A Database of Drosophila Genes & Genomes

FB2008_07, released August 8, 2008
 

Gene Dmel\NC2β

General Information
SymbolDmel\NC2βSpeciesD. melanogaster
NameNC2βAnnotation symbolCG4185
Feature typeprotein_coding_geneFlyBase IDFBgn0028926
Created / Updated2003-12-01/2003-12-01
Genomic Location
Chromosome (arm)2LRecombination map
Cytogenetic map35B8-35B8Sequence location2L:15,007,819..15,008,538 [+]
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 NC2β (CG4185, FBgn0028926). It has the cytological map location 35B8. Its sequence location is 2L:15007819..15008538. Its molecular function is described as: general transcriptional repressor activity; RNA polymerase II transcription factor activity; protein binding; transcription activator activity; transcription repressor activity; sequence-specific DNA binding. It is involved in the biological processes: negative regulation of transcription from RNA polymerase II promoter; positive regulation of transcription from RNA polymerase II promoter; negative regulation of transcriptional preinitiation complex assembly. One allele is reported. No phenotypic data is available. It has one annotated transcript and one annotated polypeptide.
hide Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map
Evidence for location
35B8-35B8  
Limits computationally determined from genome sequence between P{EP}elBEP2039&P{PZ}osprJ571 and P{lacW}Su(H)k07904  
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
In direction of increasing cytology: CG4140- NC2β+ CG4103-
(Ashburner et al., 1999)
Gene Order (overall orientation not stated)
References
hide Gene Model & Products
Please see the GBrowse view of Dmel\NC2β for information on other features
detailed view FBtr0080694 FBtr0080693 FBtr0080728 FBtr0080695 FBtr0080727 FBtr0080696 FBpp0089266 FBpp0080255 FBpp0080287 FBpp0080256 FBpp0080286 FBpp0080257 FBti0068208 FBti0025063 FBti0039651 FBti0038809 FBti0004833 FBti0026246
Comments on Gene Model
hide Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Associated CDS (aa)
NC2beta-RA
FBtr0080695
 NM_135892
  720
  183
Additional Transcript Data & Comments
Reported size (kB)
Comments
External Data
Crossreferences
hide Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kD)
Length (aa)
Theoretical pI
RefSeq ID
GenBank protein
NC2beta-PA  
FBpp0080256  
20.9  
183  
4.31  
  NP_609736
  AAF53428
Additional Polypeptide Data & Comments
Reported size (kD)
Comments
External Data
Linkouts
PANTHER - Protein classification by function, families, and pathways
•
Crossreferences
InterPro domains - A database of protein families, domains, and functional sites
•
Transcription factor CBF/NF-Y/archaeal histone (IPR003958)
Histone-fold (IPR009072)
hide Sequences Consistent with the Gene Model
DDBJ /
EMBL /
GenBank
DNA sequence
Protein sequence
Name
AE003411
AAF44907
 
AE003646
AAF53428
 
AF302257
AAG15388
 
AI293010
 
AW940610
 
AY060717
AAL28265
 
BI240193
 
BI580927
 
CO155284
 
DQ138728
ABA86334
 
EC262907
 
EL880218
 
EL880404
 
 
UniProtKB/Swiss-Prot
    UniProtKB/TrEMBL
    Maps to
    (Ashburner et al., 1999.10.12)
    Does NOT map to
    Identified with
    (BDGP Project Members, 2000-, Willy, 2000.8.31)
    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
    Marker for
      Subcellular Localization
      CV Term
      hide Summary of Polypeptide Expression
      Stage
      Tissue/Position
      Reference
      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 FBtr0080694 FBtr0080693 FBtr0080728 FBtr0080695 FBtr0080727 FBtr0080696
        AI293010
        hide External Data & Images
        Linkouts
        FLIGHT - Cell culture data for RNAi and other high-throughput technologies
        •
        FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
        •
        GEO (NCBI) - Gene expression data: microarray and other high-throughput technologies
        •
        hide Alleles & Phenotypes
        hide Summary of Allele Phenotypes
        Phenotype manifest in
        Allele
        hide Classical Alleles ( 0 )
        For All Classical Alleles Show

        Allele of NC2βClassMutagenStocksKnown lesion
        hide Alleles Carried on Transgenic Constructs ( 1 )
        For All Alleles Carried on Transgenic Constructs Show

        Allele of NC2βClassMutagenStocksKnown lesion
        NC2βGD15901 Yes
        hide Aneuploid Aberrations
        Useful deficiency
         
        Useful duplication
         
        Disrupted in
        (Ryder, 2004.4.26)
        hide Transgenic Constructs & Insertions
        Transgenic Constructs
        Type of construct
        Name
        Expression data
        Insertions
        Type of insertions
        Name
        Expression data
        hide Related Comments
        Please look at the allele reports for the complete phenotype data
        hide Gene Ontology: Function, Process & Cellular Component ( 11 )
        hide Molecular Function
        CV term
        Evidence
        References
        RNA polymerase II transcription factor activity
        inferred from direct assay
        (Willy et al., 2000)
        general transcriptional repressor activity
        non-traceable author statement
        (Willy, 2000.8.31)
        non-traceable author statement
        (FlyBase, 1992-)
        protein binding
        inferred from physical interaction with FLYBASE:NC2α; FB:FBgn0034650
        (Willy et al., 2000)
        sequence-specific DNA binding
        inferred from electronic annotation with InterPro:IPR003958
        (FlyBase Curators et al., 2004-)
        transcription activator activity
        inferred from direct assay
        (Willy et al., 2000)
        transcription repressor activity
        inferred from direct assay
        (Willy et al., 2000)
        hide Biological Process
        CV term
        Evidence
        References
        negative regulation of transcription from RNA polymerase II promoter
        inferred from direct assay
        (Willy et al., 2000)
        negative regulation of transcriptional preinitiation complex assembly
        non-traceable author statement
        (FlyBase, 1992-)
        positive regulation of transcription from RNA polymerase II promoter
        inferred from direct assay
        (Willy et al., 2000)
        hide Cellular Component
        CV term
        Evidence
        References
        negative cofactor 2 complex
        non-traceable author statement
        (FlyBase, 1992-)
        nucleus
        inferred from direct assay
        (Willy et al., 2000)
        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
        NC2β allele
        Gene
        References
        hide External Data
        Linkouts
        BioGRID - Interaction data, including yeast 2-hybrid and genetic interactions
        •
        hide Orthologs
        Genome-wide drosophilid orthologs
        Curated drosophilid orthologs
        (Comeron and Guthrie, 2005.7.21)
         
        (Comeron and Guthrie, 2005.7.21)
        (Comeron and Guthrie, 2005.7.21)
        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 ( 1 )
        VDRC
        v3161
        w1118; P{GD1590}v3161
        hide Genomic Clones ( 1 )
        hide cDNA Clones ( 6 )
        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: BG:DS00929.3 CG4185
        (Kodira, 1999.11)
        Source for identity of: BG:DS00929.3 NC2β Source for identity of BG:DS00929.3 NC2β was sequence comparison (date:000225).
        (FlyBase, 1996-)
        Source for database merge of
        Additional comments
        "l(2)35Bc" probably corresponds to either "BG:DS00929.4" or to "BG:DS00929.3".
        (Ashburner et al., 1999)
        "BG:DS00929.3" may correspond to "l(2)35Be" or "l(2)35Bc".
        (Ashburner et al., 1999.10.12)
        hide Comments About Role
        hide Comments About Molecular Function
        Recombinant "NC2" (consisting of both NC2α and NC2β proteins) activates downstream promoter element (DPE)-driven promoters and represses TATA-driven promoters.
        (Willy et al., 2000)
        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
        •
        Transcription factor CBF/NF-Y/archaeal histone (IPR003958)
        Histone-fold (IPR009072)
        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
        •
        FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
        •
        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
        •
        PANTHER - Protein classification by function, families, and pathways
        •
        hide Synonyms & Secondary IDs ( 7 )
        Reported As
        Symbol Synonym
        BG:DS00929.3
        (Bolshakov et al., 2002, Ashburner et al., 1999.10.12, Ashburner et al., 1999, )
        CG4185
        (Aoyagi and Wassarman, 2000, )
        dDr1
        (Nibu, 2005)
        dNC2
        (Rosenberg et al., 2001)
        Dr1
        (Stathopoulos et al., 2002, Phippen et al., 2001, Willy, 2000.8.31, Aoyagi and Wassarman, 2000)
        NC2beta
        (Giot et al., 2003)
        NC2β
         
        Name Synonym
        NC2β
         
        Secondary FlyBase IDs
          hide References ( 24 )
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