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

ZBED2 Gene

protein-coding   GIFtS: 40
GCID: GC03M111311

zinc finger, BED-type containing 2
  Search for ZBED2
in
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 Human Malady Compendium 
Biological research products
for ZBED2    

Aliases
for ZBED2 gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section
Aliases
Zinc Finger, BED-Type Containing 21 2
MGC107961
Zinc Finger BED Domain-Containing Protein 22
Zinc Finger, BED Domain Containing 22

External Ids:    HGNC: 207101   Entrez Gene: 794132   Ensembl: ENSG000001774947   UniProtKB: Q9BTP63   

Export aliases for ZBED2 gene to outside databases

Previous GC identifers: GC03M110882 GC03M112593 GC03M112632 GC03M112794 GC03M108686


Summaries
for ZBED2 gene

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

Genomic Views
for ZBED2 gene

(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 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000003.11  NC_018914.1  NT_005612.16  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the ZBED2 gene promoter:
         c-Fos   AP-1   Fra-1   FosB   NF-AT   S8   NF-AT4   NF-AT2   NF-AT3   NF-AT1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmid: ZBED2 promoter sequence
   Search SABiosciences Chromatin IP Primers for ZBED2

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat ZBED2


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

Entrez Gene cytogenetic band: 3q13.2   Ensembl cytogenetic band:  3q13.2   HGNC cytogenetic band: 3p13-q13.2

ZBED2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ZBED2 gene location

GeneLoc information about chromosome 3         GeneLoc Exon Structure

GeneLoc location for GC03M111311:  view genomic region     (about GC identifiers)

Start:
 111,311,747 bp from pter      End:
 111,314,290 bp from pter
Size:
 2,544 bases      Orientation:
 minus strand

Proteins
for ZBED2 gene

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, 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 Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section
UniProtKB/Swiss-Prot: ZBED2_HUMAN, Q9BTP6 (See protein sequence)
Recommended Name: Zinc finger BED domain-containing protein 2  
Size: 218 amino acids; 25122 Da
Sequence caution: Sequence=AAH03536.1; Type=Erroneous initiation; Sequence=AAH71956.1; Type=Erroneous initiation;
1 PDB 3D structure from and Proteopedia for ZBED2:
2DJR (3D)    
Secondary accessions: D3DN62

Explore the universe of human proteins at neXtProt for ZBED2: NX_Q9BTP6

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q9BTP6

    • ZBED2 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_078784.2  
    ENSEMBL proteins: 
     ENSP00000321370  

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    Protein Domains /
    Families
    for ZBED2 gene

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    ZBED2 for domains           About GeneDecksing

    1 InterPro domain/family:
     IPR003656 Znf_BED_prd

    Graphical View of Domain Structure for InterPro Entry Q9BTP6

    ProtoNet protein and cluster: Q9BTP6

    1 Blocks protein family: IPB000515 Binding-protein-dependent transport systems inner membrane component

    UniProtKB/Swiss-Prot: ZBED2_HUMAN, Q9BTP6
    Similarity: Contains 1 BED-type zinc finger


    Function
    for ZBED2 gene

    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    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, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section
    miRNA
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    Gene Ontology (GO): 2 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003677DNA binding IEA--
    GO:0046872metal ion binding IEA--


    ZBED2 for ontologies           About GeneDecksing



    Pathways & Interactions
    for ZBED2 gene

    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, 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 Mar 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for ZBED2

    STRING Interaction Network Preview (showing 3 interactants - click image to see more details)

    3 Interacting proteins for ZBED2 (ENSP000003213704) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    NXF1ENSP000002941724STRING: ENSP00000294172
    POT1ENSP000003502494STRING: ENSP00000350249
    UBCENSP000003448184STRING: ENSP00000344818
    About this table

    Drugs & Compounds
    for ZBED2 gene

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, 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 ZBED2
    Search CenterWatch for drugs/clinical trials and news about ZBED2 

    Transcripts
    for ZBED2 gene

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 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,
    RNAi Products from EMD Millipore,
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    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section
    REFSEQ mRNAs for ZBED2 gene: 
    NM_024508.4  

    Unigene Cluster for ZBED2:

    Zinc finger, BED-type containing 2
    Hs.136912  [show with all ESTs]
    Unigene Representative Sequence: NM_024508
    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000317012(uc003dxy.3)

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    Inhib. RNA
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    Additional cDNA sequence: 

    BC003536.1 BC071956.1 

    1 DOTS entry:

    DT.434233 

    24/28 AceView cDNA sequences (see all 28):

    AW575079 BQ878850 AA810929 NM_024508 BC003536 AI813590 BM990943 CA440278 
    BC071956 BG232007 AA923758 AW575241 AW104256 D78844 AA830718 AI582219 
    AW402886 BE746513 BM847001 BE898283 AW402327 BE740032 CN479204 CD632045 

    GeneLoc Exon Structure


    Expression
    for ZBED2 gene

    (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

    ZBED2 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: TACTGGTGGA

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)
    About this image

    ZBED2 expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    Stem Cell Differentiation: 1 LifeMap Cell 
    NameCategory
    PureStem™ epithelial progenitor E164 (Embryonic Progenitor Cell)Intermediate Mesoderm, Kidney
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization

    See ZBED2 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for ZBED2

    SOURCE GeneReport for Unigene cluster: Hs.136912
        SABiosciences Custom PCR Arrays for ZBED2
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    QIAGEN QuantiFast Probe-based Assays in human, mouse, rat ZBED2
    In Situ
    Assay Products:     
         		Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for ZBED2

    Orthologs
    for ZBED2 gene

    (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
    		   --

    ENSEMBL Gene Tree for ZBED2 (if available)
    TreeFam Gene Tree for ZBED2 (if available) 

    Paralogs
    for ZBED2 gene

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for ZBED2 gene
    ZBED32  
    1 SIMAP similar gene for ZBED2 using alignment to 1 protein entry:     ZBED2_HUMAN:
    ZBED3

    ZBED2 for paralogs           About GeneDecksing



    Genomic Variants
    for ZBED2 gene

    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, 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
    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing ZBED2
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    Disorders / Diseases
    for ZBED2 gene

    (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.)
    About This Section
    		   --

    Publications
    for ZBED2 gene

    (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 ZBED2 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with ZBED2)    		    Utopia: connect your pdf to the dynamic
    world of online information

    1. 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)
    2. Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
    3. The DNA sequence, annotation and analysis of human chromosome 3. (PubMed id 16641997)2 Muzny D.M....Gibbs R.A. (2006)
    4. Transcriptome analysis of human gastric cancer. (PubMed id 16341674)1 Oh J.H....Kim N.S. (2005)
    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)

    External Searches for ZBED2 gene

    (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)

    Genome Databases showing ZBED2 gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 79413 HGNC: 20710 AceView: ZBED2 Ensembl:ENSG00000177494 euGenes: HUgn79413
    ECgene: ZBED2 H-InvDB: ZBED2

    Other Databases showing ZBED2 gene

    (According to HUGE)
    About This Section
    		   --

    Specialized Databases showing ZBED2 gene

    (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 ZBED2 Pharmacogenomics, SNPs, Pathways

    Intellectual Property
    for ZBED2 gene

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    		Patent Information for ZBED2 gene:
    Search GeneIP for patents involving ZBED2

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



    Products
    for ZBED2 gene

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    About This Section

     
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     SwitchGear Promoter luciferase reporter plasmids for ZBED2
     ThermoFisher Antibodies for ZBED2
     Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat ZBED2
           
    GeneCards Homepage - Last full update: 19 Mar 2013 - Incrementals: 21 Mar 2013 , 15 Apr 2013 , 26 Apr 2013

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    VWF
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    von Willebrand factor
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