 N29000 BI517675 

    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™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    ZNF396 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GCAACGTGTA
    ZNF396 Expression
    About this image


    See ZNF396 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for ZNF396

    SOURCE GeneReport for Unigene cluster: Hs.351005

    UniProtKB/Swiss-Prot: ZN396_HUMAN, Q96N95
    Tissue specificity: Expressed strongly in liver, moderately in skeletal muscle and weakly in kidney, pancreas,
    spleen and prostate

        SABiosciences Custom PCR Arrays for ZNF396
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for ZNF396

    (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)
    About This Section

    This gene was present in the common ancestor of mammals.

    Orthologs for ZNF396 gene from 1/3 species (see all 3)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    dog
    (Canis familiaris)
    Mammalia ZNF3961 zinc finger protein 396 81.22(n)
    70.78(a)
      100684525  XM_003639173.1  XP_003639221.1 


    ENSEMBL Gene Tree for ZNF396 (if available)
    TreeFam Gene Tree for ZNF396 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for ZNF396 gene
    ZNF4462  ZSCAN92  ZKSCAN12  ZNF3972  ZNF2322  ZSCAN302  ZNF1742  ZNF32  
    ZKSCAN42  ZSCAN122  ZNF3942  ZSCAN232  ZSCAN212  ZNF1652  ZSCAN162  ZKSCAN82  
    ZSCAN222  ZSCAN312  ZNF242  ZKSCAN32  ZNF182  
    18/56 SIMAP similar genes for ZNF396 using alignment to 3 protein entries:     ZN396_HUMAN (see all proteins) (see all similar genes):
    ZNF483    LOC100128510    ZSCAN29    ZNF213    SCAND1    ZSCAN18
    ZNF323    ZSCAN30    ZNF197    ZSCAN23    ZSCAN10    ZSCAN31
    ZKSCAN8    ZNF202    ZNF394    ZNF444    ZNF137P    ZNF24

    ZNF396 for paralogs           About GeneDecksing


    1 Pseudogenes.org Pseudogene for ZNF396
    PGOHUM00000234666


    (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) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/294 SNPs in ZNF396 are shown (see all 294)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 18 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs734285841,2
    C--32946174(+) TTCCCT/CCTAGA 1 -- ds50013Minor allele frequency- C:0.09WA NA EA 242
    rs29093381,2
    C,F,A,H--32946200(+) CCCTAA/CCAGAC 1 -- ds500121Minor allele frequency- C:0.24NA NS EA WA CSA 1117
    rs1129989241,2
    C,F--32946206(+) CAGACG/ACAGTT 1 -- ds50011Minor allele frequency- A:0.50WA 2
    rs1911235071,2
    --32946328(+) CAGCTC/TTCTCG 1 -- ds50010--------
    rs1835896231,2
    --32946374(+) CAGTCA/GTCATT 1 -- ds50010--------
    rs80950541,2
    C,F--32946451(+) AACCAT/CCAAAG 1 -- ds50014Minor allele frequency- C:0.45NA WA 124
    rs176464681,2
    C,F--32946758(+) TTATAT/AAAACT 1 -- ut31 ese311Minor allele frequency- A:0.22NA WA EA 498
    rs1404784021,2
    --32946766(+) ACTAGC/TACCAT 1 -- ut310--------
    rs99647781,2
    C--32946854(+) TTAGAC/TGATAT 1 -- ut314Minor allele frequency- T:0.02NA WA 258
    rs99647901,2
    C,F,H--32946885(+) GGAAAC/TACTCA 1 -- ut3115Minor allele frequency- T:0.09NS EA NA WA 1428

    HapMap Linkage Disequilibrium report for ZNF396 (32946661 - 32957301 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 1 variation for ZNF396:    About this table     
    Variant IDTypeSubtypePubMed ID
    esv2660816CNV Deletion23128226

    SABiosciences Cancer Mutation 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.)
    About This Section
    OMIM gene information: 609600    OMIM disorders: --

    2 diseases for ZNF396:    About MalaCards
    prostatitis    


    ZNF396 for disorders           About GeneDecksing


    Export disorders for ZNF396 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)
    About This Section

    PubMed articles for ZNF396 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with ZNF396)
        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 Ota T.... Sugano S. (2004)
    2. Identification and characterization of two novel human SCAN domain- containing zinc finger genes ZNF396 and ZNF397. (PubMed id 12801647)1, 2 Wu Y.... Zhao S. (2003)
    3. An atlas of combinatorial transcriptional regulation in mouse and man. (PubMed id 20211142)1 Ravasi T....Hayashizaki Y. (2010)
    4. 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. (2004)
    5. 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. (2002)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     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)
    About This Section
    Entrez Gene: 252884 HGNC: 18824 AceView: ZNF396 Ensembl:ENSG00000186496 euGenes: HUgn252884
    ECgene: ZNF396 H-InvDB: ZNF396

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for ZNF396 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for ZNF396 gene:
    Search GeneIP for patents involving ZNF396

    GeneCards and IP:
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    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 3 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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    (GIFtS: 73)
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