General Information
Symbol
Dmel\bin3
Species
D. melanogaster
Name
bicoid-interacting protein 3
Annotation Symbol
CG8276
Feature Type
FlyBase ID
FBgn0263144
Gene Model Status
Stock Availability
Gene Snapshot
In progress.Contributions welcome.
Genomic Location
Cytogenetic map
Sequence location
2R:6,214,568..6,240,602 [+]
Recombination map
2-55
Sequence
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
GO Summary Ribbons
Families, Domains and Molecular Function
Gene Group Membership (FlyBase)
Protein Family (UniProt, Sequence Similarities)
Belongs to the methyltransferase superfamily. (Q7K480)
Summaries
UniProt Contributed Function Data
S-adenosyl-L-methionine-dependent methyltransferase that adds a methylphosphate cap at the 5'-end of 7SK snRNA, leading to stabilize it (Probable). Required for dorso-ventral patterning in oogenesis and for anterior-posterior pattern formation during embryogenesis, possibly by binding and stabilizing 7SK RNA, thereby promoting formation of a repressive RNA-protein complex.
(UniProt, Q7K480)
Gene Model and Products
Number of Transcripts
4
Number of Unique Polypeptides
1

Please see the GBrowse view of Dmel\bin3 or the JBrowse view of Dmel\bin3 for information on other features

To submit a correction to a gene model please use the Contact FlyBase form

Protein Domains (via Pfam)
Isoform displayed:
Pfam protein domains
InterPro name
classification
start
end
Protein Domains (via SMART)
Isoform displayed:
SMART protein domains
InterPro name
classification
start
end
Comments on Gene Model
Gene model reviewed during 5.47
Low-frequency RNA-Seq exon junction(s) not annotated.
Gene model reviewed during 6.02
Sequence Ontology: Class of Gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
FBtr0085993
5606
1367
FBtr0085992
4760
1367
FBtr0336519
4718
1367
FBtr0346718
5616
1367
Additional Transcript Data and Comments
Reported size (kB)
4.588 (compiled cDNA)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kDa)
Length (aa)
Theoretical pI
RefSeq ID
GenBank
FBpp0085337
146.2
1367
9.20
FBpp0085336
146.2
1367
9.20
FBpp0307591
146.2
1367
9.20
FBpp0312329
146.2
1367
9.20
Polypeptides with Identical Sequences

The group(s) of polypeptides indicated below share identical sequence to each other.

1367 aa isoforms: bin3-PA, bin3-PB, bin3-PC, bin3-PD
Additional Polypeptide Data and Comments
Reported size (kDa)
1368 (aa); 146 (kD predicted)
Comments
External Data
Subunit Structure (UniProtKB)
Interacts with bicoid/bcd.
(UniProt, Q7K480)
Linkouts
Sequences Consistent with the Gene Model
Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\bin3 using the Feature Mapper tool.

External Data
Crossreferences
Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
Linkouts
Gene Ontology (12 terms)
Molecular Function (6 terms)
Terms Based on Experimental Evidence (3 terms)
CV Term
Evidence
References
inferred from physical interaction with UniProtKB:P09081
(assigned by UniProt )
inferred from direct assay
Terms Based on Predictions or Assertions (4 terms)
CV Term
Evidence
References
inferred from sequence or structural similarity with SGD:S000000238
inferred from biological aspect of ancestor with PANTHER:PTN000267975
(assigned by GO_Central )
inferred from biological aspect of ancestor with PANTHER:PTN000267975
(assigned by GO_Central )
inferred from biological aspect of ancestor with PANTHER:PTN000267972
(assigned by GO_Central )
Biological Process (5 terms)
Terms Based on Experimental Evidence (3 terms)
CV Term
Evidence
References
inferred from mutant phenotype
(assigned by UniProt )
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
inferred from sequence or structural similarity with SGD:S000000238
inferred from biological aspect of ancestor with PANTHER:PTN000267972
(assigned by GO_Central )
Cellular Component (1 term)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
inferred from direct assay
Terms Based on Predictions or Assertions (0 terms)
Expression Data
Transcript Expression
in situ
Stage
Tissue/Position (including subcellular localization)
Reference
organism

Comment: maternally deposited

northern blot
Stage
Tissue/Position (including subcellular localization)
Reference
Additional Descriptive Data
Northern blot analysis indicates that bin3 transcripts are most abundant in 0-2hr embryos, are at lower levels in 2-4hr embryos and drop dramatically in 4-24hr embryos. In situ hybridization shows that bin3 transcripts are distributed throughout the early embryo and in unfertilized eggs.
Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Evidence
References
inferred from direct assay
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\bin3 in GBrowse 2
RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region
Reference
See Gelbart and Emmert, 2013 for analysis details and data files for all genes.
Developmental Proteome: Life Cycle
Developmental Proteome: Embryogenesis
External Data and Images
Linkouts
BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Images
Alleles, Insertions, Transgenic Constructs and Phenotypes
Classical and Insertion Alleles ( 55 )
For All Classical and Insertion Alleles Show
 
Allele of bin3
Class
Mutagen
Associated Insertion
Stocks
Known lesion
Other relevant insertions
Transgenic Constructs ( 7 )
Deletions and Duplications ( 0 )
Summary of Phenotypes
For more details about a specific phenotype click on the relevant allele symbol.
Lethality
Allele
Sterility
Allele
Other Phenotypes
Allele
Phenotype manifest in
Allele
Orthologs
Human Orthologs (via DIOPT v7.1)
Homo sapiens (Human) (2)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Alignment
Complementation?
Transgene?
11 of 15
Yes
Yes
1 of 15
No
No
Model Organism Orthologs (via DIOPT v7.1)
Mus musculus (laboratory mouse) (2)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Alignment
Complementation?
Transgene?
9 of 15
Yes
Yes
1 of 15
No
No
Rattus norvegicus (Norway rat) (2)
6 of 13
Yes
Yes
4 of 13
No
Yes
Xenopus tropicalis (Western clawed frog) (0)
No orthologs reported.
Danio rerio (Zebrafish) (2)
9 of 15
Yes
Yes
Caenorhabditis elegans (Nematode, roundworm) (2)
7 of 15
Yes
No
1 of 15
No
Yes
Arabidopsis thaliana (thale-cress) (1)
4 of 9
Yes
No
Saccharomyces cerevisiae (Brewer's yeast) (0)
No orthologs reported.
Schizosaccharomyces pombe (Fission yeast) (1)
5 of 12
Yes
No
Orthologs in Drosophila Species (via OrthoDB v9.1) ( EOG091901T4 )
Organism
Common Name
Gene
AAA Syntenic Ortholog
Multiple Dmel Genes in this Orthologous Group
Drosophila melanogaster
fruit fly
Drosophila suzukii
Spotted wing Drosophila
Drosophila simulans
Drosophila sechellia
Drosophila erecta
Drosophila yakuba
Drosophila ananassae
Drosophila pseudoobscura pseudoobscura
Drosophila pseudoobscura pseudoobscura
Drosophila persimilis
Drosophila willistoni
Drosophila virilis
Drosophila mojavensis
Drosophila grimshawi
Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG091503NY )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Musca domestica
House fly
Glossina morsitans
Tsetse fly
Lucilia cuprina
Australian sheep blowfly
Lucilia cuprina
Australian sheep blowfly
Mayetiola destructor
Hessian fly
Aedes aegypti
Yellow fever mosquito
Anopheles darlingi
American malaria mosquito
Anopheles gambiae
Malaria mosquito
Culex quinquefasciatus
Southern house mosquito
Culex quinquefasciatus
Southern house mosquito
Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W03GK )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Bombyx mori
Silkmoth
Danaus plexippus
Monarch butterfly
Heliconius melpomene
Postman butterfly
Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( None identified )
No non-Insect Arthropod orthologies identified
Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( None identified )
No non-Arthropod Metazoa orthologies identified
Human Disease Model Data
FlyBase Human Disease Model Reports
    Alleles Reported to Model Human Disease (Disease Ontology)
    Download
    Models ( 0 )
    Allele
    Disease
    Evidence
    References
    Interactions ( 1 )
    Comments ( 0 )
     
    Human Orthologs (via DIOPT v7.1)
    Note that ortholog calls supported by only 1 or 2 algorithms (DIOPT score < 3) are not shown.
    Homo sapiens (Human)
    Gene name
    Score
    OMIM
    OMIM Phenotype
    Complementation?
    Transgene?
    Functional Complementation Data
    Functional complementation data is computed by FlyBase using a combination of the orthology data obtained from DIOPT and OrthoDB and the allele-level genetic interaction data curated from the literature.
    Interactions
    Summary of Physical Interactions
    esyN Network Diagram
    Show neighbor-neighbor interactions:
    Select Layout:
    Legend:
    Protein
    RNA
    Selected Interactor(s)
    Interactions Browser

    Please look at the Interaction Group reports for full details of the physical interactions
    protein-protein
    Interacting group
    Assay
    References
    RNA-protein
    Interacting group
    Assay
    References
    Summary of Genetic Interactions
    esyN Network Diagram
    esyN Network Key:
    Suppression
    Enhancement

    Please look at the allele data for full details of the genetic interactions
    Starting gene(s)
    Interaction type
    Interacting gene(s)
    Reference
    Starting gene(s)
    Interaction type
    Interacting gene(s)
    Reference
    External Data
    Subunit Structure (UniProtKB)
    Interacts with bicoid/bcd.
    (UniProt, Q7K480 )
    Linkouts
    DroID - A comprehensive database of gene and protein interactions.
    Pathways
    Gene Group - Pathway Membership (FlyBase)
    External Data
    Linkouts
    Genomic Location and Detailed Mapping Data
    Chromosome (arm)
    2R
    Recombination map
    2-55
    Cytogenetic map
    Sequence location
    2R:6,214,568..6,240,602 [+]
    FlyBase Computed Cytological Location
    Cytogenetic map
    Evidence for location
    42A13-42A13
    Limits computationally determined from genome sequence between P{lacW}l(2)k09848k09848&P{EP}EP407 and P{lacW}geminink14019&P{PZ}Adf101349; Left limit from in situ hybridisation (FBrf0157097) Right limit from in situ hybridisation (FBrf0157097)
    Experimentally Determined Cytological Location
    Cytogenetic map
    Notes
    References
    42A12-42A13
    42A16-42B2
    42B-42B
    (determined by in situ hybridisation)
    Experimentally Determined Recombination Data
    Location
    Left of (cM)
    Right of (cM)
    Notes
    Stocks and Reagents
    Stocks (41)
    Genomic Clones (22)
    cDNA Clones (50)
     

    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 sequences
    BDGP DGC clones
    Other clones
      Drosophila Genomics Resource Center cDNA clones

      For each fully sequenced cDNA the DGRC maintains various forms of the cDNA (e.g tagged or untagged) in several different host vectors for subsequent cloning and expression in Drosophila and Drosophila cell lines.

      cDNA Clones, End Sequenced (ESTs)
      RNAi and Array Information
      Linkouts
      GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
      Antibody Information
      Laboratory Generated Antibodies
       
      polyclonal
      Commercially Available Antibodies
       
      Other Information
      Relationship to Other Genes
      Source for database identify of
      Source for identity of: bin3 CG8276
      Source for database merge of
      Source for merge of: bin3 l(2)SH1014
      Additional comments
      "bin3" may correspond to "Scim20". Sequence analysis off ends of P{SUPor-P} in Scim insertion mutant places "Scim20" near/in "Pld" or "bin3".
      Source for identity of bin3 CG8276 was sequence comparison ( date:000414 ).
      Other Comments
      Gene expression is increased in response to the presence of two copies of Scer\GAL4hs.PB.
      4 alleles of l(2)SH1014 recovered in a P-insertion screen.
      Identification: Interacts with bcd protein bound to DNA in a modified yeast two-hybrid screen.
      Origin and Etymology
      Discoverer
      Etymology
      Identification
      External Crossreferences and Linkouts ( 69 )
      Crossreferences
      NCBI Gene - Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.
      GenBank Protein - A collection of sequences from several sources, including translations from annotated coding regions in GenBank, RefSeq and TPA, as well as records from SwissProt, PIR, PRF, and PDB.
      RefSeq - A comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein.
      UniProt/Swiss-Prot - Manually annotated and reviewed records of protein sequence and functional information
      UniProt/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information
      Linkouts
      Drosophila Genomics Resource Center - Drosophila Genomics Resource Center cDNA clones
      DroID - A comprehensive database of gene and protein interactions.
      Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
      Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
      GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
      iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)
      KEGG Genes - Molecular building blocks of life in the genomic space.
      Synonyms and Secondary IDs (10)
      Datasets (0)
      Study focus (0)
      Experimental Role
      Project
      Project Type
      Title
      References (62)