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ZBED6 Gene

protein-coding   GIFtS: 28
GCID: GC01P203766

Zinc Finger, BED-Type Containing 6

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(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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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, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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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. 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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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Regulatory elements:
   Search for regulatory transcription factor binding sites for ZBED6
         Other transcription factors

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

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing 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 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, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: ZBED6_HUMAN, P86452 (See protein sequence)
Recommended Name: Zinc finger BED domain-containing protein 6  
Size: 979 amino acids; 109973 Da
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

Explore proteomics data for ZBED6 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See ZBED6 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_001167579.1  
    ENSEMBL proteins: 
     ENSP00000447879  

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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:
    ZBED: Zinc fingers, BED-type

    3 InterPro protein domains:
     IPR008906 HATC_dom_C
     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


    Find genes that share domains with ZBED6           About GenesLikeMe


    (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, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    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:    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--
         
    Find genes that share ontologies with ZBED6           About GenesLikeMe


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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
    ZBED6_HUMAN, P86452: Nucleus (By similarity). Nucleus, nucleolus (By similarity). Note=Located predominantly in
    the nucleolus but is also dispersed throughout the nucleus (By similarity)

    Gene Ontology (GO): 2 cellular component terms:    About this table

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

    Find genes that share ontologies with ZBED6           About GenesLikeMe


    (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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        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for ZBED6
    Interactions:

        Search GeneGlobe Interaction Network for ZBED6

    Gene Ontology (GO): 3 biological process terms:    About this table

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

    Find genes that share ontologies with ZBED6           About GenesLikeMe



    (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 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,
    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, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for ZBED6 gene: 
    NM_001174108.1  

    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000550078(uc021phs.1)
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    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™, 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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    ZBED6 expression in normal human tissues (normalized intensities)
    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
     selected tissues (see all 2) fully expand
     
     Testis (Reproductive System)
             Testis Somatic Cells Primitive Gonad
     
     Gonad (Reproductive System)
             Testis Somatic Cells Primitive Gonad
    ZBED6 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    ZBED6 Protein Expression
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    In Situ
    Assay Products:
     

     
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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 animals.

    Orthologs for ZBED6 gene from Selected species (see all 9)    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 ZBED66
    zinc finger, BED-type containing 6
    22(a)
    1 ↔ 1
    GL343466.1(303433-306099)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia LOC1017307181 zinc finger BED domain-containing protein 6-like 48.93(n)
    38.05(a)
      101730718  XM_004919553.1  XP_004919610.1 
    zebrafish
    (Danio rerio)
    Actinopterygii BX530070.16
    Uncharacterized protein
    21(a)
    many ↔ many
    7(1954477-1956200) ENSDARG00000070207
    fruit fly
    (Drosophila melanogaster)
    Insecta CG137756
    --
    18(a)
    1 → many
    2L(6954585-6956872)
    worm
    (Caenorhabditis elegans)
    Secernentea C10A4.16
    Protein C10A4.1 (C10A4.1) mRNA, complete cds
    18(a)
    many ↔ many
    X(7415839-7418627) WBGene00015662


    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)
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    Paralogs for ZBED6 gene
    ZBED42  ZBED12  

    Find genes that share paralogs with ZBED6           About GenesLikeMe


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

    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, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 613512    OMIM disorders: --


    Find genes that share disorders with ZBED6           About GenesLikeMe


    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)
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    PubMed articles for ZBED6 gene integrated from 10 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. (PLoS Biol. 2009)
    2. ZBED evolution: repeated utilization of DNA transposons as regulators of diverse host functions. (PubMed id 23533661)1, 3 Hayward A.... Jern P. (PLoS ONE 2013)
    3. Studying phenotypic evolution in domestic animals: a walk in the footsteps of Charles Darwin. (PubMed id 20375320)1, 3 Andersson L. (Cold Spring Harb. Symp. Quant. Biol. 2009)
    4. The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)1, 2 Gregory S.G.... Bentley D.R. (Nature 2006)
    5. A domesticated transposon mediates the effects of a single-nucleotide polymorphism responsible for enhanced muscle growth. (PubMed id 20134481)1 Butter F....Mann M. (EMBO Rep. 2010)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     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)
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    Entrez Gene: 100381270 HGNC: 33273 Ensembl:ENSG00000257315 euGenes: HUgn100381270 ECgene: ZBED6
    H-InvDB: ZBED6

    (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 ZBED6 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 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, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, eBioscience, antibodies-online, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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     inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for ZBED6
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     Search LSBio for Antibodies for ZBED6
     Browse compounds at ApexBio
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      Search antibodies-online for antibodies for ZBED6
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    GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014 , 21 Aug 2014 , 8 Sep 2014 , 7 Oct 2014

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