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

ZNF438 Gene

protein-coding   GIFtS: 48
GCID: GC10M031133

Zinc Finger Protein 438

Alzheimer's & Parkinson's Diseases Congress
  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)
About This Section

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 4381 2
bA330O11.12

External Ids:    HGNC: 210291   Entrez Gene: 2209292   Ensembl: ENSG000001836217   UniProtKB: Q7Z4V03   
ORGUL members:         
NONCODE14:n407148      

Export aliases for ZNF438 gene to outside databases

Previous GC identifers: GC10M031174 GC10M030852


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

GeneCards Summary for ZNF438 Gene: 
ZNF438 (zinc finger protein 438) is a protein-coding gene, and is affiliated with the lncRNA class. Diseases associated with ZNF438 include multiple sclerosis, and alzheimer's disease. GO annotations related to this gene include DNA binding and nucleic acid binding transcription factor activity.

UniProtKB/Swiss-Prot: ZN438_HUMAN, Q7Z4V0
Function: Isoform 1 acts as a transcriptional repressor




(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_000010.10  NC_018921.2  NT_008705.16  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the ZNF438 gene promoter:
         LHX3b/Lhx3b   Egr-1   POU6F1 (c2)   MEF-2A   S8   E2F   E2F-1   FOXO4   LHX3a/Lhx3a   aMEF-2   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidZNF438 promoter sequence
   Search SABiosciences Chromatin IP Primers for ZNF438

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat ZNF438


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

Entrez Gene cytogenetic band: 10p11.23   Ensembl cytogenetic band:  10p11.22   HGNC cytogenetic band: 10p11.23

ZNF438 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ZNF438 gene location

GeneLoc information about chromosome 10         GeneLoc Exon Structure

GeneLoc location for GC10M031133:  view genomic region     (about GC identifiers)

Start:
31,133,563 bp from pter      End:
31,320,866 bp from pter
Size:
187,304 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: ZN438_HUMAN, Q7Z4V0 (See protein sequence)
Recommended Name: Zinc finger protein 438  
Size: 828 amino acids; 91836 Da
Subcellular location: Nucleus
Secondary accessions: A2A3J4 A8K9L5 Q5T426 Q658Q4 Q6ZN65
Alternative splicing: 3 isoforms:  Q7Z4V0-1   Q7Z4V0-2   Q7Z4V0-3   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for ZNF438: NX_Q7Z4V0

Explore proteomics data for ZNF438 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q7Z4V0

  • ZNF438 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    ZNF438 Protein Expression
    REFSEQ proteins (7 alternative transcripts): 
    NP_001137238.1  NP_001137239.1  NP_001137240.1  NP_001137241.1  NP_001137242.1  NP_001137243.1  NP_877432.1  

    ENSEMBL proteins: 
     ENSP00000333571   ENSP00000354663   ENSP00000364460   ENSP00000406934   ENSP00000412363  
     ENSP00000387546   ENSP00000413060   ENSP00000410898   ENSP00000445461  

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    Gene Ontology (GO): 1 cellular component term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IDA17669267

    ZNF438 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

    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 Q7Z4V0

    ProtoNet protein and cluster: Q7Z4V0

    UniProtKB/Swiss-Prot: ZN438_HUMAN, Q7Z4V0
    Similarity: Belongs to the krueppel C2H2-type zinc-finger protein family
    Similarity: Contains 4 C2H2-type zinc fingers


    ZNF438 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: ZN438_HUMAN, Q7Z4V0
    Function: Isoform 1 acts as a transcriptional repressor

         Gene Ontology (GO): 5/6 molecular function terms (GO ID links to tree view) (see all 6):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0001071nucleic acid binding transcription factor activity ----
    GO:0003676nucleic acid binding ----
    GO:0003677DNA binding IEA--
    GO:0003700sequence-specific DNA binding transcription factor activity IDA17669267
    GO:0008270zinc ion binding ----
         
    ZNF438 for ontologies           About GeneDecksing


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    (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 ZNF438

    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 IEA--
    GO:0045892negative regulation of transcription, DNA-dependent IDA17669267

    ZNF438 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 ZNF438 (ZN438)

    Search CenterWatch for drugs/clinical trials and news about ZNF438 / ZN438

    (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 ZNF438 gene (7 alternative transcripts): 
    NM_001143766.1  NM_001143767.1  NM_001143768.1  NM_001143769.1  NM_001143770.1  NM_001143771.1  NM_182755.2  

    Unigene Cluster for ZNF438:

    Zinc finger protein 438
    Hs.660642  [show with all ESTs]
    Unigene Representative Sequence: AK097092
    9 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000331737 ENST00000361310 ENST00000375311 ENST00000436087(uc009xlg.3 uc001ivp.4)
    ENST00000442986(uc010qdz.2 uc010qea.2 uc010qec.1) ENST00000413025(uc001ivo.4 uc010qeb.2)
    ENST00000452305(uc010qdy.2) ENST00000444692 ENST00000538351(uc001ivn.3)


    miRNA
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    Inhib. RNA
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    Additional mRNA sequence: 

    AF428258.1 AF440405.1 AK057323.1 AK097092.1 AK131357.1 AK292730.1 AK294253.1 AL833056.1 
    BC101622.1 BC104669.1 BC104757.1 BC143462.1 BC143464.1 DQ356011.1 DQ356012.1 NR_026560.1 

    14 DOTS entries:

    DT.99931060  DT.406709  DT.121255765  DT.91856762  DT.100745795  DT.102827920  DT.121255762  DT.100672639 
    DT.40242305  DT.99933137  DT.121255721  DT.40204888  DT.95253135  DT.91917746 

    24/53 AceView cDNA sequences (see all 53):

    CA309823 CD358112 AW007325 NM_182755 CA309854 AI537321 AA330854 CA309853 
    AI056759 BM674747 AI563915 BM717381 AI369618 BX093705 AW293842 AI198234 
    BI861876 AF428258 BG614813 AK131357 BQ004646 BF772555 AK057323 BM826307 

    GeneLoc Exon Structure

    5 Alternative Splicing Database (ASD) splice patterns (SP) for ZNF438    About this scheme

    ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9a · 9b · 9c ^ 10 ^ 11a · 11b · 11c
    SP1:                          -                                                               
    SP2:        -     -           -                 -           -     -                           
    SP3:                                            -                                             
    SP4:                    -     -                 -                                             
    SP5:                          -                 -                                             


    ECgene alternative splicing isoforms for ZNF438

    (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

    ZNF438 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GTTTTATTTT
    ZNF438 Expression
    About this image


    See ZNF438 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for ZNF438

    SOURCE GeneReport for Unigene cluster: Hs.660642

    UniProtKB/Swiss-Prot: ZN438_HUMAN, Q7Z4V0
    Tissue specificity: Ubiquitous

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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)
    About This Section

    This gene was present in the common ancestor of chordates.

    Orthologs for ZNF438 gene from 3/9 species (see all 9)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Zfp4381 , 5 zinc finger protein 4381, 5 74.57(n)1
    65.32(a)1
      18 (3.02 cM)5
    2401861  NM_178722.51  NP_848837.31 
     52100315 
    chicken
    (Gallus gallus)
    Aves ZNF4381 zinc finger protein 438 57.69(n)
    46.29(a)
      420474  XM_418576.2  XP_418576.1 
    zebrafish
    (Danio rerio)
    Actinopterygii znf4381 zinc finger protein 438 48.83(n)
    39.78(a)
      798757  NM_001077161.1  NP_001070629.1 


    ENSEMBL Gene Tree for ZNF438 (if available)
    TreeFam Gene Tree for ZNF438 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for ZNF438 gene
    2 SIMAP similar genes for ZNF438 using alignment to 3 protein entries:     ZN438_HUMAN (see all proteins):
    ZNF844    ZNF72

    ZNF438 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) 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

    10/3924 SNPs in ZNF438 are shown (see all 3924)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 10 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    VAR_0355804
    A breast cancer sample4--see VAR_0355802 K N mis40--------
    rs1915127291,2
    --31133212(+) ATTAGA/CTGAAG 8 -- int10--------
    rs2006519701,2
    C--31133244(+) TTTTG-/ATATATG 8 -- int10--------
    rs618456931,2
    F--31133339(+) AATCTG/AAGTCC 8 -- int11Minor allele frequency- A:0.50NA 2
    rs776724481,2
    F--31133340(+) ATCTGA/CGTCCT 8 -- int12Minor allele frequency- C:0.06CSA WA 120
    rs732543281,2
    C,F--31133364(+) TTAAAC/TTATTG 8 -- int11Minor allele frequency- T:0.50WA 2
    rs359184301,2
    C,F--31133423(+) CCAGAG/TAATTT 8 -- int13Minor allele frequency- T:0.07NA EA 242
    rs763069971,2
    C,F--31133533(+) GAAAAC/TATCTG 8 -- int11Minor allele frequency- T:0.09WA 118
    rs355854681,2
    C,F--31133581(+) CTGTAT/CTTGAA 8 -- ut31 nc-transcript-variant7Minor allele frequency- C:0.08NA EA 428
    rs169154991,2
    C,F--31133590(+) AAGAAC/GAGCCT 8 -- ut31 nc-transcript-variant3Minor allele frequency- G:0.01NA 142

    HapMap Linkage Disequilibrium report for ZNF438 (31133563 - 31320866 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 10/19 variations for ZNF438 (see all 19):    About this table     
    Variant IDTypeSubtypePubMed ID
    esv2556462CNV Deletion19546169
    nsv821086CNV Deletion20802225
    esv2325923CNV Deletion18987734
    esv2421350CNV Deletion20811451
    esv2669719CNV Deletion23128226
    dgv126e199CNV Deletion23128226
    nsv510215CNV Loss20534489
    dgv629n71CNV Loss21882294
    dgv23n17CNV Loss16327808
    nsv819898CNV Loss19587683

    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
    2 diseases for ZNF438:    About MalaCards
    multiple sclerosis    alzheimer's disease


    ZNF438 for disorders           About GeneDecksing


    Congresses - knowledge worth sharing:  
    Alzheimer's & Parkinson's Diseases Congress (ADPD) 18 - 22 March 2015
    Genetic Association Database (GAD): ZNF438
    Human Genome Epidemiology (HuGE) Navigator: ZNF438 (2 documents)

    Export disorders for ZNF438 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 ZNF438 gene, integrated from 9 sources (see all 14):
    (articles sorted by number of sources associating them with ZNF438)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PubMed id 20379614)1, 4 Rose J.E....Uhl G.R. (2010)
    2. Identification of a novel human zinc finger gene, ZNF438, with transcription inhibition activity. (PubMed id 17669267)1, 2 Zhong Z....Yu L. (2007)
    3. A scan of chromosome 10 identifies a novel locus showing strong association with late-onset Alzheimer disease. (PubMed id 16385451)1, 4 Grupe A....Goate A. (2006)
    4. 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. (2004)
    5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    6. The DNA sequence and comparative analysis of human chromosome 10. (PubMed id 15164054)1, 2 Deloukas P.... Rogers J. (2004)
    7. Genetic risk and a primary role for cell-mediated immu ne mechanisms in multiple sclerosis. (PubMed id 21833088)1  ....Compston A. (2011)
    8. Genomewide pharmacogenomic study of metabolic side ef fects to antipsychotic drugs. (PubMed id 20195266)4 Adkins D.E....van den Oord E.J. (2010)
    9. Genome-wide association to body mass index and waist circumference: the Framingham Heart Study 100K project. (PubMed id 17903300)4 Fox C.S....Atwood L.D. (2007)
    10. The full-ORF clone resource of the German cDNA consortium. (PubMed id 17974005)2 Bechtel S.... Schupp I. (2007)

    (in PubMed, OMIM, and NCBI Bookshelf)
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 220929 HGNC: 21029 AceView: LOC220929 Ensembl:ENSG00000183621 euGenes: HUgn220929
    ECgene: ZNF438 H-InvDB: ZNF438

    (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 ZNF438 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 ZNF438 gene:
    Search GeneIP for patents involving ZNF438

    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, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
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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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