A Database of Drosophila Genes & Genomes

FB2008_07, released August 8, 2008
 

Gene Dmel\MBD-like

General Information
SymbolDmel\MBD-likeSpeciesD. melanogaster
NameMBD-likeAnnotation symbolCG8208
Feature typeprotein_coding_geneFlyBase IDFBgn0027950
Created / Updated2003-12-01/2003-12-01
Genomic Location
Chromosome (arm)3RRecombination map
Cytogenetic map85D24-85D24Sequence location3R:5,385,487..5,387,255 [+]
Map ( GBrowse ) detailed view
hide Summary Information
Automatically generated summary

See sections below for more information
This gene is referred to in FlyBase by the symbol MBD-like (CG8208, FBgn0027950). It has the cytological map location 85D24. Its sequence location is 3R:5385487..5387255. Its molecular function is described as: methyl-CpG binding; histone deacetylase binding; transcription regulator activity. It is involved in the biological processes: multicellular organismal development; negative regulation of transcription, DNA-dependent. 9 alleles are reported. The phenotype of these alleles is annotated with embryonic heart. It has 2 annotated transcripts and 2 annotated polypeptides.

External Summaries

hide Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map
Evidence for location
85D24-85D24  
Limits computationally determined from genome sequence between P{PZ}ps10615&P{PZ}Ras85D06677 and P{EP}CG9393EP3122  
Experimentally Determined Cytological Location
Cytogenetic map
Notes
References
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Molecular Map Data
Gene Order (in direction of increasing cytology)
References
Gene Order (overall orientation not stated)
References
hide Gene Model & Products
Please see the GBrowse view of Dmel\MBD-like for information on other features
detailed view FBtr0082067 FBtr0082114 FBtr0082069 FBtr0082068 FBtr0082113 FBpp0081592 FBpp0081547 FBpp0081546 FBpp0081591 FBti0011576 FBti0007917 FBti0027327
Comments on Gene Model
hide Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Associated CDS (aa)
MBD-like-RA
FBtr0082069
 NM_169293
  1217
  339
MBD-like-RB
FBtr0082068
 NM_141650
  878
  226
Additional Transcript Data & Comments
Reported size (kB)
1.2, 1 (northern blot)
(Marhold et al., 2002)
Comments
External Data
Crossreferences
hide Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kD)
Length (aa)
Theoretical pI
RefSeq ID
GenBank protein
MBD-like-PA  
FBpp0081547  
36.3  
339  
10.57  
  NP_731370
  AAF54400
MBD-like-PB  
FBpp0081546  
25.3  
226  
10.44  
  NP_649907
  AAF54401
Additional Polypeptide Data & Comments
Reported size (kD)
30, 25 (kD)
(Marhold et al., 2002)
Comments
External Data
Linkouts
PANTHER - Protein classification by function, families, and pathways
•
Crossreferences
InterPro domains - A database of protein families, domains, and functional sites
•
Methyl-CpG DNA binding (IPR001739)
DNA-binding, integrase-type (IPR016177)
hide Sequences Consistent with the Gene Model
DDBJ /
EMBL /
GenBank
DNA sequence
Protein sequence
Name
AA201537
 
AA201860
 
AA695826
 
AA940742
 
AE003683
AAF54400
 
AE003683
AAF54401
 
AF171098
AAD55391
 
AI515113
 
AW942658
 
BI213040
 
BI578865
 
BI578917
 
BI628686
 
BQ103469
 
BT001485
AAN71240
 
CO177374
 
CO182516
 
CO182520
 
CO188942
 
CO267376
 
CO304004
 
CO311912
 
CO342964
 
EC063860
 
EC069343
 
EC076404
 
EC199138
 
EC202432
 
EC220592
 
EC235197
 
EC259512
 
 
UniProtKB/Swiss-Prot
    UniProtKB/TrEMBL
    Maps to
    Does NOT map to
    Identified with
    (Tweedie et al., 1999)
    (Roder et al., 2000, Ballestar et al., 2001)
    (BDGP Project Members, 2000-)
    (Roder et al., 2000)
    hide Mapped Features & Mutations
    Please see GBrowse or insertion reports for information on insertions of transgenic constructs and features not listed here
    Type
    Symbol & Location
    Additional Notes
    References
    hide External Data
    Linkouts
    DEDB - Drosophila exon database: splicing graphs
    •
    Crossreferences
    hide Expression Data
    FlyBase-Curated Data
    Transcript and
    Protein data     		Please see the FlyBase Gene Expression Report for details of gene expression from the literature.
    hide Summary of Transcript Expression
    Stage
    Tissue/Position
    Reference
     adult stage
     testis
    (Marhold et al., 2002)
     adult stage
     ovary
    (Marhold et al., 2002)
     adult stage
     testis
    (Marhold et al., 2002)
    Marker for
      Subcellular Localization
      CV Term
      hide Summary of Polypeptide Expression
      Stage
      Tissue/Position
      Reference
       adult stage
       spermatogonium
      (Marhold et al., 2002)
       adult stage
       primary gonial cell
      (Marhold et al., 2002)
       embryonic stage | cellular blastoderm
       
      (Marhold et al., 2002)
       embryonic stage | 6-20 hr
       
      (Marhold et al., 2002)
       embryonic stage | 0-12 hr
       
      (Marhold et al., 2002)
       adult stage
       spermatocyte
      (Marhold et al., 2002)
       embryonic stage | =< syncytial blastoderm
       
      (Marhold et al., 2002)
      Marker for
        Subcellular Localization
        CV Term
        hide Microarray Data
        Developmental timecourse, Costello et al., 2008 (Original data from Arbeitman et al., 2002)
        Untitled Document detailed view FBtr0082067 FBtr0082114 FBtr0082069 FBtr0082068 FBtr0082113
        AA940742
        hide External Data & Images
        Linkouts
        FLIGHT - Cell culture data for RNAi and other high-throughput technologies
        •
        GEO (NCBI) - Gene expression data: microarray and other high-throughput technologies
        •
        hide Alleles & Phenotypes
        hide Summary of Allele Phenotypes
        Lethality
        Allele
        viable
        Other Phenotypes
        Allele
        small body | embryonic stage
        suppressor of variegation | dominant, with In(1)wm4h
        suppressor of variegation, with In(1)wm4h, Scer\GAL4[-]:
        Sterility
        Allele
        fertile
        Phenotype manifest in
        Allele
        mitotic anaphase & nuclear chromosome
        embryonic heart
        hide Classical Alleles ( 2 )
        For All Classical Alleles Show

        Allele of MBD-likeClassMutagenStocksKnown lesion
        MBD-likeEP1112
          		1 Yes
          MBD-likeEY045821 Yes
          hide Alleles Carried on Transgenic Constructs ( 7 )
          For All Alleles Carried on Transgenic Constructs Show

          Allele of MBD-likeClassMutagenStocksKnown lesion
          MBD-likeAct5C.T:Ivir\HA10 Yes
          MBD-likeAct5C.T:Scer\GAL40 Yes
          MBD-likeGD13062 Yes
          MBD-likeT:Scer\GAL40 Yes
          MBD-likedsRNA.cKa0 Yes
          MBD-likedsRNA.si.cKa0 Yes
          MBD-likeΔ.Act5C.T:Scer\GAL40 Yes
          hide Aneuploid Aberrations
          Useful deficiency
           
          Useful duplication
           
          Disrupted in
          (Ryder, 2004.4.26)
          (Ryder, 2004.4.26)
          hide Transgenic Constructs & Insertions
          Transgenic Constructs
          Type of construct
          Name
          Expression data
          UAS construct
          P{GD1306}
          NA
          Insertions
          Type of insertions
          Name
          Expression data
          insertion of mobile activating element
          P{EPgy2}MBD-likeEY04582
          NA
          P{EP}AP-47EP1112
          NA
          hide Related Comments
          Please look at the allele reports for the complete phenotype data
          hide Gene Ontology: Function, Process & Cellular Component ( 8 )
          hide Molecular Function
          CV term
          Evidence
          References
          histone deacetylase binding
          inferred from physical interaction with FLYBASE:Rpd3; FB:FBgn0015805
          (Tweedie et al., 1999)
          inferred from physical interaction with FLYBASE:Rpd3; FB:FBgn0015805
          (Ballestar et al., 2001)
          NOT
          methyl-CpG binding
          inferred from direct assay
          (Tweedie et al., 1999)
          inferred from direct assay
          (Ballestar et al., 2001)
          traceable author statement
          (Hendrich and Tweedie, 2003)
          methyl-CpG binding
          inferred from direct assay
          (Roder et al., 2000)
          transcription regulator activity
          inferred from direct assay
          (Roder et al., 2000)
          hide Biological Process
          CV term
          Evidence
          References
          multicellular organismal development
          traceable author statement
          (Roder et al., 2000)
          negative regulation of transcription, DNA-dependent
          inferred from direct assay
          (Roder et al., 2000)
          inferred from direct assay
          (Ballestar et al., 2001)
          hide Cellular Component
          CV term
          Evidence
          References
          NuRD complex
          inferred from physical interaction with FLYBASE:Mi-2; FB:FBgn0013591 AND inferred from physical interaction with FLYBASE:Rpd3; FB:FBgn0015805
          (Ballestar et al., 2001)
          nucleus
          inferred from physical interaction with FLYBASE:Mi-2; FB:FBgn0013591 AND inferred from physical interaction with FLYBASE:Rpd3; FB:FBgn0015805
          (Tweedie et al., 1999)
          polytene chromosome
          inferred from direct assay
          (Ballestar et al., 2001)
          hide Sequence Ontology: Class of Gene
          protein_coding_gene
           
          nuclear_gene
           
          hide Interactions & Pathways
          hide Summary of Genetic Interactions
          Interacts with
          Please look at the allele data for full details of the genetic interactions
          MBD-like allele
          Gene
          References
          MBD-likeEY04582
          Mi-2
          (Marhold et al., 2004)
          hide External Data
          Linkouts
          BioGRID - Interaction data, including yeast 2-hybrid and genetic interactions
          •
          hide Orthologs
          Genome-wide drosophilid orthologs
          Curated drosophilid orthologs
           
          (Swanson et al., 2001)
           
          Linkouts
          InParanoid orthologs - Eukaryotic orthologs
          •
          hide Functional Complementation between Species
          hide Inter-Species Misexpression Data
          Produces phenotype in
          Produces NO phenotype in
          hide Stocks & Reagents
          hide Stocks Listed in FlyBase ( 5 )
          Szeged
          -
          P{EP}AP-47EP1112
          VDRC
          v9260
          w1118; P{GD1306}v9260
          v9261
          w1118; P{GD1306}v9261
          Bloomington
          15753
          y1 w67c23; P{EPgy2}MBD-likeEY04582
          16987
          w1118; P{EP}AP-47EP1112 MBD-likeEP1112/TM6B, Tb1
          hide Genomic Clones ( 1 )
          hide cDNA Clones ( 18 )
          Please Note
          This section lists cDNAs and ESTs that fall within the genomic extent of the gene model, which may include cDNAs and ESTs of genes within introns, or of overlapping genes. Please see GBrowse for alignment of the cDNAs and ESTs to the gene model.
          cDNA Clones, Fully Sequenced
          BDGP DGC clones
          Other clones
          cDNA Clones, End Sequenced (ESTs)
          BDGP DGC clones
          Other clones
          hide RNAi & Array Information
          Affy Oligo
          Linkouts
          DRSC - RNAi screening (Harvard): high-throughput cell culture data and design
          •
          GenomeRNAi - RNAi phenotypes (Heidelberg): high-throughput cell culture data
          •
          hide Antibody Information
          hide Other Information
          hide Discoverer
          hide Etymology
          hide Identification
          hide Position Effect Variegation Data
          hide Relationship to Other Genes
          Source for database identity of
          Source for identity of: methyl-CpG-binding-domain-like-protein MBD2-3
          (FlyBase, 1996-)
          Source for database merge of
          Additional comments
          hide Comments About Role
          hide Comments About Molecular Function
          Shows particularly robust cycling of transcription in adult heads, as assessed by expression analysis using high density oligonucleotide arrays with probe generated during three 12-point time course experiments over the course of 6 days.
          (Claridge-Chang et al., 2001)
          hide Other Comments
          hide External Crossreferences & Linkouts
          Sequence Crossreferences
          RefSeq (Transcripts)
          •
          RefSeq (Proteins)
          •
          DDBJ / EMBL / GenBank
          •
          UniProtKB/TrEMBL
          •
          Other Crossreferences
          InterPro domains - A database of protein families, domains, and functional sites
          •
          Methyl-CpG DNA binding (IPR001739)
          DNA-binding, integrase-type (IPR016177)
          Linkouts
          BioGRID - Interaction data, including yeast 2-hybrid and genetic interactions
          •
          DEDB - Drosophila exon database: splicing graphs
          •
          DRSC - RNAi screening (Harvard): high-throughput cell culture data and design
          •
          FLIGHT - Cell culture data for RNAi and other high-throughput technologies
          •
          FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans
          •
          GEO (NCBI) - Gene expression data: microarray and other high-throughput technologies
          •
          GenomeRNAi - RNAi phenotypes (Heidelberg): high-throughput cell culture data
          •
          InParanoid orthologs - Eukaryotic orthologs
          •
          Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution
          •
          PANTHER - Protein classification by function, families, and pathways
          •
          hide Synonyms & Secondary IDs ( 10 )
          Reported As
          Symbol Synonym
          CG8208
          (Kim et al., 2004, Claridge-Chang et al., 2001, )
          dMbD2/3
          (Eberharter and Becker, 2004)
          dMBD2/3
          (Marhold et al., 2002, Zbylut et al., 2001, Lyko, 2001, Barlow et al., 2001, Roder et al., 2000, Tweedie et al., 1999)
          dMBD-like
          (Ballestar et al., 2001)
          Dm Mbd2/3
          (Hendrich and Tweedie, 2003)
          DmMbd2/3
          (Hendrich and Tweedie, 2003)
          MBD2-3
           
          MBD2/3
          (Marhold et al., 2004, Lyko et al., 2004, Rasheva et al., 2003, Lyko, 2002, )
          MBD-like
           
          Name Synonym
          MBD-like
           
          methyl-CpG-binding-domain-like-protein
           
          Secondary FlyBase IDs
          • FBgn0029156
          hide References ( 22 )
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