A Database of Drosophila Genes & Genomes

FB2008_07, released August 8, 2008
 

Gene Dmel\bnk

General Information
SymbolDmel\bnkSpeciesD. melanogaster
NamebottleneckAnnotation symbolCG1480
Feature typeprotein_coding_geneFlyBase IDFBgn0004389
Created / Updated2003-12-01/2003-12-01
Genomic Location
Chromosome (arm)3RRecombination map
Cytogenetic map100B5-100B5Sequence location3R:27,018,946..27,020,517 [+]
Map ( GBrowse ) detailed view
hide Summary Information
Automatically generated summary

See sections below for more information
The gene bottleneck is referred to in FlyBase by the symbol bnk (CG1480, FBgn0004389). It has the cytological map location 100B5. Its sequence location is 3R:27018946..27020517. Its molecular function is described as: actin binding; structural constituent of cytoskeleton. It is involved in the biological processes: actin filament organization; cellularization; cytokinesis, contractile ring formation; membrane organization and biogenesis; cytokinesis. 2 alleles are 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
100B5-100B5  
Limits computationally determined from genome sequence between P{PZ}Aph-407028&P{PZ}dcorK215 and P{PZ}l(3)rM731rM731  
Experimentally Determined Cytological Location
Cytogenetic map
Notes
References
100B7-100C1
(determined by in situ hybridisation)  
(Schejter and Wieschaus, 1992)
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\bnk for information on other features
detailed view FBtr0085754 FBtr0085779 FBtr0085780 FBpp0085116 FBpp0085140 FBpp0085141 FBti0100502
Comments on Gene Model
hide Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Associated CDS (aa)
bnk-RA
FBtr0085754
 NM_079865
  1572
  303
Additional Transcript Data & Comments
Reported size (kB)
1.2 (northern blot)
(Schejter and Wieschaus, 1993)
Comments
External Data
Crossreferences
hide Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kD)
Length (aa)
Theoretical pI
RefSeq ID
GenBank protein
bnk-PA  
FBpp0085116  
33.6  
303  
10.68  
  NP_524604
  AAF57125
Additional Polypeptide Data & Comments
Reported size (kD)
303 (aa); 33.5 (kD)
(Schejter and Wieschaus, 1993)
Comments
External Data
Linkouts
Crossreferences
hide Sequences Consistent with the Gene Model
DDBJ /
EMBL /
GenBank
DNA sequence
Protein sequence
Name
AE003777
AAF57125
 
AX093933
 
CO271127
 
CO313399
 
CO331766
 
EC060043
 
EC067733
 
EC248526
 
U01035
AAC46467
 
 
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL
    Maps to
    Does NOT map to
    Identified with
    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
    rescue fragment
    bnk[+t2.8]
    3R:27,018,314..27,021,023
    comment=The 2.8kb genomic EcoRI fragment rescues the bnk phenotype of Df(3R)tll-e embryos; position of restriction fragment on reference genome inferred by FlyBase curator.
    evidence=experimental
    linked_to=EcoRI-EcoRI_rfrag
    (Schejter and Wieschaus, 1993)
    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
     embryonic stage | embryonic cycle 14
     whole organism
    (Lecuit et al., 2002)
     embryonic stage | 2-4 hr
     
    (Schejter and Wieschaus, 1993)
    Marker for
      Subcellular Localization
      CV Term
      hide Summary of Polypeptide Expression
      Stage
      Tissue/Position
      Reference
      Marker for
        Subcellular Localization
        CV Term
        actin filament
        (Schejter and Wieschaus, 1993)
        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
        Other Phenotypes
        Allele
        wild-type
        Phenotype manifest in
        Allele
        hide Classical Alleles ( 0 )
        For All Classical Alleles Show

        Allele of bnkClassMutagenStocksKnown lesion
        hide Alleles Carried on Transgenic Constructs ( 2 )
        For All Alleles Carried on Transgenic Constructs Show

        Allele of bnkClassMutagenStocksKnown lesion
        bnk+t2.80 Yes
        bnkGD84440 Yes
        hide Aneuploid Aberrations
        Useful deficiency
         
        Useful duplication
         
        Disrupted in
        (Schejter and Wieschaus, 1993)
        (Ryder, 2004.4.26)
        (Ryder, 2004.4.26)
        (Schejter and Wieschaus, 1993)
        (Schejter and Wieschaus, 1993)
        (Muller et al., 1999)
        Duplicated in
        (Schejter and Wieschaus, 1993)
        Not disrupted in
        (Schejter and Wieschaus, 1993)
        hide Transgenic Constructs & Insertions
        Transgenic Constructs
        Type of construct
        Name
        Expression data
        UAS construct
        P{GD8444}
        NA
        characterization construct
        P{bnk}
        NA
        Insertions
        Type of insertions
        Name
        Expression data
        hide Related Comments
        Please look at the allele reports for the complete phenotype data
        Mutant embryos lacking the cellularization locus, bnk, exhibit a variety of defects including premature 'closing off' of the actin/myosin contractile ring.
        (Schejter and Wieschaus, 1991)
        hide Gene Ontology: Function, Process & Cellular Component ( 8 )
        hide Molecular Function
        CV term
        Evidence
        References
        actin binding
        inferred from sequence or structural similarity
        (Goldstein and Gunawardena, 2000)
        structural constituent of cytoskeleton
        inferred from electronic annotation
        (King et al., 2002.9.23)
        hide Biological Process
        CV term
        Evidence
        References
        actin filament organization
        non-traceable author statement
        (Swiss-Prot Project Members, 1995.11.1)
        traceable author statement
        (Mazumdar and Mazumdar, 2002)
        cellularization
        traceable author statement
        (Tepass et al., 2001)
        traceable author statement
        (Cereijido et al., 2003)
        cytokinesis
        traceable author statement
        (Cereijido et al., 2003)
        cytokinesis, contractile ring formation
        non-traceable author statement
        (Tepass et al., 2001)
        membrane organization and biogenesis
        non-traceable author statement
        (Tepass et al., 2001)
        hide Cellular Component
        CV term
        Evidence
        References
        actin filament
        inferred from direct assay
        (Schejter and Wieschaus, 1993)
        non-traceable author statement
        (Tepass 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
        bnk allele
        Gene
        References
        unspecified
        RhoGEF2
        (Padash Barmchi et al., 2005)
        hide External Data
        Linkouts
        BioGRID - Interaction data, including yeast 2-hybrid and genetic interactions
        •
        hide Orthologs
        Genome-wide drosophilid orthologs
        Curated drosophilid orthologs
        (ten Bosch and Cline, 2006.3.21)
         
        (ten Bosch and Cline, 2006.3.21)
        (ten Bosch and Cline, 2006.3.21)
        Linkouts
        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 ( 0 )
        hide Genomic Clones ( 2 )
        hide cDNA Clones ( 3 )
        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
        polyclonal
        (Schejter and Wieschaus, 1993, Thomas and Wieschaus, 2004)
        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: bnk CG1480
        (Yao, 1999.11)
        Source for database merge of
        Additional comments
        hide Comments About Role
        The expression pattern and mutant phenotype of bnk suggests a direct role in regulating the dynamic restructuring of the actin-based cytoskeleton of cellularizing embryos.
        (Schejter and Wieschaus, 1993)
        hide Comments About Molecular Function
        hide Other Comments
        Area matching Drosophila Bottleneck gene (inverted), Acc. No. U01035.
        (Davies, 2001.3.15)
        Phenotypic analysis is based on deficiency chromosomes.
        (Schejter and Wieschaus, 1993)
        dsRNA made from templates generated with primers directed against this gene tested in RNAi screen for effects on Kc167 and S2R+ cell morphology.
        (Kiger et al., 2003)
        hide External Crossreferences & Linkouts
        Sequence Crossreferences
        RefSeq (Transcripts)
        •
        RefSeq (Proteins)
        •
        DDBJ / EMBL / GenBank
        •
        UniProtKB/Swiss-Prot
        •
        Other Crossreferences
        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
        •
        hide Synonyms & Secondary IDs ( 4 )
        Reported As
        Symbol Synonym
        bnk
        (ten Bosch et al., 2006, Padash Barmchi et al., 2005, Pilot et al., 2006)
        Bnk
        (Padash Barmchi et al., 2005)
        CG1480
        (Goldstein and Gunawardena, 2000, )
        Name Synonym
        bottleneck
        (ten Bosch et al., 2006, Schejter et al., 1997, Pilot et al., 2006, Abdu et al., 2006)
        Secondary FlyBase IDs
          hide References ( 45 )
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          hide Recent research papers ( 3 )
          Abdu et al., 2006, Development 133(8): 1477--1484
          spn-F encodes a novel protein that affects oocyte patterning and bristle morphology in Drosophila. [FBrf0190267]
          Pilot et al., 2006, Development 133(4): 711--723
          Developmental control of nuclear morphogenesis and anchoring by charleston, identified in a functional genomic screen of Drosophila cellularisation. [FBrf0190315]
          ten Bosch et al., 2006, Development 133(10): 1967--1977
          The TAGteam DNA motif controls the timing of Drosophila pre-blastoderm transcription. [FBrf0190276]
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          All reviews listed in FlyBase were published before 2006
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