FlyBase Gene Report: Dmel\BobA

General Information

Symbol

Dmel\BobA

Species

D. melanogaster

Name

Brother of Bearded A

Annotation Symbol

CG12487

Feature Type

protein_coding_gene

FlyBase ID

FBgn0040487

Gene Model Status

Current

Stock Availability

4 publicly available

Gene Summary

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
Pathway
Gene Group
Interactive Fly

Also Known As

Bob, Brother of Bearded

Key Links

Genomic Location

Cytogenetic map

71A2-71A2

Sequence location

3L:14,945,499..14,946,125 [-]

Recombination map

3-42

RefSeq locus

NT_037436 REGION:14945499..14946125

Sequence

Get Decorated FASTA

Genomic Maps

JBrowse

Other Genome Views

The following external sites may use different assemblies or annotations than FlyBase.

Function

Gene Ontology (GO) Annotations (5 terms)

Molecular Function (1 term)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

enables ubiquitin protein ligase binding

inferred from physical interaction with FLYBASE:neur; FB:FBgn0002932

(Bardin and Schweisguth, 2006)

Terms Based on Predictions or Assertions (0 terms)

Biological Process (4 terms)

Terms Based on Experimental Evidence (4 terms)

CV Term

Evidence

References

involved_in cell fate specification

inferred from mutant phenotype

(Lai et al., 2000)

involved_in defense response to bacterium

inferred from mutant phenotype

(Ayres et al., 2008)

involved_in negative regulation of Notch signaling pathway

inferred from mutant phenotype

(Lai et al., 2000)

involved_in sensory organ precursor cell fate determination

inferred from mutant phenotype

(Lai et al., 2000)

Terms Based on Predictions or Assertions (0 terms)

Cellular Component (0 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Gene Group (FlyBase)

BEARDED GENE FAMILY

Pathway (FlyBase)

NEGATIVE REGULATORS OF NOTCH SIGNALING PATHWAY

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Pathway (FlyBase)

NEGATIVE REGULATORS OF NOTCH SIGNALING PATHWAY -: The Notch receptor signaling pathway is activated by the binding of the transmembrane receptor Notch (N) to transmembrane ligands, Dl or Ser, presented on adjacent cells. This results in the proteolytic cleavage of N, releasing the intracellular domain (NICD). NICD translocates into the nucleus, interacting with Su(H) and mam to form a transcription complex, which up-regulates transcription of Notch-responsive genes. Negative regulators of the pathway down-regulate the signal from the sending cell or the response in the receiving cell. (Adapted from FBrf0225731 and FBrf0192604).

Gene Group (FlyBase)

BEARDED GENE FAMILY -: The Bearded gene family, named from homology with Brd, encode small proteins containing predicted basic amphipathic α-helical domains in their N-terminal regions. They are located in two genomic complexes - the Bearded Complex and the Enhancer of Split Complex. Some members have been implicated in Notch signaling. (Adapted from FBrf0123097).

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\BobA 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

Structure

Protein 3D structure (Predicted by AlphaFold) (AlphaFold entry P83262)

If you don't see a structure in the viewer, refresh your browser.

Model Confidence:

Very high (pLDDT > 90)
Confident (90 > pLDDT > 70)
Low (70 > pLDDT > 50)
Very low (pLDDT < 50)

AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100. Some regions with low pLDDT may be unstructured in isolation.

Experimentally Determined Structures

Crossreferences

Comments on Gene Model

Gene model reviewed during 5.44

Gene model reviewed during 5.46

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

BobA-RA

FBtr0075673

NM_080348

627

Additional Transcript Data and Comments

Reported size (kB)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kDa)

Length (aa)

Theoretical pI

UniProt

RefSeq ID

GenBank

BobA-PA

FBpp0075426

8.9

9.21

P83262

NP_525087

AAF49695

Polypeptides with Identical Sequences

There is only one protein coding transcript and one polypeptide associated with this gene

Additional Polypeptide Data and Comments

Reported size (kDa)

78 (aa)

(Lai et al., 2000)

Comments

External Data

Crossreferences

Linkouts

Sequences Consistent with the Gene Model

Nucleotide / Polypeptide Records

UniProt

P83262

Mapped Features

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

External Data

Crossreferences

Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.

BobA_1

Linkouts

Expression Data

Testis-specificity index

The testis specificity index was calculated from modENCODE tissue expression data by Vedelek et al., 2018 to indicate the degree of testis enrichment compared to other tissues. Scores range from -2.52 (underrepresented) to 5.2 (very high testis bias).

NA

Transcript Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\BobA in JBrowse

RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region

View exonic expression by developmental stage for Dmel\BobA

View exonic expression by tissue for Dmel\BobA

Bulk Downloads

RNA-Seq RPKM values for all genes

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

DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species

50281/tissue=All

EMBL-EBI Single Cell Expression Atlas - Single cell expression across species

FBgn0040487

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0040487

FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data

FBgn0040487

Flygut - An atlas of the Drosophila adult midgut

FBgn0040487

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 1 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 2 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of BobA

Transgenic constructs containing regulatory region of BobA

Aberrations (Deficiencies and Duplications) ( 3 )

Inferred from experimentation ( 3 )

Gene disrupted in

Df(3L)BobA-1

(Yamakawa et al., 2018)

Df(3L)Brd-C1

(Chanet et al., 2009)

Gene duplicated in

Dp(3;2)Brd-C

(Chanet et al., 2009)

Inferred from location ( 4 )

Variants

Variant Molecular Consequences

Alleles Representing Disease-Implicated Variants

Phenotypes

For more details about a specific phenotype click on the relevant allele symbol.

Lethality

Allele

lethal, with Scer\GAL4^sca-537.4

BobA^UAS.cLa

viable

BobA^f03024

Sterility

Allele

fertile

BobA^f03024

Other Phenotypes

Allele

visible, with Scer\GAL4^69B

BobA^UAS.cLa

visible, with Scer\GAL4^Bx-MS1096

BobA^UAS.cLa

visible, with Scer\GAL4^sca-109-68

BobA^UAS.cLa

visible, with Scer\GAL4^sca-537.4

BobA^UAS.cLa

Phenotype manifest in

Allele

external sensory organ precursor cell & dorsal mesothoracic disc, with Scer\GAL4^sca-537.4

BobA^UAS.cLa

macrochaeta, with Scer\GAL4^sca-537.4

BobA^UAS.cLa

microchaeta, with Scer\GAL4^sca-537.4

BobA^UAS.cLa

tormogen cell, with Scer\GAL4^sca-109-68

BobA^UAS.cLa

trichogen cell, with Scer\GAL4^sca-109-68

BobA^UAS.cLa

wing margin bristle, with Scer\GAL4^69B

BobA^UAS.cLa

wing margin bristle, with Scer\GAL4^Bx-MS1096

BobA^UAS.cLa

wing sensillum & wing vein, with Scer\GAL4^69B

BobA^UAS.cLa

wing sensillum & wing vein, with Scer\GAL4^Bx-MS1096

BobA^UAS.cLa

Orthologs

Downloads

Download All DIOPT Orthologs

Human Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Homo sapiens (Human) (0)

Model Organism Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Rattus norvegicus (Norway rat) (0)

Mus musculus (laboratory mouse) (0)

Xenopus tropicalis (Western clawed frog) (0)

Danio rerio (Zebrafish) (0)

Caenorhabditis elegans (Nematode, roundworm) (0)

Anopheles gambiae (African malaria mosquito) (0)

Arabidopsis thaliana (thale-cress) (0)

Saccharomyces cerevisiae (Brewer's yeast) (0)

Schizosaccharomyces pombe (Fission yeast) (0)

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:BobA. Refer to their site for version information.

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v9.1)

Gene Symbol

Score

Source

Alignment

Drosophila melanogaster (Fruit fly) (2)

CG13465

2 of 13

Brd

1 of 13

Human Disease Associations

FlyBase Human Disease Model Reports

Disease Ontology (DO) Annotations

Models Based on Experimental Evidence ( 0 )

Allele

Disease

Evidence

References

Potential Models Based on Orthology ( 0 )

Human Ortholog

Disease

Evidence

References

Modifiers Based on Experimental Evidence ( 0 )

Allele

Disease

Interaction

References

Disease Associations of Human Orthologs (via DIOPT v9.1 and OMIM)

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

DO term

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

Interaction Browsers

View in FlyBase Interactions Browser View in MIST tool (external link)

Please see the Physical Interaction reports below for full details

protein-protein

Physical Interaction

Assay

References

BobA - neur

two hybrid

(Bardin and Schweisguth, 2006)

RNA-RNA

Physical Interaction

Assay

References

BobA - mir-11

fluorescence technology

(Lai et al., 2005)

BobA - mir-4

fluorescence technology

(Lai et al., 2005)

BobA - mir-7

fluorescence technology

(Lai et al., 2005)

BobA - mir-79

fluorescence technology

(Lai et al., 2005)

Summary of Genetic Interactions

Interaction Browsers

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

External Data

Linkouts

DroID - A comprehensive database of gene and protein interactions.

FBgn0040487

Pathways

Signaling Pathways (FlyBase)

NEGATIVE REGULATORS OF NOTCH SIGNALING PATHWAY

Metabolic Pathways

FlyBase

External Links

External Data

Linkouts

Class of Gene

nuclear_gene

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-42

Cytogenetic map

71A2-71A2

Sequence location

3L:14,945,499..14,946,125 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

71A2-71A2

Limits computationally determined from genome sequence between P{PZ}Mpcp⁰⁰⁵⁶⁴ and P{PZ}l(3)rO220^rO220

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

71A1-71A2

(Bodner, 1999.11.24)

Experimentally Determined Recombination Data

Location

3-42

(FlyBase, 2016)

3-36.5

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (4)

Aberrations including deletions of this gene Aberrations including duplications of this gene

Bloomington

26683

w^*; P{UAS-BobA.L}2 P{UAS-BobA.L}7

18609

w¹¹¹⁸; PBac{WH}BobA^f03024

26684

w^*; P{UAS-BobA.L}3 P{UAS-BobA.L}10

VDRC

v109357

P{KK114961}VIE-260B

Genomic Clones (12)

Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete

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 JBrowse for alignment of the cDNAs and ESTs to the gene model.

cDNA clones, fully sequenced

BDGP DGC clones

IP06720

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.

FBgn0040487

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0040487

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

Overexpression of BobA antagonises the N pathway in multiple cell fate decisions during adult sensory organ development.

(Lai et al., 2000)

Brd family overexpression phenotypes resemble N loss of function phenotypes.

(Bodner et al., 1999)

Overexpression of Bob results in both bristle tufting and balding phenotypes.

(Lai et al., 1999)

Relationship to Other Genes

Source for database merge of

Source for merge of: BobA CG12487

(FlyBase, 1996-)

Additional comments

"CG12487" may correspond to "BobA" or "BobB" but does not correspond to "BobC". "BobA" may correspond to "CG12487" but does not correspond to "CG13465".

(Whitfield, 2000.10.30)

Source for merge of BobA CG12487 was sequence comparison ( date:041206 ).

(FlyBase, 1996-)

In FBrf0123097, 3 tandemly arranged loci, which encode nearly identical "Bob" proteins have been detected in genomic clones of the 71A1-71A2 region. These loci are "BobA", "BobB" and "BobC". In the sequenced D.melanogaster genome, only two copies of "Bob" genes are present in the corresponding genomic region. These two genes are represented by the annotations "CG12487" and "CG13465". The annotation "CG12487" corresponds to "BobA". It is not possible to tell whether the "CG13465 annotation corresponds to "BobB" or "BobC".

(FlyBase, 1996-)

Nomenclature History

Source for database identify of

Nomenclature comments

Etymology

Synonyms and Secondary IDs (8)

Reported As

Symbol Synonym

Bob

(Fontana and Posakony, 2009, Osada and Innan, 2008, Bardin and Schweisguth, 2006, Lai, 2002, Bodner et al., 1999, Lai et al., 1999)

Bob-A

(Lai et al., 2005)

BobA

(Yamakawa et al., 2018, Kiss et al., 2016, Chen et al., 2013, Zhan et al., 2013, Egger et al., 2010, Chanet et al., 2009, Parks and Muskavitch, 2009.2.2, Rand et al., 2008, Reiter et al., 2007)

CG12487

(Keleman et al., 2009.8.5, Ayres et al., 2008, Whitfield, 2000.10.30)

bobA

(Ayres et al., 2008)

Name Synonyms

Brother of Bearded

(Heimiller et al., 2014, Zhan et al., 2013, Osada and Innan, 2008)

Brother of Bearded A

(Castillo et al., 2015, Lai et al., 2000, Bodner, 1999.11.24)

brother of bearded

(Zhan et al., 2013)

Secondary FlyBase IDs

FBgn0026561
FBgn0040808

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 20 )

Sequence 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.

50281

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.

AAF49695

RefSeq - A comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein.

UniProt/GCRP - The gene-centric reference proteome (GCRP) provides a 1:1 mapping between genes and UniProt accessions in which a single 'canonical' isoform represents the product(s) of each protein-coding gene.

P83262

UniProt/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information

P83262

Other crossreferences

AlphaFold DB - AlphaFold provides open access to protein structure predictions for the human proteome and other key proteins of interest, to accelerate scientific research.

P83262

DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species

50281/tissue=All

EMBL-EBI Single Cell Expression Atlas - Single cell expression across species

FBgn0040487

FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data

FBgn0040487

FlyMine - An integrated database for Drosophila genomics

FBgn0040487

KEGG Genes - Molecular building blocks of life in the genomic space.

dme:Dmel_CG12487

MARRVEL_MODEL - MARRVEL (model organism gene)

50281

Linkouts

Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones

FBgn0040487

DroID - A comprehensive database of gene and protein interactions.

FBgn0040487

DRSC - Results frm RNAi screens

FBgn0040487

Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.

BobA_1

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0040487

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0040487

Flygut - An atlas of the Drosophila adult midgut

FBgn0040487

References (33)

The following external sites may use different assemblies or annotations than FlyBase.

NA

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