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

ZNF488 Gene

protein-coding   GIFtS: 47
GCID: GC10P048355

Zinc Finger Protein 488

Alzheimer's & Parkinson's 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 4881 2

External Ids:    HGNC: 235351   Entrez Gene: 1187382   Ensembl: ENSG000001653887   UniProtKB: Q96MN93   

Export aliases for ZNF488 gene to outside databases

Previous GC identifers: GC10P047749 GC10P047975 GC10P043107


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

GeneCards Summary for ZNF488 Gene: 
ZNF488 (zinc finger protein 488) is a protein-coding gene. Diseases associated with ZNF488 include alzheimer's disease. GO annotations related to this gene include DNA binding and zinc ion binding. An important paralog of this gene is PRDM8.

UniProtKB/Swiss-Prot: ZN488_HUMAN, Q96MN9
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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000010.10  NT_030772.10  NC_018921.2  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the ZNF488 gene promoter:
         RP58   STAT1   Pbx1a   STAT1beta   Evi-1   STAT1alpha   AREB6   PPAR-gamma1   Msx-1   PPAR-gamma2   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidZNF488 promoter sequence
   Search SABiosciences Chromatin IP Primers for ZNF488

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat ZNF488


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

Entrez Gene cytogenetic band: 10q11.22   Ensembl cytogenetic band:  10q11.22   HGNC cytogenetic band: 10q11.22

ZNF488 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ZNF488 gene location

GeneLoc information about chromosome 10         GeneLoc Exon Structure

GeneLoc location for GC10P048355:  view genomic region     (about GC identifiers)

Start:
48,355,024 bp from pter      End:
48,373,866 bp from pter
Size:
18,843 bases      Orientation:
plus 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: ZN488_HUMAN, Q96MN9 (See protein sequence)
Recommended Name: Zinc finger protein 488  
Size: 340 amino acids; 36962 Da
Subcellular location: Nucleus (Potential)

Explore the universe of human proteins at neXtProt for ZNF488: NX_Q96MN9

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q96MN9

  • ZNF488 Protein expression data from MOPED1, PaxDb2 and MAXQB3 : --
    REFSEQ proteins: NP_694579.1  
    ENSEMBL proteins: 
     ENSP00000379054   ENSP00000402147   ENSP00000401469   ENSP00000415923   ENSP00000465061  
     ENSP00000406508   ENSP00000410326   ENSP00000412898   ENSP00000466536  

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    Cloud-Clone Corp. Proteins for ZNF488 

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IBA--

    ZNF488 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

    2 InterPro protein domains:
     IPR015880 Znf_C2H2-like
     IPR007087 Znf_C2H2

    Graphical View of Domain Structure for InterPro Entry Q96MN9

    ProtoNet protein and cluster: Q96MN9

    UniProtKB/Swiss-Prot: ZN488_HUMAN, Q96MN9
    Similarity: Belongs to the krueppel C2H2-type zinc-finger protein family
    Similarity: Contains 2 C2H2-type zinc fingers


    ZNF488 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: ZN488_HUMAN, Q96MN9
    Function: May be involved in transcriptional regulation

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000981sequence-specific DNA binding RNA polymerase II transcription factor activity IBA--
    GO:0003677DNA binding IEA--
    GO:0005515protein binding IPI16713569
    GO:0008270zinc ion binding ----
    GO:0046872metal ion binding IEA--
         
    ZNF488 for ontologies           About GeneDecksing


    Animal Models:
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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 ZNF488

    2 Interacting proteins for ZNF488 (Q96MN91, 2, 3) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    ATXN1P542531, 2, 3EBI-948288,EBI-930964 MINT-2878398 MINT-2878379 MINT-2878417 I2D: score=3 
    PRKCZQ055133I2D: score=2 
    About this table

    Gene Ontology (GO): 5 biological process terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006357regulation of transcription from RNA polymerase II promoter IBA--
    GO:0006366transcription from RNA polymerase II promoter IBA--
    GO:0014003oligodendrocyte development IBA--
    GO:0045892negative regulation of transcription, DNA-dependent IEA--
    GO:0048714positive regulation of oligodendrocyte differentiation IEA--

    ZNF488 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 ZNF488 (ZN488)

    Search CenterWatch for drugs/clinical trials and news about ZNF488 / ZN488

    (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 ZNF488 gene: 
    NM_153034.2  

    Unigene Cluster for ZNF488:

    Zinc finger protein 488
    Hs.27788  [show with all ESTs]
    Unigene Representative Sequence: BC051323
    9 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000395702(uc001jex.3) ENST00000442001 ENST00000433077 ENST00000436850
    ENST00000494156 ENST00000412534 ENST00000444585 ENST00000425196 ENST00000586537


    miRNA
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    SwitchGear 3'UTR luciferase reporter plasmidZNF488 3' UTR sequence
    Inhib. RNA
    Products:
         
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene RNAi products in human, mouse, rat for ZNF488
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat ZNF488
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat ZNF488
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat ZNF488

    Additional mRNA sequence: 

    AK055018.1 AK056666.1 AK091097.1 BC026895.1 BC051323.1 

    7 DOTS entries:

    DT.111608  DT.97839051  DT.100749809  DT.121270215  DT.121270221  DT.121270205  DT.121270231 

    24/56 AceView cDNA sequences (see all 56):

    BM666955 BC026895 N62815 BC051323 BU187849 BQ689481 AX746778 AK056666 
    Z44760 NM_153034 Z45901 BM560165 AK055018 AI056483 AW005906 AK091097 
    W01327 BU740878 BG912147 BU101554 R89700 H14214 AL713434 Z41527 

    GeneLoc Exon Structure

    5/7 Alternative Splicing Database (ASD) splice patterns (SP) for ZNF488 (see all 7)    About this scheme

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


    ECgene alternative splicing isoforms for ZNF488

    (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

    ZNF488 expression in normal human tissues (normalized intensities)      ZNF488 embryonic expression: see
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GCATATTGTT
    ZNF488 Expression
    About this image


    ZNF488 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database 
     5/3 selected tissues (see all 3) fully expand
     
     Brain (Nervous System)    fully expand to see all 2 entries
             Myelinating Oligodendrocyte Cells Forebrain White Matter
     
     Neural Tube (Nervous System)
             Metencephalon
     
     Spinal Cord (Nervous System)
             Myelinating Oligodendrocyte Cells Spinal Cord White Matter

    Genevestigator expression for ZNF488

    SOURCE GeneReport for Unigene cluster: Hs.27788
        SABiosciences Custom PCR Arrays for ZNF488
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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)
    About This Section

    This gene was present in the common ancestor of animals.

    Orthologs for ZNF488 gene from 5/11 species (see all 11)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Zfp4881 , 5 zinc finger protein 4881, 5 69.28(n)1
    57.37(a)1
      14 (20.80 cM)5
    3828671  NM_001013777.21  NP_001013799.21 
     339670705 
    chicken
    (Gallus gallus)
    Aves --
    --
    24(a)
    possible ortholog
    6(17505026-17522233)
    lizard
    (Anolis carolinensis)
    Reptilia --
    --
    40(a)
    possible ortholog
    GL343297.1(483895-484911)
    zebrafish
    (Danio rerio)
    Actinopterygii BC055201.12   -- 77.48(n)    BC055201.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG132876
    --
    20(a)
    1 → many
    3L(5875404-5877190)


    ENSEMBL Gene Tree for ZNF488 (if available)
    TreeFam Gene Tree for ZNF488 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for ZNF488 gene
    PRDM82  

    ZNF488 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

    10/640 SNPs in ZNF488 are shown (see all 640)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 10 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1889497871,2
    --48353126(+) AGGCCA/GTGGGA 1 -- us2k10--------
    rs1816939021,2
    --48353221(+) CCTATC/TGGGTT 1 -- us2k10--------
    rs1440038151,2
    --48353246(+) GGCCTA/GTAGTC 1 -- us2k10--------
    rs608490811,2
    C,F--48353285(+) GGAATG/CGGTGT 1 -- us2k11Minor allele frequency- C:0.50WA 2
    rs1854308581,2
    --48353328(+) AGGAAA/GTAACT 1 -- us2k10--------
    rs1902358941,2
    --48353352(+) ACAGGC/TTCATG 1 -- us2k10--------
    rs1827369611,2
    C--48353389(+) ATGAGA/CCTTTG 1 -- us2k10--------
    rs1860338281,2
    --48353407(+) ACTTTG/TGGGTT 1 -- us2k10--------
    rs1138984531,2
    C,F--48353435(+) AGACGC/TTGGCA 1 -- us2k11Minor allele frequency- T:0.50NA 2
    rs1921395011,2
    --48353448(+) CTGTTC/TGAAAG 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for ZNF488 (48355024 - 48373866 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 10/15 variations for ZNF488 (see all 15):    About this table     
    Variant IDTypeSubtypePubMed ID
    nsv436102CNV Deletion17901297
    esv2736163CNV Deletion23290073
    nsv831861CNV Loss17160897
    nsv895342CNV Loss21882294
    nsv895344CNV Loss21882294
    dgv696n71CNV Gain21882294
    nsv895343CNV Gain21882294
    nsv831860CNV Gain17160897
    nsv467059CNV Gain19166990
    nsv8636CNV Gain+Loss18304495

    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 ZNF488:    About MalaCards
    alzheimer's disease    


    ZNF488 for disorders           About GeneDecksing


    Congresses - knowledge worth sharing:  
    Alzheimer's & Parkinson's Diseases Congress (ADPD) 18 - 22 March 2015
    Genetic Association Database (GAD): ZNF488
    Human Genome Epidemiology (HuGE) Navigator: ZNF488 (1 document)

    Export disorders for ZNF488 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 ZNF488 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with ZNF488)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. 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)
    2. The DNA sequence and comparative analysis of human chromosome 10. (PubMed id 15164054)1, 2 Deloukas P.... Rogers J. (2004)
    3. 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)
    4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    5. hORFeome v3.1: a resource of human open reading frames representing over 10,000 human genes. (PubMed id 17207965)1 Lamesch P.... Vidal M. (2007)
    6. A protein-protein interaction network for human inherited ataxias and disorders of Purkinje cell degeneration. (PubMed id 16713569)1 Lim J.... Zoghbi H.Y. (2006)
    7. 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: 118738 HGNC: 23535 AceView: ZNF488 Ensembl:ENSG00000165388 euGenes: HUgn118738
    ECgene: ZNF488 H-InvDB: ZNF488

    (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 ZNF488 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 ZNF488 gene:
    Search GeneIP for patents involving ZNF488

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



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    About This Section

     
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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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