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

ZBED5 Gene

protein-coding   GIFtS: 43
GCID: GC11M010840

Zinc Finger, BED-Type Containing 5

  Search for ZBED5
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 51 2
Transposon-Derived Buster1 Transposase-Like Protein2 3
Buster12 3
Zinc Finger BED Domain-Containing Protein 52

External Ids:    HGNC: 308031   Entrez Gene: 584862   Ensembl: ENSG000002362877   OMIM: 6152515   UniProtKB: Q49AG33   

Export aliases for ZBED5 gene to outside databases

Previous GC identifers: GC11M010831 GC11M010547 GC11M010835


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

Entrez Gene summary for ZBED5 Gene:
This gene is unusual in that its coding sequence is mostly derived from Charlie-like DNA transposon; however, it
does not appear to be an active DNA transposon as it is not flanked by terminal inverted repeats. The encoded
protein is conserved among the mammalian Laurasiatheria branch. Multiple alternatively spliced variants, encoding
the same protein, have been identified. (provided by RefSeq, Jan 2009)

GeneCards Summary for ZBED5 Gene: 
ZBED5 (zinc finger, BED-type containing 5) is a protein-coding gene. GO annotations related to this gene include DNA binding and metal ion binding. An important paralog of this gene is KRBA2.




(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_000011.9  NT_009237.18  NC_018922.2  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the ZBED5 gene promoter:
         Pax-5   Pax-6   NRSF form 1   NRSF form 2   Arnt   YY1   HEN1   NF-Y   CBF(2)   En-1   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for ZBED5

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat ZBED5


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

Entrez Gene cytogenetic band: 11p15.3   Ensembl cytogenetic band:  11p15.3   HGNC cytogenetic band: 11p15.3

ZBED5 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ZBED5 gene location

GeneLoc information about chromosome 11         GeneLoc Exon Structure

GeneLoc location for GC11M010840:  view genomic region     (about GC identifiers)

Start:
10,833,621 bp from pter      End:
10,880,343 bp from pter
Size:
46,723 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: ZBED5_HUMAN, Q49AG3 (See protein sequence)
Recommended Name: Zinc finger BED domain-containing protein 5  
Size: 693 amino acids; 78911 Da
Miscellaneous: May be derived from an ancient transposon that has lost its ability to translocate
Sequence caution: Sequence=AAH17803.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential
poly-A sequence; Sequence=AAH47754.1; Type=Frameshift; Positions=495;
Secondary accessions: B2RCC1 Q05D82 Q86WW3 Q9NT24 Q9UBJ4

Explore the universe of human proteins at neXtProt for ZBED5: NX_Q49AG3

Explore proteomics data for ZBED5 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q49AG3

  • ZBED5 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    ZBED5 Protein Expression
    REFSEQ proteins (2 alternative transcripts): 
    NP_001137139.1  NP_067034.2  

    ENSEMBL proteins: 
     ENSP00000398106   ENSP00000415939   ENSP00000433093   ENSP00000435663   ENSP00000435491  
     ENSP00000432764  

    Human Recombinant Protein Products for ZBED5: 
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    Cloud-Clone Corp. CLIAs for ZBED5


    (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

    2 InterPro protein domains:
     IPR012337 RNaseH-like_dom
     IPR003656 Znf_BED_prd

    Graphical View of Domain Structure for InterPro Entry Q49AG3

    ProtoNet protein and cluster: Q49AG3

    UniProtKB/Swiss-Prot: ZBED5_HUMAN, Q49AG3
    Similarity: Contains 1 BED-type zinc finger


    ZBED5 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

         Gene Ontology (GO): 3 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--
         
    ZBED5 for ontologies           About GeneDecksing


    Animal Models:
       inGenious Targeting Laboratory - Custom generated mouse model solutions for ZBED5 
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       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for ZBED5 
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for ZBED5


    (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 ZBED5

    STRING Interaction Network Preview (showing 1 interactants - click image to see more details)

    1 Interacting protein for ZBED5 (Q49AG32, 3 ENSP000003981064) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    SMAD4Q134852, 3, ENSP000003415514MINT-61977 I2D: score=3 STRING: ENSP00000341551
    About this table

    (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 ZBED5

    Search CenterWatch for drugs/clinical trials and news about ZBED5

    (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 ZBED5 gene (2 alternative transcripts): 
    NM_001143667.1  NM_021211.3  

    Unigene Cluster for ZBED5:

    Zinc finger, BED-type containing 5
    Hs.655066  [show with all ESTs]
    Unigene Representative Sequence: AK022942
    10 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000525350(uc001mjg.1) ENST00000533903(uc021qdt.1) ENST00000533925
    ENST00000432999(uc009ygg.3 uc001mji.4 uc009ygh.3) ENST00000413761
    ENST00000526020(uc001mjk.4) ENST00000526852 ENST00000534690 ENST00000528289
    ENST00000530570
    miRNA
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    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat ZBED5
    2 QIAGEN miScript miRNA Assays for microRNAs that regulate ZBED5:
    hsa-miR-659 hsa-miR-143
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
    Products:
         
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene RNAi products in human, mouse, rat for ZBED5
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat ZBED5
    Clone
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    OriGene ORF clones in mouse, rat for ZBED5
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    GenScript: all cDNA clones in your preferred vector (see all 2): ZBED5 (NM_021211)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for ZBED5
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat ZBED5
    Sirion Biotech Customized lentivirus for stable overexpression of ZBED5 
                         Customized lentivirus expression plasmids for stable overexpression of ZBED5 
    Primer
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat ZBED5
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat ZBED5

    Additional mRNA sequence: 

    AF205600.1 AK022942.1 AK025407.1 AK025829.1 AK123233.1 AK315033.1 AL137577.1 BC017803.1 
    BC047754.1 

    22 DOTS entries:

    DT.100781064  DT.209462  DT.448575  DT.430493  DT.99987965  DT.120741323  DT.91953605  DT.99998532 
    DT.100767113  DT.120741222  DT.95233961  DT.100781058  DT.120741229  DT.120741417  DT.97806790  DT.100031861 
    DT.100781060  DT.120741314  DT.95374262  DT.120741214  DT.120741265  DT.99983963 

    24/233 AceView cDNA sequences (see all 233):

    BU676581 NM_021211 CD299972 AA016001 BI823816 AA320263 BQ929793 AA935780 
    BC038508 BM509881 AA296734 BU687379 BM997015 BP360212 AK025829 BM127100 
    BU508510 BM769395 BQ014462 H05866 BC047754 AI473859 AA630256 BE908203 

    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

    ZBED5 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: ATAACCAAAT
    ZBED5 Expression
    About this image


    See ZBED5 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for ZBED5

    SOURCE GeneReport for Unigene cluster: Hs.655066
        SABiosciences Custom PCR Arrays for ZBED5
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for ZBED5

    (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 ZBED5 gene from 3/8 species (see all 8)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia 2410018M08Rik1 , 5 RIKEN cDNA 2410018M08 gene1, 5 47.05(n)1
    37.48(a)1
      5 (68.26 cM)5
    719701  NM_183088.21  NP_898911.21 
     1298957235 
    lizard
    (Anolis carolinensis)
    Reptilia ZBED56
    Uncharacterized protein
    43(a)
    1 ↔ 1
    5(96860632-96861757)
    zebrafish
    (Danio rerio)
    Actinopterygii ZBED56
    zinc finger, BED-type containing 5
    35(a)
    1 ↔ 1
    4(30085795-30087386)


    ENSEMBL Gene Tree for ZBED5 (if available)
    TreeFam Gene Tree for ZBED5 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for ZBED5 gene
    KRBA22  C5orf542  SCAND32  GTF2IRD22  FAM200A2  FAM200B2  EPM2AIP12  GTF2IRD2B2  
    4 SIMAP similar genes for ZBED5 using alignment to 5 protein entries:     ZBED5_HUMAN (see all proteins):
    ZMYM6    SCAND3    FAM200A    FAM200B

    ZBED5 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

    10/82 SNPs in ZBED5 are shown (see all 82)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 11 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs616909401,2
    C,F--10873826(+) ACTCAA/GTAAGA 2 -- int12Minor allele frequency- G:0.32WA 120
    rs1381353811,2
    --10873840(+) TCTAAA/GAGCTT 2 -- int10--------
    rs615577951,2
    C--10873863(+) TGGGA-/ACCGTG 2 -- int10--------
    rs571388561,2
    C--10873866(+) GGAAC-/CGTGAGA 2 -- int10--------
    rs567876541,2
    C--10873869(+) ACCGT-/GAGA  
            
    CCATC
    2 -- int10--------
    rs108405011,2
    C,F,A,H--10873935(+) CATCAA/GAATAG 2 -- int128Minor allele frequency- G:0.33NS EA NA WA 2900
    rs1929783601,2
    --10873983(+) GTTGAA/GGCAAA 2 -- int10--------
    rs770932321,2
    F--10873989(+) GCAAAT/CAGGAG 2 -- int11Minor allele frequency- C:0.01NA 120
    rs1851282481,2
    --10874345(+) GAGATA/GAAGTA 2 -- ut310--------
    rs22329291,2
    C,F,H--10874540(-) TATTAC/TGCTGC 4 Y syn14Minor allele frequency- T:0.00NS EA 418

    HapMap Linkage Disequilibrium report for ZBED5 (10833621 - 10880343 bp)

    Structural Variations
          Database of Genomic Variants (DGV) variations for ZBED5: --
    SABiosciences Cancer Mutation PCR Assays
    SeqTarget long-range PCR primers for resequencing ZBED5
    DNA2.0 Custom Variant and Variant Library Synthesis for ZBED5

    (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

    ZBED5 for disorders           About MalaCards
    OMIM gene information: 615251    OMIM disorders: --


    ZBED5 for disorders           About GeneDecksing

    Genetic Association Database (GAD): ZBED5
    Human Genome Epidemiology (HuGE) Navigator: ZBED5 (2 documents)

    Export disorders for ZBED5 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 ZBED5 gene, integrated from 9 sources (see all 14):
    (articles sorted by number of sources associating them with ZBED5)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Interspersed repeats and other mementos of transposable elements in mammalian genomes. (PubMed id 10607616)1, 2, 3 Smit A.F.A. (1999)
    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. 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)
    4. Genetic variants in nuclear-encoded mitochondrial gen es influence AIDS progression. (PubMed id 20877624)1, 4 Hendrickson S.L....O'Brien S.J. (2010)
    5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    6. A genome-wide association search for type 2 diabetes g enes in African Americans. (PubMed id 22238593)4 Palmer N.D....Sladek R. (2012)
    7. Framingham Heart Study 100K Project: genome-wide associations for blood pressure and arterial stiffness. (PubMed id 17903302)4 Levy D....Mitchell G.F. (2007)
    8. Framingham Heart Study genome-wide association: results for pulmonary function measures. (PubMed id 17903307)4 Wilk J.B....O'Connor G.T. (2007)
    9. The full-ORF clone resource of the German cDNA consortium. (PubMed id 17974005)2 Bechtel S.... Schupp I. (2007)
    10. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (2006)

    (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: 58486 HGNC: 30803 AceView: LOC58486 Ensembl:ENSG00000236287 euGenes: HUgn58486
    ECgene: ZBED5 H-InvDB: ZBED5

    (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 ZBED5 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 ZBED5 gene:
    Search GeneIP for patents involving ZBED5

    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
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
    About This Section

     
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     Proteins for ZBED5
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     inGenious Targeting Laboratory - Custom generated mouse model solutions for ZBED5
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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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