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

ZBED6 Gene

protein-coding   GIFtS: 32
GCID: GC01P203766

Zinc Finger, BED-Type Containing 6

  Search for ZBED6
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, BED-Type Containing 61 2
MGR2
Zinc Finger BED Domain-Containing Protein 62

External Ids:    HGNC: 332731   Entrez Gene: 1003812702   Ensembl: ENSG000002573157   OMIM: 6135125   UniProtKB: P864523   

Export aliases for ZBED6 gene to outside databases

Previous GC identifer: GC01U902782


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

GeneCards Summary for ZBED6 Gene: 
ZBED6 (zinc finger, BED-type containing 6) is a protein-coding gene. GO annotations related to this gene include protein dimerization activity and metal ion binding. An important paralog of this gene is ZBED4.

UniProtKB/Swiss-Prot: ZBED6_HUMAN, P86452
Function: Transcriptional repressor which binds to the consensus sequence 5'-GCTCGC-3' and represses transcription
of IGF2. May also regulate expression of other target genes containing this consensus binding site (By
similarity)




(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_000001.10  NC_018912.2  NT_004487.19  
Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for ZBED6
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for ZBED6

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat ZBED6


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

Entrez Gene cytogenetic band: 1q32.1   Ensembl cytogenetic band:  1q32.1   HGNC cytogenetic band: 1q32.1

ZBED6 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ZBED6 gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01P203766:  view genomic region     (about GC identifiers)

Start:
203,765,437 bp from pter      End:
203,769,686 bp from pter
Size:
4,250 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.,
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About This Section

UniProtKB/Swiss-Prot: ZBED6_HUMAN, P86452 (See protein sequence)
Recommended Name: Zinc finger BED domain-containing protein 6  
Size: 979 amino acids; 109973 Da
Subcellular location: Nucleus (By similarity). Nucleus, nucleolus (By similarity). Note=Located predominantly in
the nucleolus but is also dispersed throughout the nucleus (By similarity)
Miscellaneous: Encoded by an exapted DNA transposon located in an intron of the ZC3H11A gene

Explore the universe of human proteins at neXtProt for ZBED6: NX_P86452

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_P86452

  • ZBED6 Protein expression data from MOPED1, PaxDb2 and MAXQB3 : --
    REFSEQ proteins: NP_001167579.1  
    ENSEMBL proteins: 
     ENSP00000447879  

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus ISS--
    GO:0005730nucleolus ISS--

    ZBED6 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: 
    ZBED: Zinc fingers, BED-type

    3 InterPro protein domains:
     IPR008906 HATC
     IPR012337 RNaseH-like_dom
     IPR003656 Znf_BED_prd

    Graphical View of Domain Structure for InterPro Entry P86452

    ProtoNet protein and cluster: P86452

    UniProtKB/Swiss-Prot: ZBED6_HUMAN, P86452
    Similarity: Contains 2 BED-type zinc fingers


    ZBED6 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: ZBED6_HUMAN, P86452
    Function: Transcriptional repressor which binds to the consensus sequence 5'-GCTCGC-3' and represses transcription
    of IGF2. May also regulate expression of other target genes containing this consensus binding site (By
    similarity)

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003676nucleic acid binding ----
    GO:0003677DNA binding IEA--
    GO:0046872metal ion binding IEA--
    GO:0046983protein dimerization activity IEA--
         
    ZBED6 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 ZBED6

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000122negative regulation of transcription from RNA polymerase II promoter IEA--
    GO:0006351transcription, DNA-dependent IEA--
    GO:0045892negative regulation of transcription, DNA-dependent ISS--

    ZBED6 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
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    Browse Tocris compounds for ZBED6

    Search CenterWatch for drugs/clinical trials and news about ZBED6

    (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,
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    About This Section

    REFSEQ mRNAs for ZBED6 gene: 
    NM_001174108.1  

    Unigene Cluster for ZBED6:

    Zinc finger, BED-type containing 6
    Hs.716666  [show with all ESTs]
    Unigene Representative Sequence: NM_001174108
    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000550078(uc021phs.1)
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    Additional mRNA sequence: AF086224.1 

    4 DOTS entries:

    DT.100802807  DT.121452763  DT.208858  DT.95368226 

    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

    ZBED6 expression in normal human tissues (normalized intensities)      ZBED6 embryonic expression: see
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: ATCTGTTTTG
    ZBED6 Expression
    About this image


    ZBED6 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database 
     5/2 selected tissues (see all 2) fully expand
     
     Testis (Reproductive System)
             Testis Somatic Cells Primitive Gonad
     
     Gonad (Reproductive System)
             Testis Somatic Cells Primitive Gonad

    Genevestigator expression for ZBED6

    SOURCE GeneReport for Unigene cluster: Hs.716666
        SABiosciences Custom PCR Arrays for ZBED6
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for ZBED6

    (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 ZBED6 gene from 5/8 species (see all 8)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Zbed61 , 5 zinc finger, BED domain containing 61, 5 89.49(n)1
    89.56(a)1
      1 (57.94 cM)5
    6671181  NM_001166552.11  NP_001160024.11 
     1336558795 
    lizard
    (Anolis carolinensis)
    Reptilia --
    --
    (see all 11)
    Uncharacterized protein
    (see all 11)
    28(a)
    28(a)
    (see all 11)
    possible ortholog
    possible ortholog
    (see all 11)
    1(145630749-145631665)
    LGf(449914-450844)
    zebrafish
    (Danio rerio)
    Actinopterygii CABZ01003296.16
    CABZ01093082.16
    (see all 10)
    Uncharacterized protein
    (see all 10)
    24(a)
    24(a)
    (see all 10)
    possible ortholog
    possible ortholog
    (see all 10)
    Zv9_NA267(814-3297)
    5(19037279-19039765)
    fruit fly
    (Drosophila melanogaster)
    Insecta CG137756
    --
    17(a)
    1 → many
    2L(6954585-6956872)
    worm
    (Caenorhabditis elegans)
    Secernentea C10A4.16
    K09A11.16
    (see all 4)
    Protein K09A11.1
    (see all 4)
    17(a)
    17(a)
    (see all 4)
    many ↔ many
    many ↔ many
    (see all 4)
    X(7415839-7418627)
    X(13262500-13264587)


    ENSEMBL Gene Tree for ZBED6 (if available)
    TreeFam Gene Tree for ZBED6 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for ZBED6 gene
    ZBED42  ZBED12  

    ZBED6 for paralogs           About GeneDecksing


    2 Pseudogenes.org Pseudogenes for ZBED6
    PGOHUM00000261308 PGOHUM00000261507


    (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
    Structural Variations
         Database of Genomic Variants (DGV) 2 variations for ZBED6:    About this table     
    Variant IDTypeSubtypePubMed ID
    nsv520482CNV Loss19592680
    nsv873111CNV Gain21882294

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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

    ZBED6 for disorders           About MalaCards
    OMIM gene information: 613512    OMIM disorders: --


    ZBED6 for disorders           About GeneDecksing


    Export disorders for ZBED6 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 ZBED6 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with ZBED6)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. ZBED6, a novel transcription factor derived from a domesticated DNA transposon regulates IGF2 expression and muscle growth. (PubMed id 20016685)1, 2, 3 Markljung E.... Andersson L. (2009)
    2. ZBED evolution: repeated utilization of DNA transposons as regulators of diverse host functions. (PubMed id 23533661)1, 3 Hayward A.... Jern P. (2013)
    3. Studying phenotypic evolution in domestic animals: a walk in the footsteps of charles darwin. (PubMed id 20375320)1, 3 Andersson L. (2009)
    4. The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)1, 2 Gregory S.G.... Bentley D.R. (2006)
    5. A domesticated transposon mediates the effects of a s ingle-nucleotide polymorphism responsible for enhanced muscle growth. (PubMed id 20134481)1 Butter F....Mann M. (2010)

    (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: 100381270 HGNC: 33273 Ensembl:ENSG00000257315 euGenes: HUgn100381270 ECgene: ZBED6
    H-InvDB: ZBED6

    (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 ZBED6 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 ZBED6 gene:
    Search GeneIP for patents involving ZBED6

    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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    About This Section

     
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    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 4 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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    (GIFtS: 73)
    transforming growth factor, beta 1
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