FlyBase Gene Report: Dmel\polybromo

General Information

Symbol

Dmel\polybromo

Species

D. melanogaster

Name

polybromo

Annotation Symbol

CG11375

Feature Type

protein_coding_gene

FlyBase ID

FBgn0039227

Gene Model Status

Current

Stock Availability

10 publicly available

Gene Summary

polybromo (polybromo) encodes a subunit of Polybromo-associated Brahma complex (PBAP). Its main biological role is involved in chromatin remodeling together with Brahma complex. It can also regulate gene transcription through DNA binding, which is dependent or independent ofthe PBAP complex. [Date last reviewed: 2019-03-21] (FlyBase Gene Snapshot)

All Summaries

Gene Snapshot
Alliance
Auto summary
Gene Group
Interactive Fly

Also Known As

PB, bap180, baf180

Key Links

Genomic Location

Cytogenetic map

96A22-96A23

Sequence location

3R:24,799,967..24,805,259 [-]

Recombination map

3-85

RefSeq locus

NT_033777 REGION:24799967..24805259

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 (9 terms)

Molecular Function (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

enables chromatin binding

inferred from electronic annotation with InterPro:IPR001025

(InterPro Project Members, 2004-)

inferred from biological aspect of ancestor with PANTHER:PTN000412155

(GO Reference Genome Project, 2011-)

Biological Process (5 terms)

Terms Based on Experimental Evidence (4 terms)

CV Term

Evidence

References

involved_in chromatin remodeling

inferred from genetic interaction with FLYBASE:Pc; FB:FBgn0003042,FLYBASE:Bap170; FB:FBgn0042085

(Chalkley et al., 2008)

involved_in egg chorion assembly

inferred from mutant phenotype

(Carrera et al., 2008)

involved_in negative regulation of transcription by RNA polymerase II

inferred from mutant phenotype

(Bonnay et al., 2014)

involved_in vitelline membrane formation involved in chorion-containing eggshell formation

inferred from mutant phenotype

(Carrera et al., 2008)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

involved_in chromatin remodeling

inferred from electronic annotation with InterPro:IPR037382

(InterPro Project Members, 2004-)

inferred from biological aspect of ancestor with PANTHER:PTN000412155

(GO Reference Genome Project, 2011-)

involved_in transcription elongation by RNA polymerase II

inferred from biological aspect of ancestor with PANTHER:PTN000412155

(GO Reference Genome Project, 2011-)

Cellular Component (3 terms)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

part_of brahma complex

inferred from direct assay

(Barish et al., 2020, Chalkley et al., 2008, Mohrmann et al., 2004)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

part_of RSC-type complex

inferred from biological aspect of ancestor with PANTHER:PTN000412155

(GO Reference Genome Project, 2011-)

inferred from electronic annotation with InterPro:IPR037382

(InterPro Project Members, 2004-)

part_of SWI/SNF complex

inferred from biological aspect of ancestor with PANTHER:PTN000412156

(GO Reference Genome Project, 2011-)

Gene Group (FlyBase)

POLYBROMO-CONTAINING BRAHMA ASSOCIATED PROTEINS COMPLEX

HIGH MOBILITY GROUP BOX TRANSCRIPTION FACTORS

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Snapshot

Gene Group (FlyBase)

POLYBROMO-CONTAINING BRAHMA ASSOCIATED PROTEINS COMPLEX -: Brahma (BRM) complexes are ATP-dependent chromatin remodeling complexes. The Polybromo-containing Brahma associated proteins (PBAP) complex is distinguished by the presence of polybromo and Bap170 subunits. (Adapted from FBrf0192510.)
HIGH MOBILITY GROUP BOX TRANSCRIPTION FACTORS -: The High mobility group box (HMGB) transcription factors are sequence-specific DNA binding proteins that regulate transcription. The HMGB proteins have a characteristic L-shaped HMGB domain of about 80 amino acid residues, which binds the DNA minor groove and induce DNA bending. The HMGB domains are found in one or more copies and are involved in the regulation of DNA-dependent processes such as transcription, replication and chromatin remodeling. (Adapted from FBrf0194706, FBrf0108466, PMID:24086078 and PMID:23153957).

Summary (Interactive Fly)

chromatin component - a subunit of Polybromo-associated Brahma complex (PBAP) - involved in chromatin remodeling together with Brahma complex - regulates gene transcription through DNA binding, which is dependent or independent of the PBAP complex.

Interactive Fly

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\polybromo 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 Q9VC36)

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 5.45

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

polybromo-RA

FBtr0084740

NM_143031

5119

1654

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

polybromo-PA

FBpp0084115

189.7

1654

6.68

Q9VC36

NP_651288

AAF56339

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)

Comments

External Data

Crossreferences

InterPro - A database of protein families, domains and functional sites

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\polybromo using the Feature Mapper tool.

External Data

Crossreferences

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

polybromo_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).

-0.42

Transcript Expression

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 1 -- 3

organism

Comment: maternally deposited

(Fisher et al., 2012)

embryonic stage 4 -- 6

organism | ubiquitous

(Fisher et al., 2012)

embryonic stage 7 -- 8

organism | faint | ubiquitous

(Fisher et al., 2012)

organism | ubiquitous

(Fisher et al., 2012)

embryonic stage 9 -- 10

organism | faint | ubiquitous

(Fisher et al., 2012)

organism | ubiquitous

(Fisher et al., 2012)

embryonic stage 11 -- 12

organism | faint | ubiquitous

(Fisher et al., 2012)

central brain primordium

(Fisher et al., 2012)

organism | ubiquitous

(Fisher et al., 2012)

ventral nerve cord primordium

(Fisher et al., 2012)

embryonic stage 13 -- 16

embryonic brain

(Fisher et al., 2012)

embryonic/larval midgut

(Fisher et al., 2012)

organism | ubiquitous

(Fisher et al., 2012)

larval ventral nerve cord

(Fisher et al., 2012)

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

part_of brahma complex

inferred from direct assay

(Barish et al., 2020, Chalkley et al., 2008, Mohrmann et al., 2004)

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\polybromo in JBrowse

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

View exonic expression by developmental stage for Dmel\polybromo

View exonic expression by tissue for Dmel\polybromo

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

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0039227

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

42954/tissue=All

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

FBgn0039227

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0039227

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

FBgn0039227

Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns

CG11375

Flygut - An atlas of the Drosophila adult midgut

FBgn0039227

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 4 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 8 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of polybromo

Transgenic constructs containing regulatory region of polybromo

Aberrations (Deficiencies and Duplications) ( 1 )

Inferred from experimentation ( 1 )

Gene disrupted in

Df(3R)Exel6200

(Ryder, 2004.4.26)

Inferred from location ( 6 )

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 - all die during embryonic stage | maternal effect

polybromo^Δ86

viable

Sterility

Allele

female sterile

polybromo^Δ86

fertile

Other Phenotypes

Allele

enhancer of variegation | dominant, with In(1)w^m4

polybromo^Δ86

homeotic

polybromo^Δ86

some die during embryonic stage | maternal effect

polybromo^Δ86

visible | dominant

Phenotype manifest in

Allele

adult abdominal segment 5 | ectopic

polybromo^Δ86

adult abdominal segment 6

polybromo^Δ86

egg chorion

polybromo^Δ86

vitelline membrane

polybromo^Δ86

wing vein | ectopic

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) (29)

Hsap\PBRM1

14 of 14

Yes

2 of 14

2 of 14

2 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Model Organism Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Rattus norvegicus (Norway rat) (20)

Rnor\Pbrm1

14 of 14

Yes

2 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Mus musculus (laboratory mouse) (27)

Mmus\Pbrm1

13 of 14

Yes

Mmus\Baz1b

2 of 14

Yes

2 of 14

2 of 14

2 of 14

2 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Xenopus tropicalis (Western clawed frog) (15)

Xtro\pbrm1

8 of 13

Yes

Xtro\atad2b

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

Danio rerio (Zebrafish) (26)

Drer\pbrm1

14 of 14

Yes

Drer\pbrm1l

13 of 14

Yes

3 of 14

2 of 14

2 of 14

2 of 14

2 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Caenorhabditis elegans (Nematode, roundworm) (20)

Cele\pbrm-1

13 of 14

Yes

2 of 14

2 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Cele\hmg-5

1 of 14

Cele\lex-1

1 of 14

Yes

Cele\pcaf-1

1 of 14

Cele\sepa-1

1 of 14

Yes

Cele\swsn-4

1 of 14

Cele\taf-1

1 of 14

Cele\ZK1010.10

1 of 14

Yes

Anopheles gambiae (African malaria mosquito) (11)

Agam\AgaP_AGAP001099

12 of 12

Yes

2 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

Arabidopsis thaliana (thale-cress) (35)

Atha\AT1G17790

2 of 13

Yes

Atha\GTE2

2 of 13

Yes

Atha\GTE3

2 of 13

Yes

Atha\GTE4

2 of 13

Yes

Atha\GTE6

2 of 13

Yes

Atha\GTE8

2 of 13

Yes

Atha\IMB1

2 of 13

Yes

Atha\NPX1

2 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Atha\BT2

1 of 13

Yes

Atha\BT3

1 of 13

Atha\BT4

1 of 13

Yes

Atha\BT5

1 of 13

Yes

Atha\CMT1

1 of 13

Yes

Atha\CMT2

1 of 13

Yes

Atha\CMT3

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Saccharomyces cerevisiae (Brewer's yeast) (12)

Scer\RSC1

7 of 13

Yes

Scer\RSC2

7 of 13

Yes

Scer\RSC4

6 of 13

Yes

2 of 13

2 of 13

2 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Schizosaccharomyces pombe (Fission yeast) (9)

Spom\rsc1

6 of 12

Yes

Spom\rsc4

4 of 12

Yes

2 of 12

2 of 12

2 of 12

1 of 12

1 of 12

1 of 12

1 of 12

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:polybromo. 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) (16)

nej

2 of 13

Acf

1 of 13

ash1

1 of 13

Brd8

1 of 13

brm

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Lpt

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

tou

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 ( 1 )

Human Ortholog

Disease

Evidence

References

PBRM1; polybromo 1

model of nonpapillary renal cell carcinoma

IEA

(FlyBase, 2019-)

Modifiers Based on Experimental Evidence ( 1 )

Allele

Disease

Interaction

References

polybromo^HMS00531

ameliorates amyotrophic lateral sclerosis type 10

modeled by Hsap\TARDBP^{M.UAS.Tag:FLAG}

(Azpurua et al., 2021)

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?

PBRM1; polybromo 1

14 of 14

606083

RENAL CELL CARCINOMA, NONPAPILLARY; RCC

nonpapillary renal cell carcinoma

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

polybromo - BEAF-32

pull down, western blot, two hybrid, anti tag coimmunoprecipitation, Identification by mass spectrometry

(McKowen et al., 2022)

polybromo - Bap170

anti bait coimmunoprecipitation, western blot, ion exchange chromatography, molecular sieving

(Chalkley et al., 2008, Mohrmann et al., 2004)

polybromo - Bap60

ion exchange chromatography, molecular sieving, western blot, anti bait coimmunoprecipitation

(Kuhn et al., 2019, Vorobyeva et al., 2009)

polybromo - Brd7-9

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Barish et al., 2020)

polybromo - CG9890

anti bait coimmunoprecipitation, western blot

(Fursova et al., 2018)

polybromo - Elys

anti bait coimmunoprecipitation, western blot

(Kuhn et al., 2019)

polybromo - Rel

anti tag coimmunoprecipitation, anti tag western blot

(He et al., 2017)

polybromo - Sec13

anti bait coimmunoprecipitation, western blot

(Kuhn et al., 2019)

polybromo - Taf1

anti bait coimmunoprecipitation, western blot, ion exchange chromatography, molecular sieving

(Vorobyeva et al., 2009)

polybromo - Taf4

anti bait coimmunoprecipitation, western blot

(Vorobyeva et al., 2009)

polybromo - Taf5

anti bait coimmunoprecipitation, western blot

(Vorobyeva et al., 2009)

polybromo - Taf8

anti bait coimmunoprecipitation, western blot

(Vorobyeva et al., 2009)

polybromo - Taf9

ion exchange chromatography, molecular sieving, western blot, anti bait coimmunoprecipitation

(Vorobyeva et al., 2009)

polybromo - Tbp

ion exchange chromatography, molecular sieving, western blot

(Vorobyeva et al., 2009)

polybromo - Trl

anti bait coimmunoprecipitation, western blot, anti tag coimmunoprecipitation, peptide massfingerprinting

(Nakayama et al., 2012)

polybromo - brm

anti bait coimmunoprecipitation, western blot, peptide massfingerprinting, Identification by mass spectrometry, ion exchange chromatography, molecular sieving

(Tilly et al., 2021, Kuhn et al., 2019, Nakayama et al., 2012, Chalkley et al., 2008, Mohrmann et al., 2004)

polybromo - d4

anti tag coimmunoprecipitation, protein cross-linking with a bifunctional reagent, Identification by mass spectrometry

(Mashtalir et al., 2018)

polybromo - e(y)3

ion exchange chromatography, molecular sieving, western blot, anti bait coimmunoprecipitation, coimmunoprecipitation, anti tag coimmunoprecipitation, Identification by mass spectrometry

(Vorobyeva et al., 2009, Chalkley et al., 2008, Vorobyeva et al., 2008)

polybromo - mle

anti bait coimmunoprecipitation, western blot

(Nikolenko et al., 2021)

polybromo - mor

anti bait coimmunoprecipitation, western blot, ion exchange chromatography, molecular sieving, protein cross-linking with a bifunctional reagent, Identification by mass spectrometry

(Mashtalir et al., 2018, Vorobyeva et al., 2009, Chalkley et al., 2008, Mohrmann et al., 2004)

polybromo - osa

protein cross-linking with a bifunctional reagent, Identification by mass spectrometry

(Mashtalir et al., 2018)

Summary of Genetic Interactions

Interaction Browsers

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

Please look at the allele data for full details of the genetic interactions

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

polybromo

enhanceable

Su(var)3-3

(Curtis et al., 2011)

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Bap170

enhanceable

polybromo

(Chalkley et al., 2008)

e(y)3

enhanceable

Bap170|polybromo

(Chalkley et al., 2008)

suppressible

Bap170|polybromo

(Chalkley et al., 2008)

External Data

Linkouts

BioGRID - A database of protein and genetic interactions.

67879

DroID - A comprehensive database of gene and protein interactions.

FBgn0039227

MIST (protein-protein) - An integrated Molecular Interaction Database

42954

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

External Data

Linkouts

KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.

ATP-dependent chromatin remodeling

Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.

Class of Gene

nuclear_gene

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-85

Cytogenetic map

96A22-96A23

Sequence location

3R:24,799,967..24,805,259 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

96A22-96A23

Limits computationally determined from genome sequence between P{PZ}crb⁰⁷²⁰⁷&P{PZ}BRWD3⁰⁵⁸⁴² and P{EP}CycB3^EP3127

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

3-85

(FlyBase, 2016)

3-84.8

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (10)

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

Bloomington

63806

P{UAS-polybromo.C}1, w^*

55823

w^*; PBac{polybromo-GFP.FPTB}VK00037

20789

y¹ w^67c23; P{EPgy2}polybromo^EY14080

21443

y¹ w^67c23; P{EPgy2}polybromo^EY14730

80777

y¹ sc^* v¹ sev²¹; P{TOE.GS02745}attP40

32840

y¹ sc^* v¹ sev²¹; P{TRiP.HMS00531}attP2

63127

Bap170^Δ65; P{neoFRT}82B polybromo^Δ86/T(2;3)SM6a-TM6B, Tb¹

NIG-Fly

HMS00531

y¹ sc^* v¹ sev²¹; P{TRiP.HMS00531}attP2

VDRC

v330189

P{VSH330189}attP40

v108618

P{KK101808}VIE-260B

Genomic Clones (17)

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

cDNA Clones (55)

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

LD26355

Other clones

FI03643

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.

FBgn0039227

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0039227

Antibody Information

Laboratory Generated Antibodies

polyclonal

(Nakayama et al., 2012, Carrera et al., 2008, Mohrmann et al., 2004)

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

D.melanogaster contains two distinct brahma (BRM) complexes: the BAP complex, defined by the presence of osa protein and the absence of both polybromo and Bap170 proteins, and the PBAP complex, which contains the polybromo and Bap170 proteins but lacks the osa protein.

(Mohrmann et al., 2004)

Relationship to Other Genes

Source for database merge of

Source for merge of: baf180 anon-WO0140519.158

(FlyBase, 1996-)

Additional comments

Source for merge of baf180 anon-WO0140519.158 was sequence comparison ( date:051113 ).

(FlyBase, 1996-)

Nomenclature History

Source for database identify of

Source for identity of: polybromo CG11375

(Mohrmann et al., 2004)

Source for identity of: baf180 CG11375

(Carrera, 2005.3.2)

Nomenclature comments

Etymology

Synonyms and Secondary IDs (11)

Reported As

Symbol Synonym

BAF180

(Schuettengruber et al., 2011, Carrera and Treisman, 2005)

Bap180

(Tu et al., 2024, Stączek et al., 2023, Di Stefano et al., 2011, Rendina et al., 2010)

CG11375

(Meadows, 2017.1.11, Ni et al., 2010.12.1, Keleman et al., 2009.8.5, Mohrmann et al., 2004, Egger et al., 2002)

(Fursova et al., 2018, Waldholm et al., 2011, Vorobyeva et al., 2009, Vorobyeva et al., 2009, Soshnikova et al., 2008, Vorobyeva et al., 2008, Moshkin et al., 2007, Bouazoune and Brehm, 2006)

POLYBROMO

(Zraly and Dingwall, 2012)

(Waldholm et al., 2011)

Polybromo

(Cenik and Shilatifard, 2021, Tian and Smith-Bolton, 2021, Vidaurre and Chen, 2021, Onishi et al., 2020, Monribot-Villanueva et al., 2017, Song et al., 2017, Mazina et al., 2016, Mazina et al., 2016, Bonnay et al., 2014, Petruk et al., 2013, Clapier and Cairns, 2009, Soshnikova et al., 2008, Mohrmann et al., 2004)

anon-WO0140519.158

baf180

(Sessa and Bianchi, 2007, Carrera, 2005.3.2)

bap180

(He et al., 2017, Xie et al., 2017, He et al., 2014, Nowak et al., 2012, Kirilly et al., 2011, Carrera et al., 2008)

Name Synonyms

Polybromo

(Erokhin et al., 2021, Barish et al., 2020, Nakayama et al., 2012, Waldholm et al., 2011, Vorobyeva et al., 2009, Moshkin et al., 2007)

polybromo

(Bonnay et al., 2014, Mourikis et al., 2010, Carrera et al., 2008, Chalkley et al., 2008, Mohrmann et al., 2004)

Secondary FlyBase IDs

FBgn0044721

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 49 )

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.

42954

GenBank Nucleotide - A collection of sequences from several sources, including GenBank, RefSeq, TPA, and PDB.

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/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.

Q9VC36

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

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.

Q9VC36

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0039227

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

42954/tissue=All

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

FBgn0039227

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

FBgn0039227

FlyMine - An integrated database for Drosophila genomics

FBgn0039227

InterPro - A database of protein families, domains and functional sites

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

dme:Dmel_CG11375

MARRVEL_MODEL - MARRVEL (model organism gene)

42954

Linkouts

BioGRID - A database of protein and genetic interactions.

67879

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

FBgn0039227

DroID - A comprehensive database of gene and protein interactions.

FBgn0039227

DRSC - Results frm RNAi screens

FBgn0039227

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

polybromo_1

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0039227

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0039227

Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns

CG11375

Flygut - An atlas of the Drosophila adult midgut

FBgn0039227

FlyMet - A comprehensive tissue-specific metabolomics resource for Drosophila.

FBgn0039227

iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)

TC000618

Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution

Interactive Fly

KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.

ATP-dependent chromatin remodeling

MIST (protein-protein) - An integrated Molecular Interaction Database

42954

Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.

References (96)

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

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