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Gene Dmel\Bap60

General Information
Symbol	Dmel\Bap60	Species	D. melanogaster
Name	Brahma associated protein 60kD	Annotation symbol	CG4303
Feature type	protein_coding_gene	FlyBase ID	FBgn0025463
Gene Model Status	Current	Stock availability	6 publicly available
Genomic Location
Chromosome (arm)	X	Recombination map
Cytogenetic map	11E1-11E1	Sequence location	X:13,051,478..13,053,541 [-]
Genomic Maps Select View:Gene Models/EvidenceExpression/RegulationMegaViewGene Disruptions, Stocks and Reagents Beta	Decorated FastA GenBankGFF Gene region Extended Gene region CDSIntronsExonsTranslationsTranscripts3' UTR5' UTR
Summary Information
Automatically generated summary See sections below for more information	The gene Brahma associated protein 60kD is referred to in FlyBase by the symbol Dmel\Bap60 (CG4303, FBgn0025463). It is a protein_coding_gene from Drosophila melanogaster. There is experimental evidence that it has the molecular function: protein binding; RNA polymerase II transcription factor binding; DNA binding. There is experimental evidence that it is involved in the biological process: positive regulation of gene expression; dendrite morphogenesis; neuron development; positive regulation of heterochromatin assembly; muscle organ development; positive regulation of transcription, DNA-dependent. 10 alleles are reported. No phenotypic data is available. It has one annotated transcript and one annotated polypeptide. Protein features are: SWIB domain; SWIB/MDM2 domain. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of very high expression to a trough of moderate expression. Peak expression observed within 00-06 hour embryonic stages. Summary of FlyAtlas Anatomical Expression Data: Many larval and adult organs/tissues expressed at moderate levels. Expression at high levels in the following post-embryonic organs or tissues: larval central nervous system, adult ovary. Expression at moderate levels in the following post-embryonic organs or tissues: adult head, adult central nervous system, adult crop, larval/adult hindgut, larval/adult Malpighian tubules, adult heart, larval/adult fat body, larval/adult salivary gland, larval trachea, adult spermathecae, adult male accessory gland, larval/adult carcass. Comments on Affy2 ProbeSet: ProbeSet 1634157_at completely aligns to an exonic region of the only FlyBase-annotated transcript isoform of Bap60. Gene sequence location is X:13051478..13053541.
User Contributed Data
	Beta version, feedback welcome
Recent Updates
Description	What does this section display? This section contains items that were added to this record for each release. It currently only tracks new links between this FlyBase report and other FlyBase data classes (e.g. genes, references, stocks) or controlled vocabulary terms (e.g. GO, anatomy terms). What does this section not display? This section does not currently display links that were removed or gene model changes.
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FB2013_03
FB2013_02
All updates	Click here to see a list of all updates to this record from FB2010_08 and on.
Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map Evidence for location 11E1-11E1   Limits computationally determined from genome sequence between P{EP}EP1461 and P{EP}CG1640EP1626
Experimentally Determined Cytological Location
Cytogenetic map Notes References 11D5-11D10     (Papoulas, 1998.6.9) 11D5-11D10   (determined by in situ hybridisation)   (Papoulas et al., 1998)
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\Bap60 for information on other features To submit a correction to a gene model please use the Contact FlyBase form
Comments on Gene Model
	Gene model reviewed during 5.50
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) Bap60-RA FBtr0073741  NM_078588   1936   515
Additional Transcript Data & Comments
Reported size (kB)	2.018 (sequence analysis) (Papoulas et al., 1998)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kDa) Length (aa) Theoretical pI RefSeq ID GenBank protein Bap60-PA   FBpp0073572   58.2   515   9.84     NP_511143   AAF48235
Additional Polypeptide Data & Comments
Reported size (kDa)	515 (aa) (Papoulas et al., 1998)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • SWIB/MDM2 domain (IPR003121) SWIB domain (IPR019835)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AA202613   AA246682   AA246824   AA263383   AA263447   AA263484   AA390867   AA438463   AA438533   AA439932   AA440212   AA440285   AA441127   AA539818   AA539857   AA540283   AA816429   AA817030   AA817210   AA820918   AA820919   AA941167   AA941351   AA941692   AA941978   AA949027   AA949479   AA950240   AA950506   AA951582   AA979681   AE014298 AAF48235   AF071503 AAC28455   AI061703   AI135899   AI456646   AI456965   AI457016   AI511908   AI512245   AI512808   AI516134   AI516148   AI516281   AI516556   AI516609   AI519558   AI519826   AI520176   AI520190   AI520455   AI533912   AI542258   AW941701   AY069383 AAL39528   AY231861   AY431881   BG640401   BI142028   BI171995   BI173451   BI232584   BI235575   BI235711   BI236384   BI237379   BI237937   BI239480   BI239753   BI241189   BI243003   BI352021   BI352169   BI363929   BI364085   BI371441   BI578054   BI579716   BI618117   BI637223   BI638395   BI639390   BX069749   CA804532   CO269934   CO284043   EC199481   EC231735   EC231803   EL869751   GH750813   GH752497   GH752718   GH759774   GH759887   GH760579   GH761255   GH770403   GH774795   GH777413   GH786655   GH786721   GH789302   GH793028   GH797711   GH804978   GH805903   GH805914   GH807103   GH808467   GH811481   GH817736   GH820824   GH821587   GH828892   GH832912   GH833863   GH836341   GH839340   GH849141   GH852969   GH857461   GH864800   GH879469   GH879571   GH880573   GH883935   GH886152   GH891216   GH898762   GH899399   GH908849   GH909738   GH912119   GH914163   GH914969   GH917081   GH925286   GH928051   GH929755   GH929829   GH929983   GH934571   GH935113
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL	Q9VYG2 O76490
Mapped Features
Mapped Features have been reorganized, please see this article for details. Additional mapped features and mutations can be found on GBrowse or related reports. Type Symbol & Location Additional Notes References
External Data
Linkouts
Crossreferences
Expression Data
Transcript Expression
in situ Stage Tissue/Position (including subcellular localization) Reference embryonic stage 1 -- 3   organism   (Fisher et al., 2012) Comment:maternally deposited embryonic stage 4 -- 6   organism | ubiquitous   (Fisher et al., 2012) embryonic stage 7 -- 8   antennal anlage   (Fisher et al., 2012) Comment:reported as procephalic ectoderm anlage central brain anlage   (Fisher et al., 2012) Comment:reported as procephalic ectoderm anlage dorsal head epidermis anlage   (Fisher et al., 2012) Comment:reported as procephalic ectoderm anlage visual anlage   (Fisher et al., 2012) Comment:reported as procephalic ectoderm anlage anterior endoderm anlage   (Fisher et al., 2012) head mesoderm   (Fisher et al., 2012) hindgut anlage   (Fisher et al., 2012) organism | ubiquitous   (Fisher et al., 2012) posterior endoderm   (Fisher et al., 2012) trunk mesoderm   (Fisher et al., 2012) ventral ectoderm   (Fisher et al., 2012) embryonic stage 9 -- 10   head mesoderm   (Fisher et al., 2012) inclusive hindgut primordium   (Fisher et al., 2012) organism | ubiquitous   (Fisher et al., 2012) trunk mesoderm   (Fisher et al., 2012) embryonic stage 11 -- 12   anterior midgut primordium   (Fisher et al., 2012) central brain primordium   (Fisher et al., 2012) embryonic central brain glial cell   (Fisher et al., 2012) embryonic central brain neuron   (Fisher et al., 2012) hindgut proper primordium   (Fisher et al., 2012) organism | ubiquitous   (Fisher et al., 2012) posterior midgut primordium   (Fisher et al., 2012) procephalic neuroblast   (Fisher et al., 2012) ventral nerve cord primordium   (Fisher et al., 2012) embryonic stage 13 -- 16   embryonic brain   (Fisher et al., 2012) embryonic central brain neuron   (Fisher et al., 2012) embryonic hindgut   (Fisher et al., 2012) embryonic/larval lymph gland   (Fisher et al., 2012) embryonic/larval midgut   (Fisher et al., 2012) embryonic/larval nervous system   (Fisher et al., 2012) lateral cord neuron   (Fisher et al., 2012) ventral nerve cord   (Fisher et al., 2012)
Additional Descriptive Data
Marker for
Subcellular Localization
CV Term
Polypeptide Expression
mass spectroscopy Stage Tissue/Position (including subcellular localization) Reference day 5 of adulthood & male -- day 7 of adulthood & male   spermatozoon   (Wasbrough et al., 2010)
Additional Descriptive Data
Marker for
Subcellular Localization (GO Cellular Component)
CV term Evidence References
brahma complex inferred from direct assay (Kal et al., 2000) nucleus inferred from direct assay (Mohrmann et al., 2004)
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools
Reference	See Gelbart and Emmert, 2010.10.13 for analysis details and data files for all genes.
FlyAtlas Anatomy Microarray
FlyAtlas Anatomical Expression Data (FlyAtlas-RNA.adult) (FlyAtlas-RNA.larva)    Styles Linear Logarithmic Heatmap Back-to-back    Scales gene max expression Moderate expression bin max High level expression bin max Very high expression bin max Summary of FlyAtlas Anatomical Expression Data: Many larval and adult organs/tissues expressed at moderate levels. Expression at high levels in the following post-embryonic organs or tissues: larval central nervous system, adult ovary. Expression at moderate levels in the following post-embryonic organs or tissues: adult head, adult central nervous system, adult crop, larval/adult hindgut, larval/adult Malpighian tubules, adult heart, larval/adult fat body, larval/adult salivary gland, larval trachea, adult spermathecae, adult male accessory gland, larval/adult carcass. [download data (TSV)] Guide to FlyAtlas expression level colors   No expression (0 - 9.999)   Low expression (10 - 99.999)   Moderate expression (100 - 499.999)   High level expression (500 - 999.999)   Very high expression (>999.999) Linear, scaled to maximum expression level Tissue   Expression Level Larval Central Nervous System    636.25 Larval Midgut    94.5 Larval Hindgut    190.6 Larval Malpighian Tubules    203.1 Larval Fat Body    215.9 Larval Salivary Gland    350.1 Larval Trachea    298.75 Larval Carcass    219.425 Adult Head    136.9 Adult Eye    94.625 Adult Brain    221.8 Adult Thoracic-Abdominal Ganglion    164.6 Adult Crop    162.2 Adult Midgut    95.1 Adult Hindgut    184.5 Adult Malpighian Tubules    173.5 Adult Fat Body    103.1 Adult Salivary Gland    221.4 Adult Heart    108.325 Adult VirginFemale Spermatheca    126 Adult InseminatedFemale Spermatheca    124.1 Adult Ovary    525.2 Adult Testis    44.5 Adult Male Accessory Gland    284.6 Adult Carcass    103 Expression Level Scale  None   Low   Moderate   High  Linear, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System  (636.25) Larval Midgut    94.5 Larval Hindgut    190.6 Larval Malpighian Tubules    203.1 Larval Fat Body    215.9 Larval Salivary Gland    350.1 Larval Trachea    298.75 Larval Carcass    219.425 Adult Head    136.9 Adult Eye    94.625 Adult Brain    221.8 Adult Thoracic-Abdominal Ganglion    164.6 Adult Crop    162.2 Adult Midgut    95.1 Adult Hindgut    184.5 Adult Malpighian Tubules    173.5 Adult Fat Body    103.1 Adult Salivary Gland    221.4 Adult Heart    108.325 Adult VirginFemale Spermatheca    126 Adult InseminatedFemale Spermatheca    124.1 Adult Ovary  525.2 Adult Testis    44.5 Adult Male Accessory Gland    284.6 Adult Carcass    103 Expression Level Scale  None   Low   Moderate   High  Linear, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    636.25 Larval Midgut    94.5 Larval Hindgut    190.6 Larval Malpighian Tubules    203.1 Larval Fat Body    215.9 Larval Salivary Gland    350.1 Larval Trachea    298.75 Larval Carcass    219.425 Adult Head    136.9 Adult Eye    94.625 Adult Brain    221.8 Adult Thoracic-Abdominal Ganglion    164.6 Adult Crop    162.2 Adult Midgut    95.1 Adult Hindgut    184.5 Adult Malpighian Tubules    173.5 Adult Fat Body    103.1 Adult Salivary Gland    221.4 Adult Heart    108.325 Adult VirginFemale Spermatheca    126 Adult InseminatedFemale Spermatheca    124.1 Adult Ovary    525.2 Adult Testis    44.5 Adult Male Accessory Gland    284.6 Adult Carcass    103 Expression Level Scale  None   Low   Moderate   High   Very high  Linear, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    636.25 Larval Midgut    94.5 Larval Hindgut    190.6 Larval Malpighian Tubules    203.1 Larval Fat Body    215.9 Larval Salivary Gland    350.1 Larval Trachea    298.75 Larval Carcass    219.425 Adult Head    136.9 Adult Eye    94.625 Adult Brain    221.8 Adult Thoracic-Abdominal Ganglion    164.6 Adult Crop    162.2 Adult Midgut    95.1 Adult Hindgut    184.5 Adult Malpighian Tubules    173.5 Adult Fat Body    103.1 Adult Salivary Gland    221.4 Adult Heart    108.325 Adult VirginFemale Spermatheca    126 Adult InseminatedFemale Spermatheca    124.1 Adult Ovary    525.2 Adult Testis    44.5 Adult Male Accessory Gland    284.6 Adult Carcass    103 Expression Level Scale  Very high  log, scaled to maximum expression level Tissue   Expression Level Larval Central Nervous System    636.25 Larval Midgut    94.5 Larval Hindgut    190.6 Larval Malpighian Tubules    203.1 Larval Fat Body    215.9 Larval Salivary Gland    350.1 Larval Trachea    298.75 Larval Carcass    219.425 Adult Head    136.9 Adult Eye    94.625 Adult Brain    221.8 Adult Thoracic-Abdominal Ganglion    164.6 Adult Crop    162.2 Adult Midgut    95.1 Adult Hindgut    184.5 Adult Malpighian Tubules    173.5 Adult Fat Body    103.1 Adult Salivary Gland    221.4 Adult Heart    108.325 Adult VirginFemale Spermatheca    126 Adult InseminatedFemale Spermatheca    124.1 Adult Ovary    525.2 Adult Testis    44.5 Adult Male Accessory Gland    284.6 Adult Carcass    103 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System  636.25 Larval Midgut    94.5 Larval Hindgut    190.6 Larval Malpighian Tubules    203.1 Larval Fat Body    215.9 Larval Salivary Gland    350.1 Larval Trachea    298.75 Larval Carcass    219.425 Adult Head    136.9 Adult Eye    94.625 Adult Brain    221.8 Adult Thoracic-Abdominal Ganglion    164.6 Adult Crop    162.2 Adult Midgut    95.1 Adult Hindgut    184.5 Adult Malpighian Tubules    173.5 Adult Fat Body    103.1 Adult Salivary Gland    221.4 Adult Heart    108.325 Adult VirginFemale Spermatheca    126 Adult InseminatedFemale Spermatheca    124.1 Adult Ovary  525.2 Adult Testis    44.5 Adult Male Accessory Gland    284.6 Adult Carcass    103 Expression Level Scale  None   Low   Moderate   High  log, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    636.25 Larval Midgut    94.5 Larval Hindgut    190.6 Larval Malpighian Tubules    203.1 Larval Fat Body    215.9 Larval Salivary Gland    350.1 Larval Trachea    298.75 Larval Carcass    219.425 Adult Head    136.9 Adult Eye    94.625 Adult Brain    221.8 Adult Thoracic-Abdominal Ganglion    164.6 Adult Crop    162.2 Adult Midgut    95.1 Adult Hindgut    184.5 Adult Malpighian Tubules    173.5 Adult Fat Body    103.1 Adult Salivary Gland    221.4 Adult Heart    108.325 Adult VirginFemale Spermatheca    126 Adult InseminatedFemale Spermatheca    124.1 Adult Ovary    525.2 Adult Testis    44.5 Adult Male Accessory Gland    284.6 Adult Carcass    103 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    636.25 Larval Midgut    94.5 Larval Hindgut    190.6 Larval Malpighian Tubules    203.1 Larval Fat Body    215.9 Larval Salivary Gland    350.1 Larval Trachea    298.75 Larval Carcass    219.425 Adult Head    136.9 Adult Eye    94.625 Adult Brain    221.8 Adult Thoracic-Abdominal Ganglion    164.6 Adult Crop    162.2 Adult Midgut    95.1 Adult Hindgut    184.5 Adult Malpighian Tubules    173.5 Adult Fat Body    103.1 Adult Salivary Gland    221.4 Adult Heart    108.325 Adult VirginFemale Spermatheca    126 Adult InseminatedFemale Spermatheca    124.1 Adult Ovary    525.2 Adult Testis    44.5 Adult Male Accessory Gland    284.6 Adult Carcass    103 Expression Level Scale  None   Low   Moderate   High   Very high  Heatmap Tissue   Expression Level Larval Central Nervous System     Larval Midgut     Larval Hindgut     Larval Malpighian Tubules     Larval Fat Body     Larval Salivary Gland     Larval Trachea     Larval Carcass     Adult Head     Adult Eye     Adult Brain     Adult Thoracic-Abdominal Ganglion     Adult Crop     Adult Midgut     Adult Hindgut     Adult Malpighian Tubules     Adult Fat Body     Adult Salivary Gland     Adult Heart     Adult VirginFemale Spermatheca     Adult InseminatedFemale Spermatheca     Adult Ovary     Adult Testis     Adult Male Accessory Gland     Adult Carcass     FlyAtlas Organ/Tissue Expression, larval vs. adult Larval Expression Level Tissue Adult Expression Level   NA  Head    136.9   NA  Eye    94.625   NA  Brain    221.8   636.25  Central Nervous System    NA   NA  Thoracic-Abdominal Ganglion    164.6   NA  Crop    162.2   94.5  Midgut    95.1   190.6  Hindgut    184.5   203.1  Malpighian Tubules    173.5   215.9  Fat Body    103.1   350.1  Salivary Gland    221.4   NA  Heart    108.325   298.75  Trachea    NA   NA  VirginFemale Spermatheca    126   NA  InseminatedFemale Spermatheca    124.1   NA  Ovary    525.2   NA  Testis    44.5   NA  Male Accessory Gland    284.6   219.425  Carcass    103 FlyAtlas Anatomical Expression Data (Chintapalli et al., 2007)
modENCODE Anatomy RNA-Seq
modENCODE Tissue Expression Data (modENCODE_mRNA-Seq_tissues)    Styles Linear Logarithmic Heatmap    Scales gene max expression Moderate expression bin max High expression bin max Extremely high expression bin max [download data (TSV)] Guide to modENCODE expression level colors   No/Extremely low expression (0 - 0)   Very low expression (1 - 3)   Low expression (4 - 10)   Moderate expression (11 - 25)   Moderately high expression (26 - 50)   High expression (51 - 100)   Very high expression (101 - 1000)   Extremely high expression (>1000) Linear, scaled to maximum expression level Tissue   Expression Level imaginal disc, larvae L3 wandering    42 central nervous system, larvae L3    53 central nervous system, pupae P8    15 head, virgin 1-day female    6 head, virgin 4-day female    9 head, virgin 20-day female    9 head, mated 1-day female    6 head, mated 4-day female    8 head, mated 20-day female    8 head, mated 1-day male    8 head, mated 4-day male    10 head, mated 20-day male    9 salivary gland, larvae L3 wandering    6 salivary gland, white prepupae    15 digestive system, larvae L3 wandering    12 digestive system, 1-day adult    8 digestive system, 4-day adult    11 digestive system, 20-day adult    7 fat body, larvae L3 wandering    8 fat body, white prepupae    13 fat body, pupae P8    19 carcass, larvae L3 wandering    38 carcass, 1-day adult    5 carcass, 4-day adult    9 carcass, 20-day adult    8 ovary, virgin 4-day female    67 ovary, mated 4-day female    56 testis, mated 4-day male    9 accessory gland, mated 4-day male    10 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  Linear, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering  (42) central nervous system, larvae L3  (53) central nervous system, pupae P8    15 head, virgin 1-day female    6 head, virgin 4-day female    9 head, virgin 20-day female    9 head, mated 1-day female    6 head, mated 4-day female    8 head, mated 20-day female    8 head, mated 1-day male    8 head, mated 4-day male    10 head, mated 20-day male    9 salivary gland, larvae L3 wandering    6 salivary gland, white prepupae    15 digestive system, larvae L3 wandering    12 digestive system, 1-day adult    8 digestive system, 4-day adult    11 digestive system, 20-day adult    7 fat body, larvae L3 wandering    8 fat body, white prepupae    13 fat body, pupae P8    19 carcass, larvae L3 wandering  (38) carcass, 1-day adult    5 carcass, 4-day adult    9 carcass, 20-day adult    8 ovary, virgin 4-day female  (67) ovary, mated 4-day female  (56) testis, mated 4-day male    9 accessory gland, mated 4-day male    10 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    42 central nervous system, larvae L3    53 central nervous system, pupae P8    15 head, virgin 1-day female    6 head, virgin 4-day female    9 head, virgin 20-day female    9 head, mated 1-day female    6 head, mated 4-day female    8 head, mated 20-day female    8 head, mated 1-day male    8 head, mated 4-day male    10 head, mated 20-day male    9 salivary gland, larvae L3 wandering    6 salivary gland, white prepupae    15 digestive system, larvae L3 wandering    12 digestive system, 1-day adult    8 digestive system, 4-day adult    11 digestive system, 20-day adult    7 fat body, larvae L3 wandering    8 fat body, white prepupae    13 fat body, pupae P8    19 carcass, larvae L3 wandering    38 carcass, 1-day adult    5 carcass, 4-day adult    9 carcass, 20-day adult    8 ovary, virgin 4-day female    67 ovary, mated 4-day female    56 testis, mated 4-day male    9 accessory gland, mated 4-day male    10 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Extremely high expression Tissue   Expression Level imaginal disc, larvae L3 wandering    42 central nervous system, larvae L3    53 central nervous system, pupae P8    15 head, virgin 1-day female    6 head, virgin 4-day female    9 head, virgin 20-day female    9 head, mated 1-day female    6 head, mated 4-day female    8 head, mated 20-day female    8 head, mated 1-day male    8 head, mated 4-day male    10 head, mated 20-day male    9 salivary gland, larvae L3 wandering    6 salivary gland, white prepupae    15 digestive system, larvae L3 wandering    12 digestive system, 1-day adult    8 digestive system, 4-day adult    11 digestive system, 20-day adult    7 fat body, larvae L3 wandering    8 fat body, white prepupae    13 fat body, pupae P8    19 carcass, larvae L3 wandering    38 carcass, 1-day adult    5 carcass, 4-day adult    9 carcass, 20-day adult    8 ovary, virgin 4-day female    67 ovary, mated 4-day female    56 testis, mated 4-day male    9 accessory gland, mated 4-day male    10 Expression Level Scale  Extremely high  log, scaled to maximum expression level Tissue   Expression Level imaginal disc, larvae L3 wandering    42 central nervous system, larvae L3    53 central nervous system, pupae P8    15 head, virgin 1-day female    6 head, virgin 4-day female    9 head, virgin 20-day female    9 head, mated 1-day female    6 head, mated 4-day female    8 head, mated 20-day female    8 head, mated 1-day male    8 head, mated 4-day male    10 head, mated 20-day male    9 salivary gland, larvae L3 wandering    6 salivary gland, white prepupae    15 digestive system, larvae L3 wandering    12 digestive system, 1-day adult    8 digestive system, 4-day adult    11 digestive system, 20-day adult    7 fat body, larvae L3 wandering    8 fat body, white prepupae    13 fat body, pupae P8    19 carcass, larvae L3 wandering    38 carcass, 1-day adult    5 carcass, 4-day adult    9 carcass, 20-day adult    8 ovary, virgin 4-day female    67 ovary, mated 4-day female    56 testis, mated 4-day male    9 accessory gland, mated 4-day male    10 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering  (42) central nervous system, larvae L3  (53) central nervous system, pupae P8    15 head, virgin 1-day female    6 head, virgin 4-day female    9 head, virgin 20-day female    9 head, mated 1-day female    6 head, mated 4-day female    8 head, mated 20-day female    8 head, mated 1-day male    8 head, mated 4-day male    10 head, mated 20-day male    9 salivary gland, larvae L3 wandering    6 salivary gland, white prepupae    15 digestive system, larvae L3 wandering    12 digestive system, 1-day adult    8 digestive system, 4-day adult    11 digestive system, 20-day adult    7 fat body, larvae L3 wandering    8 fat body, white prepupae    13 fat body, pupae P8    19 carcass, larvae L3 wandering  (38) carcass, 1-day adult    5 carcass, 4-day adult    9 carcass, 20-day adult    8 ovary, virgin 4-day female  (67) ovary, mated 4-day female  (56) testis, mated 4-day male    9 accessory gland, mated 4-day male    10 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    42 central nervous system, larvae L3    53 central nervous system, pupae P8    15 head, virgin 1-day female    6 head, virgin 4-day female    9 head, virgin 20-day female    9 head, mated 1-day female    6 head, mated 4-day female    8 head, mated 20-day female    8 head, mated 1-day male    8 head, mated 4-day male    10 head, mated 20-day male    9 salivary gland, larvae L3 wandering    6 salivary gland, white prepupae    15 digestive system, larvae L3 wandering    12 digestive system, 1-day adult    8 digestive system, 4-day adult    11 digestive system, 20-day adult    7 fat body, larvae L3 wandering    8 fat body, white prepupae    13 fat body, pupae P8    19 carcass, larvae L3 wandering    38 carcass, 1-day adult    5 carcass, 4-day adult    9 carcass, 20-day adult    8 ovary, virgin 4-day female    67 ovary, mated 4-day female    56 testis, mated 4-day male    9 accessory gland, mated 4-day male    10 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Extremely high expression Tissue   Expression Level imaginal disc, larvae L3 wandering    42 central nervous system, larvae L3    53 central nervous system, pupae P8    15 head, virgin 1-day female    6 head, virgin 4-day female    9 head, virgin 20-day female    9 head, mated 1-day female    6 head, mated 4-day female    8 head, mated 20-day female    8 head, mated 1-day male    8 head, mated 4-day male    10 head, mated 20-day male    9 salivary gland, larvae L3 wandering    6 salivary gland, white prepupae    15 digestive system, larvae L3 wandering    12 digestive system, 1-day adult    8 digestive system, 4-day adult    11 digestive system, 20-day adult    7 fat body, larvae L3 wandering    8 fat body, white prepupae    13 fat body, pupae P8    19 carcass, larvae L3 wandering    38 carcass, 1-day adult    5 carcass, 4-day adult    9 carcass, 20-day adult    8 ovary, virgin 4-day female    67 ovary, mated 4-day female    56 testis, mated 4-day male    9 accessory gland, mated 4-day male    10 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  Heatmap Tissue   Expression Level imaginal disc, larvae L3 wandering     central nervous system, larvae L3     central nervous system, pupae P8     head, virgin 1-day female     head, virgin 4-day female     head, virgin 20-day female     head, mated 1-day female     head, mated 4-day female     head, mated 20-day female     head, mated 1-day male     head, mated 4-day male     head, mated 20-day male     salivary gland, larvae L3 wandering     salivary gland, white prepupae     digestive system, larvae L3 wandering     digestive system, 1-day adult     digestive system, 4-day adult     digestive system, 20-day adult     fat body, larvae L3 wandering     fat body, white prepupae     fat body, pupae P8     carcass, larvae L3 wandering     carcass, 1-day adult     carcass, 4-day adult     carcass, 20-day adult     ovary, virgin 4-day female     ovary, mated 4-day female     testis, mated 4-day male     accessory gland, mated 4-day male
modENCODE Development RNA-Seq
modENCODE Temporal Expression Data (modENCODE_mRNA-Seq_U)    Styles Linear Logarithmic Heatmap    Scales gene max expression Moderate expression bin max High expression bin max Extremely high expression bin max Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of very high expression to a trough of moderate expression. Peak expression observed within 00-06 hour embryonic stages. [download data (TSV)] Guide to modENCODE expression level colors   No/Extremely low expression (0 - 0)   Very low expression (1 - 3)   Low expression (4 - 10)   Moderate expression (11 - 25)   Moderately high expression (26 - 50)   High expression (51 - 100)   Very high expression (101 - 1000)   Extremely high expression (>1000) Linear, scaled to maximum expression level Developmental Stage   Expression Level embryo 00-02hr    148 embryo 02-04hr    211 embryo 04-06hr    148 embryo 06-08hr    120 embryo 08-10hr    105 embryo 10-12hr    96 embryo 12-14hr    62 embryo 14-16hr    63 embryo 16-18hr    44 embryo 18-20hr    25 embryo 20-22hr    39 embryo 22-24hr    38 larva L1    16 larva L2    18 larva L3 12hr old    13 larva L3 puffstage 1-2    25 larva L3 puffstage 3-6    37 larva L3 puffstage 7-9    44 white prepupae new    42 white prepupae 12hr    49 white prepupae 24hr    53 pupae 2d postWPP    27 pupae 3d postWPP    11 pupae 4d postWPP    9 adult male 01day    11 adult male 05day    13 adult male 30day    12 adult female 01day    37 adult female 05day    68 adult female 30day    74 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr  (148) embryo 02-04hr  (211) embryo 04-06hr  (148) embryo 06-08hr  (120) embryo 08-10hr  (105) embryo 10-12hr  (96) embryo 12-14hr  (62) embryo 14-16hr  (63) embryo 16-18hr  (44) embryo 18-20hr    25 embryo 20-22hr  (39) embryo 22-24hr  (38) larva L1    16 larva L2    18 larva L3 12hr old    13 larva L3 puffstage 1-2    25 larva L3 puffstage 3-6  (37) larva L3 puffstage 7-9  (44) white prepupae new  (42) white prepupae 12hr  (49) white prepupae 24hr  (53) pupae 2d postWPP  (27) pupae 3d postWPP    11 pupae 4d postWPP    9 adult male 01day    11 adult male 05day    13 adult male 30day    12 adult female 01day  (37) adult female 05day  (68) adult female 30day  (74) Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr  (148) embryo 02-04hr  (211) embryo 04-06hr  (148) embryo 06-08hr  (120) embryo 08-10hr  105 embryo 10-12hr    96 embryo 12-14hr    62 embryo 14-16hr    63 embryo 16-18hr    44 embryo 18-20hr    25 embryo 20-22hr    39 embryo 22-24hr    38 larva L1    16 larva L2    18 larva L3 12hr old    13 larva L3 puffstage 1-2    25 larva L3 puffstage 3-6    37 larva L3 puffstage 7-9    44 white prepupae new    42 white prepupae 12hr    49 white prepupae 24hr    53 pupae 2d postWPP    27 pupae 3d postWPP    11 pupae 4d postWPP    9 adult male 01day    11 adult male 05day    13 adult male 30day    12 adult female 01day    37 adult female 05day    68 adult female 30day    74 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Extremely high expression Developmental Stage   Expression Level embryo 00-02hr    148 embryo 02-04hr    211 embryo 04-06hr    148 embryo 06-08hr    120 embryo 08-10hr    105 embryo 10-12hr    96 embryo 12-14hr    62 embryo 14-16hr    63 embryo 16-18hr    44 embryo 18-20hr    25 embryo 20-22hr    39 embryo 22-24hr    38 larva L1    16 larva L2    18 larva L3 12hr old    13 larva L3 puffstage 1-2    25 larva L3 puffstage 3-6    37 larva L3 puffstage 7-9    44 white prepupae new    42 white prepupae 12hr    49 white prepupae 24hr    53 pupae 2d postWPP    27 pupae 3d postWPP    11 pupae 4d postWPP    9 adult male 01day    11 adult male 05day    13 adult male 30day    12 adult female 01day    37 adult female 05day    68 adult female 30day    74 Expression Level Scale  Extremely high  log, scaled to maximum expression level Developmental Stage   Expression Level embryo 00-02hr    148 embryo 02-04hr    211 embryo 04-06hr    148 embryo 06-08hr    120 embryo 08-10hr    105 embryo 10-12hr    96 embryo 12-14hr    62 embryo 14-16hr    63 embryo 16-18hr    44 embryo 18-20hr    25 embryo 20-22hr    39 embryo 22-24hr    38 larva L1    16 larva L2    18 larva L3 12hr old    13 larva L3 puffstage 1-2    25 larva L3 puffstage 3-6    37 larva L3 puffstage 7-9    44 white prepupae new    42 white prepupae 12hr    49 white prepupae 24hr    53 pupae 2d postWPP    27 pupae 3d postWPP    11 pupae 4d postWPP    9 adult male 01day    11 adult male 05day    13 adult male 30day    12 adult female 01day    37 adult female 05day    68 adult female 30day    74 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr  (148) embryo 02-04hr  (211) embryo 04-06hr  (148) embryo 06-08hr  (120) embryo 08-10hr  (105) embryo 10-12hr  (96) embryo 12-14hr  (62) embryo 14-16hr  (63) embryo 16-18hr  (44) embryo 18-20hr    25 embryo 20-22hr  (39) embryo 22-24hr  (38) larva L1    16 larva L2    18 larva L3 12hr old    13 larva L3 puffstage 1-2    25 larva L3 puffstage 3-6  (37) larva L3 puffstage 7-9  (44) white prepupae new  (42) white prepupae 12hr  (49) white prepupae 24hr  (53) pupae 2d postWPP  27 pupae 3d postWPP    11 pupae 4d postWPP    9 adult male 01day    11 adult male 05day    13 adult male 30day    12 adult female 01day  (37) adult female 05day  (68) adult female 30day  (74) Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr  (148) embryo 02-04hr  (211) embryo 04-06hr  (148) embryo 06-08hr  120 embryo 08-10hr  105 embryo 10-12hr    96 embryo 12-14hr    62 embryo 14-16hr    63 embryo 16-18hr    44 embryo 18-20hr    25 embryo 20-22hr    39 embryo 22-24hr    38 larva L1    16 larva L2    18 larva L3 12hr old    13 larva L3 puffstage 1-2    25 larva L3 puffstage 3-6    37 larva L3 puffstage 7-9    44 white prepupae new    42 white prepupae 12hr    49 white prepupae 24hr    53 pupae 2d postWPP    27 pupae 3d postWPP    11 pupae 4d postWPP    9 adult male 01day    11 adult male 05day    13 adult male 30day    12 adult female 01day    37 adult female 05day    68 adult female 30day    74 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Extremely high expression Developmental Stage   Expression Level embryo 00-02hr    148 embryo 02-04hr    211 embryo 04-06hr    148 embryo 06-08hr    120 embryo 08-10hr    105 embryo 10-12hr    96 embryo 12-14hr    62 embryo 14-16hr    63 embryo 16-18hr    44 embryo 18-20hr    25 embryo 20-22hr    39 embryo 22-24hr    38 larva L1    16 larva L2    18 larva L3 12hr old    13 larva L3 puffstage 1-2    25 larva L3 puffstage 3-6    37 larva L3 puffstage 7-9    44 white prepupae new    42 white prepupae 12hr    49 white prepupae 24hr    53 pupae 2d postWPP    27 pupae 3d postWPP    11 pupae 4d postWPP    9 adult male 01day    11 adult male 05day    13 adult male 30day    12 adult female 01day    37 adult female 05day    68 adult female 30day    74 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  Heatmap Developmental Stage   Expression Level embryo 00-02hr     embryo 02-04hr     embryo 04-06hr     embryo 06-08hr     embryo 08-10hr     embryo 10-12hr     embryo 12-14hr     embryo 14-16hr     embryo 16-18hr     embryo 18-20hr     embryo 20-22hr     embryo 22-24hr     larva L1     larva L2     larva L3 12hr old     larva L3 puffstage 1-2     larva L3 puffstage 3-6     larva L3 puffstage 7-9     white prepupae new     white prepupae 12hr     white prepupae 24hr     pupae 2d postWPP     pupae 3d postWPP     pupae 4d postWPP     adult male 01day     adult male 05day     adult male 30day     adult female 01day     adult female 05day     adult female 30day     modENCODE Temporal Expression Data (Graveley et al., 2011)
modENCODE Cell Lines RNA-Seq
modENCODE Cell Line Expression Data (modENCODE_mRNA-Seq_cell.A) (modENCODE_mRNA-Seq_cell.B)    Styles Linear Logarithmic Heatmap    Scales gene max expression Moderate expression bin max High expression bin max Extremely high expression bin max [download data (TSV)] Guide to modENCODE expression level colors   No/Extremely low expression (0 - 0)   Very low expression (1 - 3)   Low expression (4 - 10)   Moderate expression (11 - 25)   Moderately high expression (26 - 50)   High expression (51 - 100)   Very high expression (101 - 1000)   Extremely high expression (>1000) Linear, scaled to maximum expression level Cell Line   Expression Level Schneider line 2 S2R+    47 Schneider line 2 Sg4    51 embryonic 1182-4H    42 embryonic GM2    35 embryonic Kc167    48 embryonic S1    52 embryonic S3    36 leg disc CME L1    48 wing disc CME-W2    36 wing disc ML-DmD8    49 wing disc ML-DmD9    48 wing disc ML-DmD16-c3    34 wing disc ML-DmD21    80 wing disc ML-DmD32    43 haltere disc ML-DmD17-c3    34 eye-antennal disc ML-DmD11    42 antennal disc ML-DmD20-c5    42 mixed discs ML-DmD4-c1    50 CNS ML-DmBG1-c1    47 CNS ML-DmBG2-c2    49 tumorous blood cells mbn2    24 ovary fGS/OSS    47 ovary OSC    47 ovary OSS    21 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  Linear, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+  (47) Schneider line 2 Sg4  (51) embryonic 1182-4H  (42) embryonic GM2  (35) embryonic Kc167  (48) embryonic S1  (52) embryonic S3  (36) leg disc CME L1  (48) wing disc CME-W2  (36) wing disc ML-DmD8  (49) wing disc ML-DmD9  (48) wing disc ML-DmD16-c3  (34) wing disc ML-DmD21  (80) wing disc ML-DmD32  (43) haltere disc ML-DmD17-c3  (34) eye-antennal disc ML-DmD11  (42) antennal disc ML-DmD20-c5  (42) mixed discs ML-DmD4-c1  (50) CNS ML-DmBG1-c1  (47) CNS ML-DmBG2-c2  (49) tumorous blood cells mbn2    24 ovary fGS/OSS  (47) ovary OSC  (47) ovary OSS    21 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    47 Schneider line 2 Sg4    51 embryonic 1182-4H    42 embryonic GM2    35 embryonic Kc167    48 embryonic S1    52 embryonic S3    36 leg disc CME L1    48 wing disc CME-W2    36 wing disc ML-DmD8    49 wing disc ML-DmD9    48 wing disc ML-DmD16-c3    34 wing disc ML-DmD21    80 wing disc ML-DmD32    43 haltere disc ML-DmD17-c3    34 eye-antennal disc ML-DmD11    42 antennal disc ML-DmD20-c5    42 mixed discs ML-DmD4-c1    50 CNS ML-DmBG1-c1    47 CNS ML-DmBG2-c2    49 tumorous blood cells mbn2    24 ovary fGS/OSS    47 ovary OSC    47 ovary OSS    21 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Extremely high expression Cell Line   Expression Level Schneider line 2 S2R+    47 Schneider line 2 Sg4    51 embryonic 1182-4H    42 embryonic GM2    35 embryonic Kc167    48 embryonic S1    52 embryonic S3    36 leg disc CME L1    48 wing disc CME-W2    36 wing disc ML-DmD8    49 wing disc ML-DmD9    48 wing disc ML-DmD16-c3    34 wing disc ML-DmD21    80 wing disc ML-DmD32    43 haltere disc ML-DmD17-c3    34 eye-antennal disc ML-DmD11    42 antennal disc ML-DmD20-c5    42 mixed discs ML-DmD4-c1    50 CNS ML-DmBG1-c1    47 CNS ML-DmBG2-c2    49 tumorous blood cells mbn2    24 ovary fGS/OSS    47 ovary OSC    47 ovary OSS    21 Expression Level Scale  Extremely high  log, scaled to maximum expression level Cell Line   Expression Level Schneider line 2 S2R+    47 Schneider line 2 Sg4    51 embryonic 1182-4H    42 embryonic GM2    35 embryonic Kc167    48 embryonic S1    52 embryonic S3    36 leg disc CME L1    48 wing disc CME-W2    36 wing disc ML-DmD8    49 wing disc ML-DmD9    48 wing disc ML-DmD16-c3    34 wing disc ML-DmD21    80 wing disc ML-DmD32    43 haltere disc ML-DmD17-c3    34 eye-antennal disc ML-DmD11    42 antennal disc ML-DmD20-c5    42 mixed discs ML-DmD4-c1    50 CNS ML-DmBG1-c1    47 CNS ML-DmBG2-c2    49 tumorous blood cells mbn2    24 ovary fGS/OSS    47 ovary OSC    47 ovary OSS    21 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+  (47) Schneider line 2 Sg4  (51) embryonic 1182-4H  (42) embryonic GM2  (35) embryonic Kc167  (48) embryonic S1  (52) embryonic S3  (36) leg disc CME L1  (48) wing disc CME-W2  (36) wing disc ML-DmD8  (49) wing disc ML-DmD9  (48) wing disc ML-DmD16-c3  (34) wing disc ML-DmD21  (80) wing disc ML-DmD32  (43) haltere disc ML-DmD17-c3  (34) eye-antennal disc ML-DmD11  (42) antennal disc ML-DmD20-c5  (42) mixed discs ML-DmD4-c1  (50) CNS ML-DmBG1-c1  (47) CNS ML-DmBG2-c2  (49) tumorous blood cells mbn2    24 ovary fGS/OSS  (47) ovary OSC  (47) ovary OSS    21 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    47 Schneider line 2 Sg4    51 embryonic 1182-4H    42 embryonic GM2    35 embryonic Kc167    48 embryonic S1    52 embryonic S3    36 leg disc CME L1    48 wing disc CME-W2    36 wing disc ML-DmD8    49 wing disc ML-DmD9    48 wing disc ML-DmD16-c3    34 wing disc ML-DmD21    80 wing disc ML-DmD32    43 haltere disc ML-DmD17-c3    34 eye-antennal disc ML-DmD11    42 antennal disc ML-DmD20-c5    42 mixed discs ML-DmD4-c1    50 CNS ML-DmBG1-c1    47 CNS ML-DmBG2-c2    49 tumorous blood cells mbn2    24 ovary fGS/OSS    47 ovary OSC    47 ovary OSS    21 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Extremely high expression Cell Line   Expression Level Schneider line 2 S2R+    47 Schneider line 2 Sg4    51 embryonic 1182-4H    42 embryonic GM2    35 embryonic Kc167    48 embryonic S1    52 embryonic S3    36 leg disc CME L1    48 wing disc CME-W2    36 wing disc ML-DmD8    49 wing disc ML-DmD9    48 wing disc ML-DmD16-c3    34 wing disc ML-DmD21    80 wing disc ML-DmD32    43 haltere disc ML-DmD17-c3    34 eye-antennal disc ML-DmD11    42 antennal disc ML-DmD20-c5    42 mixed discs ML-DmD4-c1    50 CNS ML-DmBG1-c1    47 CNS ML-DmBG2-c2    49 tumorous blood cells mbn2    24 ovary fGS/OSS    47 ovary OSC    47 ovary OSS    21 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  Heatmap Cell Line   Expression Level Schneider line 2 S2R+     Schneider line 2 Sg4     embryonic 1182-4H     embryonic GM2     embryonic Kc167     embryonic S1     embryonic S3     leg disc CME L1     wing disc CME-W2     wing disc ML-DmD8     wing disc ML-DmD9     wing disc ML-DmD16-c3     wing disc ML-DmD21     wing disc ML-DmD32     haltere disc ML-DmD17-c3     eye-antennal disc ML-DmD11     antennal disc ML-DmD20-c5     mixed discs ML-DmD4-c1     CNS ML-DmBG1-c1     CNS ML-DmBG2-c2     tumorous blood cells mbn2     ovary fGS/OSS     ovary OSC     ovary OSS
modENCODE Treatments RNA-Seq
modENCODE Treatment Expression Data (modENCODE_mRNA-Seq_treatments)    Styles Linear Logarithmic Heatmap    Scales gene max expression Moderate expression bin max High expression bin max Extremely high expression bin max [download data (TSV)] Guide to modENCODE expression level colors   No/Extremely low expression (0 - 0)   Very low expression (1 - 3)   Low expression (4 - 10)   Moderate expression (11 - 25)   Moderately high expression (26 - 50)   High expression (51 - 100)   Very high expression (101 - 1000)   Extremely high expression (>1000) Linear, scaled to maximum expression level Treatment   Expression Level extended cold, 4-day adult    12 cold shock, 4-day adult    10 heat shock, 4-day adult    22 Cadmium 50 mM 6 hrs, larvae L3    14 Cadmium 50 mM 12 hrs, larvae L3    17 Cadmium 50 mM 48 hrs, 4-day adult    21 Cadmium 100 mM 48 hrs, 4-day adult    42 Copper 0.5 mM 12 hrs, larvae L3    7 Copper 15 mM 48 hrs, 4-day adult    34 Zinc 5 mM 12 hrs, larvae L3    7 Zinc 4.5 mM 48 hrs, 4-day adult    13 Ethanol 2.5% 3 hrs, larvae L3    41 Ethanol 5% 3 hrs, larvae L3    14 Ethanol 10% 3 hrs, larvae L3    14 Caffeine 1.5 mg/ml 4 hrs, larvae L3    14 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    37 Caffeine 25 mg/ml 48 hrs, 4-day adult    14 Paraquat 5 mM 48 hrs, 4-day adult    33 Paraquat 10 mM 48 hrs, 4-day adult    31 Rotenone 2 μg 12 hrs, larvae L3    15 Rotenone 8 μg 12 hrs, larvae L3    15 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    12 cold shock, 4-day adult    10 heat shock, 4-day adult    22 Cadmium 50 mM 6 hrs, larvae L3    14 Cadmium 50 mM 12 hrs, larvae L3    17 Cadmium 50 mM 48 hrs, 4-day adult    21 Cadmium 100 mM 48 hrs, 4-day adult  (42) Copper 0.5 mM 12 hrs, larvae L3    7 Copper 15 mM 48 hrs, 4-day adult  (34) Zinc 5 mM 12 hrs, larvae L3    7 Zinc 4.5 mM 48 hrs, 4-day adult    13 Ethanol 2.5% 3 hrs, larvae L3  (41) Ethanol 5% 3 hrs, larvae L3    14 Ethanol 10% 3 hrs, larvae L3    14 Caffeine 1.5 mg/ml 4 hrs, larvae L3    14 Caffeine 2.5 mg/ml 48 hrs, 4-day adult  (37) Caffeine 25 mg/ml 48 hrs, 4-day adult    14 Paraquat 5 mM 48 hrs, 4-day adult  (33) Paraquat 10 mM 48 hrs, 4-day adult  (31) Rotenone 2 μg 12 hrs, larvae L3    15 Rotenone 8 μg 12 hrs, larvae L3    15 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    12 cold shock, 4-day adult    10 heat shock, 4-day adult    22 Cadmium 50 mM 6 hrs, larvae L3    14 Cadmium 50 mM 12 hrs, larvae L3    17 Cadmium 50 mM 48 hrs, 4-day adult    21 Cadmium 100 mM 48 hrs, 4-day adult    42 Copper 0.5 mM 12 hrs, larvae L3    7 Copper 15 mM 48 hrs, 4-day adult    34 Zinc 5 mM 12 hrs, larvae L3    7 Zinc 4.5 mM 48 hrs, 4-day adult    13 Ethanol 2.5% 3 hrs, larvae L3    41 Ethanol 5% 3 hrs, larvae L3    14 Ethanol 10% 3 hrs, larvae L3    14 Caffeine 1.5 mg/ml 4 hrs, larvae L3    14 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    37 Caffeine 25 mg/ml 48 hrs, 4-day adult    14 Paraquat 5 mM 48 hrs, 4-day adult    33 Paraquat 10 mM 48 hrs, 4-day adult    31 Rotenone 2 μg 12 hrs, larvae L3    15 Rotenone 8 μg 12 hrs, larvae L3    15 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Extremely high expression Treatment   Expression Level extended cold, 4-day adult    12 cold shock, 4-day adult    10 heat shock, 4-day adult    22 Cadmium 50 mM 6 hrs, larvae L3    14 Cadmium 50 mM 12 hrs, larvae L3    17 Cadmium 50 mM 48 hrs, 4-day adult    21 Cadmium 100 mM 48 hrs, 4-day adult    42 Copper 0.5 mM 12 hrs, larvae L3    7 Copper 15 mM 48 hrs, 4-day adult    34 Zinc 5 mM 12 hrs, larvae L3    7 Zinc 4.5 mM 48 hrs, 4-day adult    13 Ethanol 2.5% 3 hrs, larvae L3    41 Ethanol 5% 3 hrs, larvae L3    14 Ethanol 10% 3 hrs, larvae L3    14 Caffeine 1.5 mg/ml 4 hrs, larvae L3    14 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    37 Caffeine 25 mg/ml 48 hrs, 4-day adult    14 Paraquat 5 mM 48 hrs, 4-day adult    33 Paraquat 10 mM 48 hrs, 4-day adult    31 Rotenone 2 μg 12 hrs, larvae L3    15 Rotenone 8 μg 12 hrs, larvae L3    15 Expression Level Scale  Extremely high  log, scaled to maximum expression level Treatment   Expression Level extended cold, 4-day adult    12 cold shock, 4-day adult    10 heat shock, 4-day adult    22 Cadmium 50 mM 6 hrs, larvae L3    14 Cadmium 50 mM 12 hrs, larvae L3    17 Cadmium 50 mM 48 hrs, 4-day adult    21 Cadmium 100 mM 48 hrs, 4-day adult    42 Copper 0.5 mM 12 hrs, larvae L3    7 Copper 15 mM 48 hrs, 4-day adult    34 Zinc 5 mM 12 hrs, larvae L3    7 Zinc 4.5 mM 48 hrs, 4-day adult    13 Ethanol 2.5% 3 hrs, larvae L3    41 Ethanol 5% 3 hrs, larvae L3    14 Ethanol 10% 3 hrs, larvae L3    14 Caffeine 1.5 mg/ml 4 hrs, larvae L3    14 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    37 Caffeine 25 mg/ml 48 hrs, 4-day adult    14 Paraquat 5 mM 48 hrs, 4-day adult    33 Paraquat 10 mM 48 hrs, 4-day adult    31 Rotenone 2 μg 12 hrs, larvae L3    15 Rotenone 8 μg 12 hrs, larvae L3    15 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  log, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    12 cold shock, 4-day adult    10 heat shock, 4-day adult    22 Cadmium 50 mM 6 hrs, larvae L3    14 Cadmium 50 mM 12 hrs, larvae L3    17 Cadmium 50 mM 48 hrs, 4-day adult    21 Cadmium 100 mM 48 hrs, 4-day adult  (42) Copper 0.5 mM 12 hrs, larvae L3    7 Copper 15 mM 48 hrs, 4-day adult  (34) Zinc 5 mM 12 hrs, larvae L3    7 Zinc 4.5 mM 48 hrs, 4-day adult    13 Ethanol 2.5% 3 hrs, larvae L3  (41) Ethanol 5% 3 hrs, larvae L3    14 Ethanol 10% 3 hrs, larvae L3    14 Caffeine 1.5 mg/ml 4 hrs, larvae L3    14 Caffeine 2.5 mg/ml 48 hrs, 4-day adult  (37) Caffeine 25 mg/ml 48 hrs, 4-day adult    14 Paraquat 5 mM 48 hrs, 4-day adult  (33) Paraquat 10 mM 48 hrs, 4-day adult  31 Rotenone 2 μg 12 hrs, larvae L3    15 Rotenone 8 μg 12 hrs, larvae L3    15 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    12 cold shock, 4-day adult    10 heat shock, 4-day adult    22 Cadmium 50 mM 6 hrs, larvae L3    14 Cadmium 50 mM 12 hrs, larvae L3    17 Cadmium 50 mM 48 hrs, 4-day adult    21 Cadmium 100 mM 48 hrs, 4-day adult    42 Copper 0.5 mM 12 hrs, larvae L3    7 Copper 15 mM 48 hrs, 4-day adult    34 Zinc 5 mM 12 hrs, larvae L3    7 Zinc 4.5 mM 48 hrs, 4-day adult    13 Ethanol 2.5% 3 hrs, larvae L3    41 Ethanol 5% 3 hrs, larvae L3    14 Ethanol 10% 3 hrs, larvae L3    14 Caffeine 1.5 mg/ml 4 hrs, larvae L3    14 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    37 Caffeine 25 mg/ml 48 hrs, 4-day adult    14 Paraquat 5 mM 48 hrs, 4-day adult    33 Paraquat 10 mM 48 hrs, 4-day adult    31 Rotenone 2 μg 12 hrs, larvae L3    15 Rotenone 8 μg 12 hrs, larvae L3    15 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Extremely high expression Treatment   Expression Level extended cold, 4-day adult    12 cold shock, 4-day adult    10 heat shock, 4-day adult    22 Cadmium 50 mM 6 hrs, larvae L3    14 Cadmium 50 mM 12 hrs, larvae L3    17 Cadmium 50 mM 48 hrs, 4-day adult    21 Cadmium 100 mM 48 hrs, 4-day adult    42 Copper 0.5 mM 12 hrs, larvae L3    7 Copper 15 mM 48 hrs, 4-day adult    34 Zinc 5 mM 12 hrs, larvae L3    7 Zinc 4.5 mM 48 hrs, 4-day adult    13 Ethanol 2.5% 3 hrs, larvae L3    41 Ethanol 5% 3 hrs, larvae L3    14 Ethanol 10% 3 hrs, larvae L3    14 Caffeine 1.5 mg/ml 4 hrs, larvae L3    14 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    37 Caffeine 25 mg/ml 48 hrs, 4-day adult    14 Paraquat 5 mM 48 hrs, 4-day adult    33 Paraquat 10 mM 48 hrs, 4-day adult    31 Rotenone 2 μg 12 hrs, larvae L3    15 Rotenone 8 μg 12 hrs, larvae L3    15 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  Heatmap Treatment   Expression Level extended cold, 4-day adult     cold shock, 4-day adult     heat shock, 4-day adult     Cadmium 50 mM 6 hrs, larvae L3     Cadmium 50 mM 12 hrs, larvae L3     Cadmium 50 mM 48 hrs, 4-day adult     Cadmium 100 mM 48 hrs, 4-day adult     Copper 0.5 mM 12 hrs, larvae L3     Copper 15 mM 48 hrs, 4-day adult     Zinc 5 mM 12 hrs, larvae L3     Zinc 4.5 mM 48 hrs, 4-day adult     Ethanol 2.5% 3 hrs, larvae L3     Ethanol 5% 3 hrs, larvae L3     Ethanol 10% 3 hrs, larvae L3     Caffeine 1.5 mg/ml 4 hrs, larvae L3     Caffeine 2.5 mg/ml 48 hrs, 4-day adult     Caffeine 25 mg/ml 48 hrs, 4-day adult     Paraquat 5 mM 48 hrs, 4-day adult     Paraquat 10 mM 48 hrs, 4-day adult     Rotenone 2 μg 12 hrs, larvae L3     Rotenone 8 μg 12 hrs, larvae L3
Expression Clusters
	A cluster of genes with similar mRNA expression dynamics across development. (The modENCODE Consortium, 2010, Graveley et al., 2011) mE2_34_mRNA_expression_cluster_17 mE1_20_mRNA_expression_cluster_03
External Data & Images
Linkouts	BDGP expression data • LD09078 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0025463 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG4303-RA FlyExpress - Embryonic expression images (BDGP data) • Show all FlyExpress processed images for Bap60 Stages(s) 4-6 Stages(s) 7-8 Stages(s) 9-10 Stages(s) 11-12 Stages(s) 13-16
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele lethal Bap60GD4171 lethal, with Scer\GAL4pnr-MD237 Bap60GD4171 lethal | embryonic stage | germline clone | non-rescuable maternal effect | recessive Bap601 lethal | embryonic stage | recessive Bap601 lethal | larval stage | recessive Bap601 lethal | pupal stage, with Scer\GAL4pnr-MD237 Bap60GD4171 viable Bap60GG01131 Other Phenotypes Allele suppressor of variegation | dominant Bap601 Phenotype manifest in Allele embryonic/larval brain | larval stage Bap60GD4171
Classical Alleles ( 3 )
For All Classical Alleles Show
Allele of Bap60 Class Mutagen Stocks Known lesion Bap601 P-element activity 0 Yes Bap60GG01131 0 Yes Bap60unspecified 0 --
Alleles Carried on Transgenic Constructs ( 7 )
For All Alleles Carried on Transgenic Constructs Show
Allele of Bap60 Class Mutagen Stocks Known lesion Bap60GD4171 in vitro construct - RNAi in vitro construct - regulatory fusion 2 Yes Bap60HMS00507 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes Bap60HMS00909 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes Bap60JF01295 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes Bap60KK101859 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes Bap60Act5C.PM in vitro construct - regulatory fusion 0 Yes Bap60NIG.4303R in vitro construct - RNAi in vitro construct - regulatory fusion 0 Yes
Aneuploid Aberrations
Disrupted in	Df(1)C246 (Brumby et al., 2002)
Partially disrupted in	Df(1)Bap601 (Moeller et al., 2005)
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{GD4171} NA P{KK101859} NA P{NIG.4303R} NA P{TRiP.HMS00507} NA P{TRiP.HMS00909} NA P{TRiP.JF01295} NA characterization construct P{Act5C-Bap60.M} NA
Insertions
	Type of insertions Name Expression data insertion of mobile activating element P{Mae-UAS.6.11}CG12096GG01131 NA
Gene Ontology: Function, Process & Cellular Component ( 13 unique terms )
Terms Based on Experimental Evidence ( 11 terms )
Molecular Function
CV term Evidence References
DNA binding inferred from direct assay (Moeller et al., 2005) protein binding inferred from physical interaction with mor (Kal et al., 2000) inferred from physical interaction with Myo10A (Liu et al., 2008) RNA polymerase II transcription factor binding inferred from physical interaction with sc (Moeller et al., 2005) inferred from physical interaction with sisA (Moeller et al., 2005)
Biological Process
CV term Evidence References
dendrite morphogenesis inferred from mutant phenotype (Parrish et al., 2006) muscle organ development inferred from mutant phenotype (Parrish et al., 2006) neuron development inferred from mutant phenotype (Parrish et al., 2006) positive regulation of gene expression inferred from genetic interaction with brm (Moeller et al., 2005) positive regulation of heterochromatin assembly inferred from mutant phenotype (Moeller et al., 2005) positive regulation of transcription, DNA-dependent inferred from direct assay (Kal et al., 2000)
Cellular Component
CV term Evidence References
brahma complex inferred from direct assay (Kal et al., 2000) nucleus inferred from direct assay (Mohrmann et al., 2004)
Terms Based on Predictions or Assertions ( 2 terms )
Molecular Function
CV term Evidence References
contributes_to transcription coactivator activity inferred by curator from GO:0035060 (Kal et al., 2000) transcription factor binding inferred from sequence or structural similarity with human SMARCD1 (Moeller et al., 2005)
Biological Process ( 0 terms)
Cellular Component ( 0 terms)
Sequence Ontology: Class of Gene
	nuclear_gene   protein_coding_gene
Interactions & Pathways
Summary of Physical Interactions
protein-protein
Interacting group Assay References
Bap60 - Bap55 experimental knowledge based (Guruharsha et al., 2011) Bap60 - CG11505 experimental knowledge based (Guruharsha et al., 2011) Bap60 - CG12493 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Bap60 - CG13539 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Bap60 - CG14480 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Bap60 - CG15625 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Bap60 - CG17002 experimental knowledge based (Guruharsha et al., 2011) Bap60 - CG17562 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Bap60 - CG2017 experimental knowledge based (Guruharsha et al., 2011) Bap60 - CG3008 experimental knowledge based (Guruharsha et al., 2011) Bap60 - CG30491 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Bap60 - CG32479 experimental knowledge based (Guruharsha et al., 2011) Bap60 - CG34159 experimental knowledge based (Guruharsha et al., 2011) Bap60 - CG5506 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Bap60 - CG5623 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Bap60 - CG7185 experimental knowledge based (Guruharsha et al., 2011) Bap60 - CG7542 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Bap60 - CG9922 experimental knowledge based (Guruharsha et al., 2011) Bap60 - Cdk8 experimental knowledge based (Guruharsha et al., 2011) Bap60 - Cpr31A anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Bap60 - Der-2 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Bap60 - MED10 experimental knowledge based (Guruharsha et al., 2011) Bap60 - MED11 experimental knowledge based (Guruharsha et al., 2011) Bap60 - MED14 experimental knowledge based (Guruharsha et al., 2011) Bap60 - MED15 experimental knowledge based (Guruharsha et al., 2011) Bap60 - MED16 experimental knowledge based (Guruharsha et al., 2011) Bap60 - MED17 experimental knowledge based (Guruharsha et al., 2011) Bap60 - MED18 experimental knowledge based (Guruharsha et al., 2011) Bap60 - MED20 experimental knowledge based (Guruharsha et al., 2011) Bap60 - MED23 experimental knowledge based (Guruharsha et al., 2011) Bap60 - MED24 experimental knowledge based (Guruharsha et al., 2011) Bap60 - MED27 experimental knowledge based (Guruharsha et al., 2011) Bap60 - MED30 experimental knowledge based (Guruharsha et al., 2011) Bap60 - MED4 experimental knowledge based (Guruharsha et al., 2011) Bap60 - MED6 experimental knowledge based (Guruharsha et al., 2011) Bap60 - MED7 experimental knowledge based (Guruharsha et al., 2011) Bap60 - MED8 experimental knowledge based (Guruharsha et al., 2011) Bap60 - Nat1 experimental knowledge based (Guruharsha et al., 2011) Bap60 - Psi experimental knowledge based (Guruharsha et al., 2011) Bap60 - Snr1 anti tag coimmunoprecipitation, peptide massfingerprinting, experimental knowledge based (Mintseris et al., 2009.11.23, Guruharsha et al., 2011) Bap60 - Spt5 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Bap60 - Tpc2 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Bap60 - boca experimental knowledge based (Guruharsha et al., 2011) Bap60 - brm experimental knowledge based (Guruharsha et al., 2011) Bap60 - dalao anti tag coimmunoprecipitation, peptide massfingerprinting, experimental knowledge based (Mintseris et al., 2009.11.23, Guruharsha et al., 2011) Bap60 - dsh experimental knowledge based (Guruharsha et al., 2011) Bap60 - ebi experimental knowledge based (Guruharsha et al., 2011) Bap60 - enc experimental knowledge based (Guruharsha et al., 2011) Bap60 - fan anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Bap60 - fh anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Bap60 - ix experimental knowledge based (Guruharsha et al., 2011) Bap60 - mor anti tag coimmunoprecipitation, peptide massfingerprinting, experimental knowledge based (Mintseris et al., 2009.11.23, Guruharsha et al., 2011) Bap60 - osa experimental knowledge based (Guruharsha et al., 2011) Bap60 - ptip experimental knowledge based (Guruharsha et al., 2011) Bap60 - san experimental knowledge based (Guruharsha et al., 2011) Bap60 - ssp anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Bap60 - twin anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23)
Summary of Genetic Interactions
Interacts with	Please look at the allele data for full details of the genetic interactions Bap60 allele Gene References
External Data
Linkouts	BioGRID - A database of protein and genetic interactions • 58653 DPiM - DPiM, Drosophila Protein interaction Map • FBgn0025463 DroID - A comprehensive database of gene and protein interactions. • FBgn0025463 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 32268
Orthologs
OrthoDB Orthologs (53) - based on analysis using Dmel annotation version 5.41
OrthoDB Ortholog Groups
	OrthoDB orthology group searches (Waterhouse et al., 2011, Nucleic Acids Res. 39(Database issue): D283--D288) Drosophila inclusive ortholog search EOG6FN53G Dipteran inclusive ortholog search EOG676K7R Insect inclusive ortholog search EOG6V423Z Arthropod inclusive ortholog search EOG6TTF06 Metazoa inclusive ortholog search EOG6C8MKS
Orthologs in Drosophila Species (EOG6FN53G)
Organism Common Name Gene AAA Syntenic Ortholog Multiple Dmel Genes in this Orthologous Group Drosophila melanogaster fruit fly  Dmel\Bap60     Drosophila simulans   Dsim\GD15903 Y   Drosophila sechellia   Dsec\GM11510 Y   Drosophila erecta   Dere\GG19519 Y   Drosophila yakuba   Dyak\Bap60 Y   Drosophila ananassae   Dana\GF20965 Y   Drosophila pseudoobscura pseudoobscura   Dpse\GA18095 Y   Drosophila persimilis   Dper\GL15872 Y   Drosophila willistoni   Dwil\GK16421 Y   Drosophila virilis   Dvir\GJ16750 Y   Drosophila mojavensis   Dmoj\GI16377 Y   Drosophila grimshawi   Dgri\GH24118 Y
Orthologs in non-Drosophila Dipterans (EOG676K7R)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Aedes aegypti Yellow fever mosquito  Aaeg\AAEL009649   Anopheles gambiae Malaria mosquito  Agam\AGAP000923   Anopheles gambiae Malaria mosquito  Agam\AGAP005336   Culex quinquefasciatus Southern house mosquito  Cqui\CPIJ019147
Orthologs in non-Dipteran Insects (EOG6V423Z)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Apis mellifera Western honey bee  Amel\GB54797   Nasonia vitripennis Parasitic wasp  Nvit\Nasvi2EG010118   Acromyrmex echinatior Panamanian leafcutter ant  Aech\AECH14633   Atta cephalotes Leafcutter ant  Acep\ACEP11940   Camponotus floridanus Florida carpenter ant  Cflo\CFLO15071   Harpegnathos saltator Jerdons jumping ant  Hsal\HSAL17159   Linepithema humile Argentine ant  Lhum\LH10612   Pogonomyrmex barbatus Red harvester ant  Pbar\PB18407   Solenopsis invicta Red fire ant  Sinv\SINV24027   Acyrthosiphon pisum Pea aphid  Apim\ACYPI005482   Pediculus humanus Human body louse  Phum\PHUM523430   Tribolium castaneum Red flour beetle  Tcas\TC012873
Orthologs in non-Insect Arthropods (EOG6TTF06)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Daphnia pulex Water flea  Dpux\cpcA   Ixodes scapularis Deer tick  Isca\ISCW019453
Orthologs in non-Arthropod Metazoa (EOG6C8MKS)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Caenorhabditis elegans Nematode  Cele\swsn-2.1   Caenorhabditis elegans Nematode  Cele\swsn-2.2   Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_003861gn   Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_003233gn   Danio rerio Zebrafish  Drer\smarcd2   Danio rerio Zebrafish  Drer\smarcd3b   Danio rerio Zebrafish  Drer\OTTDARG00000024626   Danio rerio Zebrafish  Drer\smarcd1   Xenopus tropicalis Western clawed frog  Xtro\smarcd1   Xenopus tropicalis Western clawed frog  Xtro\smarcd2   Xenopus tropicalis Western clawed frog  Xtro\smarcd3   Gallus gallus Domestic chicken  Ggal\ENSGALG00000006209   Gallus gallus Domestic chicken  Ggal\SMARCD2   Gallus gallus Domestic chicken  Ggal\SMARCD3   Mus musculus House mouse  Mmus\Smarcd1   Mus musculus House mouse  Mmus\Smarcd2   Mus musculus House mouse  Mmus\Smarcd3   Rattus norvegicus Norway rat  Rnor\Smarcd3   Rattus norvegicus Norway rat  Rnor\Smarcd2   Rattus norvegicus Norway rat  Rnor\Smarcd1   Homo sapiens Human  Hsap\SMARCD2   Homo sapiens Human  Hsap\SMARCD3   Homo sapiens Human  Hsap\SMARCD1
Human Orthologs (3)
Gene OMIM HGNC Hsap\SMARCD2     Hsap\SMARCD3     Hsap\SMARCD1
AAA Orthologs (11) based on analysis using Dmel annotation version 4.3
Organism Gene Drosophila simulans Dsim\GD15903 Drosophila sechellia Dsec\GM11510 Drosophila erecta Dere\GG19519 Drosophila yakuba Dyak\Bap60 Drosophila ananassae Dana\GF20965 Drosophila pseudoobscura pseudoobscura Dpse\GA18095 Drosophila persimilis Dper\GL15872 Drosophila willistoni Dwil\GK16421 Drosophila virilis Dvir\GJ16750 Drosophila mojavensis Dmoj\GI16377 Drosophila grimshawi Dgri\GH24118
Stocks & Reagents
Stocks Listed in FlyBase ( 6 )
Bloomington	31337 y1 v1; P{TRiP.JF01295}attP2 32503 y1 sc* v1; P{TRiP.HMS00507}attP2 33954 y1 sc* v1; P{TRiP.HMS00909}attP2
VDRC	v103634 P{KK101859}VIE-260B v12673 w1118; P{GD4171}v12673 v12675 w1118; P{GD4171}v12675
Genomic Clones ( 2 )
	BACR06C04 BACR13N03 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 139 )
	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	LD09078
Other clones	DPiM_LD09078 yak-em_Bap60
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	GH13817 GM17260 GM18161 LD01558 LD02750 LD05595 LD05813 LD06226 LD06540 LD07211 LD12331 LD12580 LD14640 LD14830 LD15212 LD16020 LD19076 LD19137 LD19729 LD22020 LD22388 LD22413 LD24857 LD24858 LD25154 LD25453 LD27052 LD27351 LD27766 LD28723 LD29502 LD30323 LD32192 LD33783 LD36735 LD37149 LD37222 LD39187 LD39636 LD40247 LD40264 LD40629 LD41891 LD41910 LD42094 LD42455 LD42533 LD43476 LD44021 LD44867 RE13910 RE16371 RE28673 RE31440 RE31627 RE32434 RE33602 RE34274 RE35968 RE36334 RE38210 RE40527 RE48918 RE49129 RE58332 RE71852 RE73788 RH48668 SD05907 SD08471 SD11411 SD16023 SD19174 SD20672 SD21958
Other clones	42901 CK01.126B.F2 CK01.128C.D3 EK096853 EK165116 ESG0114a.B21_D01 IP01876 RP003005197 RP003005639 RP003020977 RP003021172 RP003028411 RP003035299 RP003059869 RP003099631 RP003099671 RP003103691 RP003113729 RP003139093 RP003144750 RP003146538 RP003147155 RP003160383 RP003187282 RP003189085 RP003195367 RP003211446 RP003219042 RP003227242 RP003235470 RP003240002 RP003256447 RP003331987 RP003332423 RP003345149 RP003355999 RP003367178 RP003375418 RP003388071 RP003396261 RP003397177 RP003412265 RP003413410 RP003415128 RP003421197 RP003421268 RP003421834 RP003448196 RP003448667 RP003456145 RP003457998 RP003474577 RP003485565 RP003506852 RP003514278 RP003522898 RP003530840 RP003586416 RP003595092 RP003595431 RP003660835
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0025463 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 32268
Antibody Information
	polyclonal (Nakayama et al., 2012)
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of
Source for database merge of
Additional comments	FlyBase curator comment: the insertion in the "f05782" Exelixis line (PBac{WH}CG12096f05782) was originally assigned to the Bap60 gene in FBrf0179797, resulting in the "Bap60f05782" (FBal0162769) allele. However, FBrf0184340 shows that the insertion is actually within CG12096. (Bloomington Drosophila Stock Center, 2004.11.6)
Other Comments
	dsRNA has been made from templates generated with primers directed against this gene. RNAi of Bap60 disrupts the dendritic routing patterns of the ddaD and ddaE neurons, resulting in aberrantly oriented primary dendrites. RNAi also causes defects in muscle, alterations in the number of MD neurons and defects in dendrite morphogenesis. (Parrish et al., 2006) dsRNA made from templates generated with primers directed against Bap60 that is transfected into S2 treated with Listeria monocytogenes reveals Bap60 to be involved in Listeria monocytogenes intracellular growth and vacuolar escape. (Cheng et al., 2005)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_078588 RefSeq (Proteins) • NP_511143 DDBJ / EMBL / GenBank • AA390867 AA438463 AAC28455 AAF48235 AAL39528 AF071503 AW941701 AY069383 Entrez Gene - A searchable database of RefSeq genes. • 32268 UniProtKB/TrEMBL • O76490 Q9VYG2
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • SWIB/MDM2 domain (IPR003121) SWIB domain (IPR019835) BDGP expression data - Patterns of gene expression in Drosophila embryogenesis • LD09078
Linkouts
	BioGRID - A database of protein and genetic interactions • 58653 DPiM - DPiM, Drosophila Protein interaction Map • FBgn0025463 DroID - A comprehensive database of gene and protein interactions. • FBgn0025463 DRSC - Results from RNAi screens. • FBgn0025463 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0025463 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG4303-RA FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0025463 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 32268 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 32268 modMine - Data generated by the modENCODE project. • FBgn0025463
Synonyms & Secondary IDs ( 10 )
Reported As
Symbol Synonym	BAP60 (Krupp et al., 2005, Mohrmann et al., 2004, Brumby et al., 2004, Aalfs and Kingston, 2000, Moller and Jackle, 2003, Moller and Jackle, 2003, Sudarsanam and Winston, 2000, Kal et al., 2000, Collins et al., 1999, Papoulas, 1998.6.9, Kingston and Narlikar, 1999, Wade and Wolffe, 1999, Papoulas et al., 1998, Gan et al., 2010, Secombe et al., 2007, Vorobyeva et al., 2009, Taylor-Harding et al., 2004, Still et al., 2004, Moshkin et al., 2009, Nakamura et al., 2008, Vorobyeva et al., 2009, Soshnikova et al., 2008) Bap60 (Liu et al., 2008, Parrish et al., 2006, Blanco et al., 2010, Lunardi et al., 2010, Baeg et al., 2007, Moeller et al., 2005, Robida et al., 2007, Zhou et al., 2008, Nowak et al., 2012, Nakayama et al., 2012, Wasbrough et al., 2010, Neumüller et al., 2011, Dekanty et al., 2010, Tokusumi et al., 2012, Japanese National Institute of Genetics, 2012.5.21) BAPp60 (Brumby et al., 2002) CG4303 (Klebes et al., 2005, Battersby et al., 2003, Keleman et al., 2009.8.5, Gandhi et al., 2007, Ni et al., 2008, Ni et al., 2010.12.1) i127 (Battersby et al., 2003) i133 (Battersby et al., 2003)
Name Synonym	Brahma associated protein 60kD (Liu et al., 2008) Brahma associated protein 60 kD (Davis et al., 2011) brahma associated protein 60 kDa (Papoulas, 1998.6.9) BRM-associated protein 60 (Papoulas et al., 1998)
Secondary FlyBase IDs
References ( 63 )
Generate a list of	All references relating to this gene ( 63 )
List References by type	Research paper  ( 35 ) Supplementary material  ( 8 ) Review  ( 5 ) Erratum  ( 1 ) Personal communication to FlyBase  ( 6 ) Abstract  ( 2 ) FlyBase analysis  ( 1 ) DNA/RNA sequence record  ( 1 ) Stock list  ( 1 ) Website  ( 1 ) Curated genome annotation  ( 1 )
Recent research papers ( 5 )
	Nakayama et al., 2012, Development 139(24): 4582--4590 The PBAP remodeling complex is required for histone H3.3 replacement at chromatin boundaries and for boundary functions. [FBrf0219981] Nowak et al., 2012, PLoS Genet. 8(3): e1002547 Akirin Links Twist-Regulated Transcription with the Brahma Chromatin Remodeling Complex during Embryogenesis. [FBrf0217616] Tokusumi et al., 2012, PLoS ONE 7(7): e41604 Gene regulatory networks controlling hematopoietic progenitor niche cell production and differentiation in the Drosophila lymph gland. [FBrf0219204] Davis et al., 2011, BMC Dev. Biol. 11: 66 Identification of common and cell type specific LXXLL motif EcR cofactors using a bioinformatics refined candidate RNAi screen in Drosophila melanogaster cell lines. [FBrf0216830] Neumüller et al., 2011, Cell Stem Cell 8(5): 580--593 Genome-Wide Analysis of Self-Renewal in Drosophila Neural Stem Cells by Transgenic RNAi. [FBrf0213621] Show all research papers ...
Recent reviews (0)
	All reviews listed in FlyBase were published before 2011 Show reviews ...