A Database of Drosophila Genes & Genomes

FB2013_03, released May 7th, 2013
 

Gene Dmel\usp

General Information
SymbolDmel\uspSpeciesD. melanogaster
NameultraspiracleAnnotation symbolCG4380
Feature typeprotein_coding_geneFlyBase IDFBgn0003964
Gene Model StatusCurrent Stock availability 11 publicly available
Also Known AsDmUSP, CF1, dUSP, EG:22E5.1, NR2B4, CF1/Usp
Genomic Location
Chromosome (arm)XRecombination map
Cytogenetic map2C7-2C7Sequence locationX:1,932,829..1,936,344 [-]

Genomic Maps

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Automatically generated summary

See sections below for more information
The gene ultraspiracle is referred to in FlyBase by the symbol Dmel\usp (CG4380, FBgn0003964). It is a protein_coding_gene from Drosophila melanogaster. There is experimental evidence that it has the molecular function: ecdysteroid hormone receptor activity; protein binding; RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription; lipid binding; transcription regulatory region sequence-specific DNA binding; protein heterodimerization activity; protein homodimerization activity; DNA binding. There is experimental evidence that it is involved in the biological process: border follicle cell migration; dendrite morphogenesis; neuron development; neuron remodeling; response to ecdysone; muscle organ development; germ cell development. 29 alleles are reported. The phenotypes of these alleles are annotated with: dendrite; terminal filament; embryonic/larval anterior spiracle; midgut imaginal island; dorsal multidendritic neuron ddaC; imaginal disc. It has 2 annotated transcripts and 2 annotated polypeptides. Protein features are: Nuclear hormone receptor, ligand-binding; Nuclear hormone receptor, ligand-binding, core; Retinoid X receptor/HNF4; Steroid hormone receptor; Zinc finger, NHR/GATA-type; Zinc finger, nuclear hormone receptor-type. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of moderate expression. Peak expression observed within 00-06 hour embryonic stages, in adult female stages. Summary of FlyAtlas Anatomical Expression Data: Nearly all larval and adult tissues/organs expressed at moderate levels. Expression at moderate levels in the following post-embryonic organs or tissues: adult head, larval/adult central nervous system, adult crop, larval/adult midgut, larval/adult hindgut, larval Malpighian tubules, larval/adult fat body, larval/adult salivary gland, larval trachea, adult female reproductive system, adult male accessory gland, larval carcass. Comments on Affy2 ProbeSet: ProbeSet 1622981_at completely aligns to an exonic region of the only FlyBase-annotated transcript isoform of usp. Gene sequence location is X:1932829..1936344.

User Contributed Data
External Summaries
hide Phenotypic Description from the Red Book (Lindsley & Zimm 1992)
Gene/Allele symbols may differ from current usage
cf1: Chorion factor 1
Encodes a protein that binds the promoter region of Cp15.
usp: ultraspiracle (A. E. Oro)
Mutants are recessive lethals. usp/usp or usp// progeny of usp/+ mothers die during the first larval instar or in the molt to the second instar. Those that die during the molt to the second instar sometimes have incompletely molted the first instar set of larval spiracles and thus have two sets of spiracles (Perrimon et al., 1985; Oro, McKeown and Evans, in prep.). usp/Y embryos derived from usp/usp germ cells die just prior to or just after hatching with an oval scar on the ventral surface of the posterior eighth abdominal or ninth abdominal segment. The spiracles of these animals appear normal as does the rest of the cuticle and the ventral nervous system. Paternally supplied usp+ completely rescues this phenotype and allows survival to adulthood (Perrimon et al., 1985; Oro, McKeown, and Evans, in prep.). Use of a conditional expression system for rescue of the first/second instar lethal phase results in survival into the third instar and early pupal periods, with no animals surviving beyond pupal stage P4 (Oro, Mckeown, and Evans, in prep.). usp/0//usp+ gyandromorphs do not survive suggesting that the gene is required in multiple parts of the body and not just in the terminal regions. γ-ray induced usp/usp clones survive in the female germline, abdomen, thorax and head, showing that usp is not a general cell lethal. Clones in the head are associated with defects in rhabdomere and ommatidial morphology (Oro, McKeown, and Evans, in prep.). Expression of a usp cDNA at high levels throughout development rescues the usp- phenotype and has no deletenous effect on usp+ animals, suggesting that any necessary spatial or temporal regulation of usp action occurs by regulation of some other factor such as a ligand.
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Description
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FB2013_03
FB2013_02
Controlled Vocabulary Terms
All updates Click here to see a list of all updates to this record from FB2010_08 and on.
hide Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map
Evidence for location
2C7-2C7  
Limits computationally determined from genome sequence between P{EP}EP427 and P{EP}ActnEP1193&P{EP}CG4322EP1631  
Experimentally Determined Cytological Location
Cytogenetic map
Notes
References
2C1-2C3  
(determined by in situ hybridisation)  
2C-2C  
(determined by in situ hybridisation)  
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
hide Gene Model & Products
Please see the GBrowse view of Dmel\usp for information on other features GBrowse View Help
To submit a correction to a gene model please use the Contact FlyBase form
detailed view FBtr0070346 FBtr0340109 FBtr0340107 FBtr0070343 FBtr0070345 FBtr0333803 FBtr0070344 FBtr0310657 FBtr0310443 FBtr0070342 FBtr0303044 FBtr0310288 FBtr0310289 FBtr0070341 FBtr0303043 FBtr0303045 FBpp0070332 FBpp0305937 FBpp0070328 FBpp0302591 FBti0131883 FBti0037354 FBti0039836 FBti0071296 FBti0007384 FBti0037230 FBti0029347 FBti0029710 FBti0023555 FBti0048814 FBti0029352 FBti0048211
Comments on Gene Model
Gene model reviewed during 5.43
Shares 5' UTR with downstream gene.
Low-frequency RNA-Seq exon junction(s) not annotated.
Gene model reviewed during 5.46
hide Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Associated CDS (aa)
FBtr0070346
  2515
  508
FBtr0333803
  3040
  508
Additional Transcript Data & Comments
Reported size (kB)
2.4 (northern blot)
Comments
External Data
Crossreferences
hide Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kDa)
Length (aa)
Theoretical pI
RefSeq ID
GenBank protein
usp-PA  
FBpp0070332  
55.2  
508  
8.05  
usp-PB  
FBpp0305937  
55.2  
508  
8.05  
Additional Polypeptide Data & Comments
Reported size (kDa)
507 (aa); 55 (kD predicted)
54, 48 (kD observed)
Comments
External Data
Linkouts
Crossreferences
InterPro domains - A database of protein families, domains, and functional sites
PDB - Protein Data Bank. An information portal to biological macromolecular structures
hide Sequences Consistent with the Gene Model
DDBJ /
EMBL /
GenBank
DNA sequence
Protein sequence
Name
 
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL
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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
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Linkouts
Crossreferences
hide Expression Data
hideTranscript Expression
No Assay Recorded
Stage
Tissue/Position (including subcellular localization)
Reference
expression microarray
Stage
Tissue/Position (including subcellular localization)
Reference
in situ
Stage
Tissue/Position (including subcellular localization)
Reference
Comment:maternally deposited
northern blot
Stage
Tissue/Position (including subcellular localization)
Reference
Additional Descriptive Data
usp transcripts are more abundant in ovarian follicles than in other tissues and stages.
usp transcripts accumulate in the oocyte and nurse cells starting in oocyte stage S8 and reaching a maximum in stage S10. By stage S12, they are confined to the degenerating nurse cells. usp transcripts are uniformly distributed in early embryos and remain so through germ band elongation. During germ band retraction, transcript levels become higher in the ventral nervous system and in the developing midgut.
usp transcripts are detected at all stages tested on northern blots with the highest levels in late wandering third instar larvae and the lowest levels in early first and third instar larvae.
usp transcripts are expressed throughout the life cycle with the highest levels in embryos and adults.
Marker for
Subcellular Localization
CV Term
hide Polypeptide Expression
No Assay Recorded
Stage
Tissue/Position (including subcellular localization)
Reference
enzyme assay or biochemical detection
Stage
Tissue/Position (including subcellular localization)
Reference
immunolocalization
Stage
Tissue/Position (including subcellular localization)
Reference
western blot
Stage
Tissue/Position (including subcellular localization)
Reference
Additional Descriptive Data
usp protein is present in nuclear extracts from ovaries.
usp protein is expressed in all cells of the eye imaginal disc.
usp protein is detected at all embryonic stages and in first instar larvae on western blots. It decreases to low levels in 2nd and early third instar larvae and increases again in late third instar larvae and pupae. usp protein is detected by immunolocalization in late third instar larvae. It is present in wing disc, salivary gland, fat body, ring gland, CNS, leg disc and antennal disc.
usp protein is present in ovarian follicles.
Marker for
Subcellular Localization (GO Cellular Component)
CV term
References
inferred from mutant phenotype
inferred from physical interaction with EcR
hide Expression Deduced from Reporters
hide High-Throughput Expression Data
Associated Tools
Reference
See Gelbart and Emmert, 2010.10.13 for analysis details and data files for all genes.
hide FlyAtlas Anatomy Microarray

FlyAtlas Anatomical Expression Data

(FlyAtlas-RNA.adult)

(FlyAtlas-RNA.larva)


   Styles
   Scales

Summary of FlyAtlas Anatomical Expression Data: Nearly all larval and adult tissues/organs expressed at moderate levels. Expression at moderate levels in the following post-embryonic organs or tissues: adult head, larval/adult central nervous system, adult crop, larval/adult midgut, larval/adult hindgut, larval Malpighian tubules, larval/adult fat body, larval/adult salivary gland, larval trachea, adult female reproductive system, adult male accessory gland, larval 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
 
 168.525
Larval Midgut
 
 156.7
Larval Hindgut
 
 167.8
Larval Malpighian Tubules
 
 119.9
Larval Fat Body
 
 120.6
Larval Salivary Gland
 
 218.9
Larval Trachea
 
 105.1
Larval Carcass
 
 150.325
Adult Head
 
 111.2
Adult Eye
 
 63.725
Adult Brain
 
 208.7
Adult Thoracic-Abdominal Ganglion
 
 141.7
Adult Crop
 
 121.9
Adult Midgut
 
 105.5
Adult Hindgut
 
 124.1
Adult Malpighian Tubules
 
 73.6
Adult Fat Body
 
 117.4
Adult Salivary Gland
 
 165.9
Adult Heart
 
 81.65
Adult VirginFemale Spermatheca
 
 114.2
Adult InseminatedFemale Spermatheca
 
 106.9
Adult Ovary
 
 341.6
Adult Testis
 
 18.3
Adult Male Accessory Gland
 
 150.2
Adult Carcass
 
 74.5
Expression Level Scale
 None 
 Low 
 Moderate 
Linear, scaled to Moderate expression
Tissue   Expression Level
Larval Central Nervous System
 
 168.525
Larval Midgut
 
 156.7
Larval Hindgut
 
 167.8
Larval Malpighian Tubules
 
 119.9
Larval Fat Body
 
 120.6
Larval Salivary Gland
 
 218.9
Larval Trachea
 
 105.1
Larval Carcass
 
 150.325
Adult Head
 
 111.2
Adult Eye
 
 63.725
Adult Brain
 
 208.7
Adult Thoracic-Abdominal Ganglion
 
 141.7
Adult Crop
 
 121.9
Adult Midgut
 
 105.5
Adult Hindgut
 
 124.1
Adult Malpighian Tubules
 
 73.6
Adult Fat Body
 
 117.4
Adult Salivary Gland
 
 165.9
Adult Heart
 
 81.65
Adult VirginFemale Spermatheca
 
 114.2
Adult InseminatedFemale Spermatheca
 
 106.9
Adult Ovary
 
 341.6
Adult Testis
 
 18.3
Adult Male Accessory Gland
 
 150.2
Adult Carcass
 
 74.5
Expression Level Scale
 None 
 Low 
 Moderate 
 High 
Linear, scaled to High level expression
Tissue   Expression Level
Larval Central Nervous System
 
 168.525
Larval Midgut
 
 156.7
Larval Hindgut
 
 167.8
Larval Malpighian Tubules
 
 119.9
Larval Fat Body
 
 120.6
Larval Salivary Gland
 
 218.9
Larval Trachea
 
 105.1
Larval Carcass
 
 150.325
Adult Head
 
 111.2
Adult Eye
 
 63.725
Adult Brain
 
 208.7
Adult Thoracic-Abdominal Ganglion
 
 141.7
Adult Crop
 
 121.9
Adult Midgut
 
 105.5
Adult Hindgut
 
 124.1
Adult Malpighian Tubules
 
 73.6
Adult Fat Body
 
 117.4
Adult Salivary Gland
 
 165.9
Adult Heart
 
 81.65
Adult VirginFemale Spermatheca
 
 114.2
Adult InseminatedFemale Spermatheca
 
 106.9
Adult Ovary
 
 341.6
Adult Testis
 
 18.3
Adult Male Accessory Gland
 
 150.2
Adult Carcass
 
 74.5
Expression Level Scale
 None 
 Low 
 Moderate 
 High 
 Very high 
Linear, scaled to Very high expression
Tissue   Expression Level
Larval Central Nervous System
 
 168.525
Larval Midgut
 
 156.7
Larval Hindgut
 
 167.8
Larval Malpighian Tubules
 
 119.9
Larval Fat Body
 
 120.6
Larval Salivary Gland
 
 218.9
Larval Trachea
 
 105.1
Larval Carcass
 
 150.325
Adult Head
 
 111.2
Adult Eye
 
 63.725
Adult Brain
 
 208.7
Adult Thoracic-Abdominal Ganglion
 
 141.7
Adult Crop
 
 121.9
Adult Midgut
 
 105.5
Adult Hindgut
 
 124.1
Adult Malpighian Tubules
 
 73.6
Adult Fat Body
 
 117.4
Adult Salivary Gland
 
 165.9
Adult Heart
 
 81.65
Adult VirginFemale Spermatheca
 
 114.2
Adult InseminatedFemale Spermatheca
 
 106.9
Adult Ovary
 
 341.6
Adult Testis
 
 18.3
Adult Male Accessory Gland
 
 150.2
Adult Carcass
 
 74.5
Expression Level Scale
 Very high 
log, scaled to maximum expression level
Tissue   Expression Level
Larval Central Nervous System
 
 168.525
Larval Midgut
 
 156.7
Larval Hindgut
 
 167.8
Larval Malpighian Tubules
 
 119.9
Larval Fat Body
 
 120.6
Larval Salivary Gland
 
 218.9
Larval Trachea
 
 105.1
Larval Carcass
 
 150.325
Adult Head
 
 111.2
Adult Eye
 
 63.725
Adult Brain
 
 208.7
Adult Thoracic-Abdominal Ganglion
 
 141.7
Adult Crop
 
 121.9
Adult Midgut
 
 105.5
Adult Hindgut
 
 124.1
Adult Malpighian Tubules
 
 73.6
Adult Fat Body
 
 117.4
Adult Salivary Gland
 
 165.9
Adult Heart
 
 81.65
Adult VirginFemale Spermatheca
 
 114.2
Adult InseminatedFemale Spermatheca
 
 106.9
Adult Ovary
 
 341.6
Adult Testis
 
 18.3
Adult Male Accessory Gland
 
 150.2
Adult Carcass
 
 74.5
Expression Level Scale
 None 
 Low 
 Moderate 
 High 
log, scaled to Moderate expression
Tissue   Expression Level
Larval Central Nervous System
 
 168.525
Larval Midgut
 
 156.7
Larval Hindgut
 
 167.8
Larval Malpighian Tubules
 
 119.9
Larval Fat Body
 
 120.6
Larval Salivary Gland
 
 218.9
Larval Trachea
 
 105.1
Larval Carcass
 
 150.325
Adult Head
 
 111.2
Adult Eye
 
 63.725
Adult Brain
 
 208.7
Adult Thoracic-Abdominal Ganglion
 
 141.7
Adult Crop
 
 121.9
Adult Midgut
 
 105.5
Adult Hindgut
 
 124.1
Adult Malpighian Tubules
 
 73.6
Adult Fat Body
 
 117.4
Adult Salivary Gland
 
 165.9
Adult Heart
 
 81.65
Adult VirginFemale Spermatheca
 
 114.2
Adult InseminatedFemale Spermatheca
 
 106.9
Adult Ovary
 
 341.6
Adult Testis
 
 18.3
Adult Male Accessory Gland
 
 150.2
Adult Carcass
 
 74.5
Expression Level Scale
 None 
 Low 
 Moderate 
 High 
log, scaled to High level expression
Tissue   Expression Level
Larval Central Nervous System
 
 168.525
Larval Midgut
 
 156.7
Larval Hindgut
 
 167.8
Larval Malpighian Tubules
 
 119.9
Larval Fat Body
 
 120.6
Larval Salivary Gland
 
 218.9
Larval Trachea
 
 105.1
Larval Carcass
 
 150.325
Adult Head
 
 111.2
Adult Eye
 
 63.725
Adult Brain
 
 208.7
Adult Thoracic-Abdominal Ganglion
 
 141.7
Adult Crop
 
 121.9
Adult Midgut
 
 105.5
Adult Hindgut
 
 124.1
Adult Malpighian Tubules
 
 73.6
Adult Fat Body
 
 117.4
Adult Salivary Gland
 
 165.9
Adult Heart
 
 81.65
Adult VirginFemale Spermatheca
 
 114.2
Adult InseminatedFemale Spermatheca
 
 106.9
Adult Ovary
 
 341.6
Adult Testis
 
 18.3
Adult Male Accessory Gland
 
 150.2
Adult Carcass
 
 74.5
Expression Level Scale
 None 
 Low 
 Moderate 
 High 
 Very high 
log, scaled to Very high expression
Tissue   Expression Level
Larval Central Nervous System
 
 168.525
Larval Midgut
 
 156.7
Larval Hindgut
 
 167.8
Larval Malpighian Tubules
 
 119.9
Larval Fat Body
 
 120.6
Larval Salivary Gland
 
 218.9
Larval Trachea
 
 105.1
Larval Carcass
 
 150.325
Adult Head
 
 111.2
Adult Eye
 
 63.725
Adult Brain
 
 208.7
Adult Thoracic-Abdominal Ganglion
 
 141.7
Adult Crop
 
 121.9
Adult Midgut
 
 105.5
Adult Hindgut
 
 124.1
Adult Malpighian Tubules
 
 73.6
Adult Fat Body
 
 117.4
Adult Salivary Gland
 
 165.9
Adult Heart
 
 81.65
Adult VirginFemale Spermatheca
 
 114.2
Adult InseminatedFemale Spermatheca
 
 106.9
Adult Ovary
 
 341.6
Adult Testis
 
 18.3
Adult Male Accessory Gland
 
 150.2
Adult Carcass
 
 74.5
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
 
 111.2
 
NA 
Eye
 
 63.725
 
NA 
Brain
 
 208.7
 
168.525 
Central Nervous System
 
 NA
 
NA 
Thoracic-Abdominal Ganglion
 
 141.7
 
NA 
Crop
 
 121.9
 
156.7 
Midgut
 
 105.5
 
167.8 
Hindgut
 
 124.1
 
119.9 
Malpighian Tubules
 
 73.6
 
120.6 
Fat Body
 
 117.4
 
218.9 
Salivary Gland
 
 165.9
 
NA 
Heart
 
 81.65
 
105.1 
Trachea
 
 NA
 
NA 
VirginFemale Spermatheca
 
 114.2
 
NA 
InseminatedFemale Spermatheca
 
 106.9
 
NA 
Ovary
 
 341.6
 
NA 
Testis
 
 18.3
 
NA 
Male Accessory Gland
 
 150.2
 
150.325 
Carcass
 
 74.5

FlyAtlas Anatomical Expression Data (Chintapalli et al., 2007)
hide modENCODE Anatomy RNA-Seq

modENCODE Tissue Expression Data

(modENCODE_mRNA-Seq_tissues)


   Styles
   Scales


[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
 
 21
central nervous system, larvae L3
 
 41
central nervous system, pupae P8
 
 28
head, virgin 1-day female
 
 19
head, virgin 4-day female
 
 25
head, virgin 20-day female
 
 14
head, mated 1-day female
 
 30
head, mated 4-day female
 
 19
head, mated 20-day female
 
 15
head, mated 1-day male
 
 28
head, mated 4-day male
 
 27
head, mated 20-day male
 
 20
salivary gland, larvae L3 wandering
 
 7
salivary gland, white prepupae
 
 46
digestive system, larvae L3 wandering
 
 39
digestive system, 1-day adult
 
 13
digestive system, 4-day adult
 
 19
digestive system, 20-day adult
 
 13
fat body, larvae L3 wandering
 
 15
fat body, white prepupae
 
 18
fat body, pupae P8
 
 14
carcass, larvae L3 wandering
 
 32
carcass, 1-day adult
 
 18
carcass, 4-day adult
 
 22
carcass, 20-day adult
 
 24
ovary, virgin 4-day female
 
 89
ovary, mated 4-day female
 
 102
testis, mated 4-day male
 
 6
accessory gland, mated 4-day male
 
 16
Expression Level Scale
 Very low 
 Low 
 Moderate 
 Moderately high 
 High 
 Very high 
Linear, scaled to Moderate expression
Tissue   Expression Level
imaginal disc, larvae L3 wandering
 
 21
central nervous system, larvae L3
 (41)
central nervous system, pupae P8
 (28)
head, virgin 1-day female
 
 19
head, virgin 4-day female
 
 25
head, virgin 20-day female
 
 14
head, mated 1-day female
 (30)
head, mated 4-day female
 
 19
head, mated 20-day female
 
 15
head, mated 1-day male
 (28)
head, mated 4-day male
 (27)
head, mated 20-day male
 
 20
salivary gland, larvae L3 wandering
 
 7
salivary gland, white prepupae
 (46)
digestive system, larvae L3 wandering
 (39)
digestive system, 1-day adult
 
 13
digestive system, 4-day adult
 
 19
digestive system, 20-day adult
 
 13
fat body, larvae L3 wandering
 
 15
fat body, white prepupae
 
 18
fat body, pupae P8
 
 14
carcass, larvae L3 wandering
 (32)
carcass, 1-day adult
 
 18
carcass, 4-day adult
 
 22
carcass, 20-day adult
 
 24
ovary, virgin 4-day female
 (89)
ovary, mated 4-day female
 (102)
testis, mated 4-day male
 
 6
accessory gland, mated 4-day male
 
 16
Expression Level Scale
 Very low 
 Low 
 Moderate 
 Moderately high 
Linear, scaled to High expression
Tissue   Expression Level
imaginal disc, larvae L3 wandering
 
 21
central nervous system, larvae L3
 
 41
central nervous system, pupae P8
 
 28
head, virgin 1-day female
 
 19
head, virgin 4-day female
 
 25
head, virgin 20-day female
 
 14
head, mated 1-day female
 
 30
head, mated 4-day female
 
 19
head, mated 20-day female
 
 15
head, mated 1-day male
 
 28
head, mated 4-day male
 
 27
head, mated 20-day male
 
 20
salivary gland, larvae L3 wandering
 
 7
salivary gland, white prepupae
 
 46
digestive system, larvae L3 wandering
 
 39
digestive system, 1-day adult
 
 13
digestive system, 4-day adult
 
 19
digestive system, 20-day adult
 
 13
fat body, larvae L3 wandering
 
 15
fat body, white prepupae
 
 18
fat body, pupae P8
 
 14
carcass, larvae L3 wandering
 
 32
carcass, 1-day adult
 
 18
carcass, 4-day adult
 
 22
carcass, 20-day adult
 
 24
ovary, virgin 4-day female
 
 89
ovary, mated 4-day female
 102
testis, mated 4-day male
 
 6
accessory gland, mated 4-day male
 
 16
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
 
 21
central nervous system, larvae L3
 
 41
central nervous system, pupae P8
 
 28
head, virgin 1-day female
 
 19
head, virgin 4-day female
 
 25
head, virgin 20-day female
 
 14
head, mated 1-day female
 
 30
head, mated 4-day female
 
 19
head, mated 20-day female
 
 15
head, mated 1-day male
 
 28
head, mated 4-day male
 
 27
head, mated 20-day male
 
 20
salivary gland, larvae L3 wandering
 
 7
salivary gland, white prepupae
 
 46
digestive system, larvae L3 wandering
 
 39
digestive system, 1-day adult
 
 13
digestive system, 4-day adult
 
 19
digestive system, 20-day adult
 
 13
fat body, larvae L3 wandering
 
 15
fat body, white prepupae
 
 18
fat body, pupae P8
 
 14
carcass, larvae L3 wandering
 
 32
carcass, 1-day adult
 
 18
carcass, 4-day adult
 
 22
carcass, 20-day adult
 
 24
ovary, virgin 4-day female
 
 89
ovary, mated 4-day female
 
 102
testis, mated 4-day male
 
 6
accessory gland, mated 4-day male
 
 16
Expression Level Scale
 Extremely high 
log, scaled to maximum expression level
Tissue   Expression Level
imaginal disc, larvae L3 wandering
 
 21
central nervous system, larvae L3
 
 41
central nervous system, pupae P8
 
 28
head, virgin 1-day female
 
 19
head, virgin 4-day female
 
 25
head, virgin 20-day female
 
 14
head, mated 1-day female
 
 30
head, mated 4-day female
 
 19
head, mated 20-day female
 
 15
head, mated 1-day male
 
 28
head, mated 4-day male
 
 27
head, mated 20-day male
 
 20
salivary gland, larvae L3 wandering
 
 7
salivary gland, white prepupae
 
 46
digestive system, larvae L3 wandering
 
 39
digestive system, 1-day adult
 
 13
digestive system, 4-day adult
 
 19
digestive system, 20-day adult
 
 13
fat body, larvae L3 wandering
 
 15
fat body, white prepupae
 
 18
fat body, pupae P8
 
 14
carcass, larvae L3 wandering
 
 32
carcass, 1-day adult
 
 18
carcass, 4-day adult
 
 22
carcass, 20-day adult
 
 24
ovary, virgin 4-day female
 
 89
ovary, mated 4-day female
 
 102
testis, mated 4-day male
 
 6
accessory gland, mated 4-day male
 
 16
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
 
 21
central nervous system, larvae L3
 (41)
central nervous system, pupae P8
 28
head, virgin 1-day female
 
 19
head, virgin 4-day female
 
 25
head, virgin 20-day female
 
 14
head, mated 1-day female
 30
head, mated 4-day female
 
 19
head, mated 20-day female
 
 15
head, mated 1-day male
 28
head, mated 4-day male
 27
head, mated 20-day male
 
 20
salivary gland, larvae L3 wandering
 
 7
salivary gland, white prepupae
 (46)
digestive system, larvae L3 wandering
 (39)
digestive system, 1-day adult
 
 13
digestive system, 4-day adult
 
 19
digestive system, 20-day adult
 
 13
fat body, larvae L3 wandering
 
 15
fat body, white prepupae
 
 18
fat body, pupae P8
 
 14
carcass, larvae L3 wandering
 32
carcass, 1-day adult
 
 18
carcass, 4-day adult
 
 22
carcass, 20-day adult
 
 24
ovary, virgin 4-day female
 (89)
ovary, mated 4-day female
 (102)
testis, mated 4-day male
 
 6
accessory gland, mated 4-day male
 
 16
Expression Level Scale
 Very low 
 Low 
 Moderate 
 Moderately high 
log, scaled to High expression
Tissue   Expression Level
imaginal disc, larvae L3 wandering
 
 21
central nervous system, larvae L3
 
 41
central nervous system, pupae P8
 
 28
head, virgin 1-day female
 
 19
head, virgin 4-day female
 
 25
head, virgin 20-day female
 
 14
head, mated 1-day female
 
 30
head, mated 4-day female
 
 19
head, mated 20-day female
 
 15
head, mated 1-day male
 
 28
head, mated 4-day male
 
 27
head, mated 20-day male
 
 20
salivary gland, larvae L3 wandering
 
 7
salivary gland, white prepupae
 
 46
digestive system, larvae L3 wandering
 
 39
digestive system, 1-day adult
 
 13
digestive system, 4-day adult
 
 19
digestive system, 20-day adult
 
 13
fat body, larvae L3 wandering
 
 15
fat body, white prepupae
 
 18
fat body, pupae P8
 
 14
carcass, larvae L3 wandering
 
 32
carcass, 1-day adult
 
 18
carcass, 4-day adult
 
 22
carcass, 20-day adult
 
 24
ovary, virgin 4-day female
 
 89
ovary, mated 4-day female
 102
testis, mated 4-day male
 
 6
accessory gland, mated 4-day male
 
 16
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
 
 21
central nervous system, larvae L3
 
 41
central nervous system, pupae P8
 
 28
head, virgin 1-day female
 
 19
head, virgin 4-day female
 
 25
head, virgin 20-day female
 
 14
head, mated 1-day female
 
 30
head, mated 4-day female
 
 19
head, mated 20-day female
 
 15
head, mated 1-day male
 
 28
head, mated 4-day male
 
 27
head, mated 20-day male
 
 20
salivary gland, larvae L3 wandering
 
 7
salivary gland, white prepupae
 
 46
digestive system, larvae L3 wandering
 
 39
digestive system, 1-day adult
 
 13
digestive system, 4-day adult
 
 19
digestive system, 20-day adult
 
 13
fat body, larvae L3 wandering
 
 15
fat body, white prepupae
 
 18
fat body, pupae P8
 
 14
carcass, larvae L3 wandering
 
 32
carcass, 1-day adult
 
 18
carcass, 4-day adult
 
 22
carcass, 20-day adult
 
 24
ovary, virgin 4-day female
 
 89
ovary, mated 4-day female
 
 102
testis, mated 4-day male
 
 6
accessory gland, mated 4-day male
 
 16
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
 
 

hide modENCODE Development RNA-Seq

modENCODE Temporal Expression Data

(modENCODE_mRNA-Seq_U)


   Styles
   Scales

Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of moderate expression. Peak expression observed within 00-06 hour embryonic stages, in adult female 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
 
 82
embryo 02-04hr
 
 14
embryo 04-06hr
 
 14
embryo 06-08hr
 
 21
embryo 08-10hr
 
 19
embryo 10-12hr
 
 22
embryo 12-14hr
 
 17
embryo 14-16hr
 
 19
embryo 16-18hr
 
 14
embryo 18-20hr
 
 15
embryo 20-22hr
 
 12
embryo 22-24hr
 
 11
larva L1
 
 13
larva L2
 
 15
larva L3 12hr old
 
 12
larva L3 puffstage 1-2
 
 13
larva L3 puffstage 3-6
 
 22
larva L3 puffstage 7-9
 
 26
white prepupae new
 
 29
white prepupae 12hr
 
 36
white prepupae 24hr
 
 30
pupae 2d postWPP
 
 26
pupae 3d postWPP
 
 13
pupae 4d postWPP
 
 14
adult male 01day
 
 15
adult male 05day
 
 16
adult male 30day
 
 16
adult female 01day
 
 36
adult female 05day
 
 51
adult female 30day
 
 55
Expression Level Scale
 Very low 
 Low 
 Moderate 
 Moderately high 
 High 
Linear, scaled to Moderate expression
Developmental Stage   Expression Level
embryo 00-02hr
 (82)
embryo 02-04hr
 
 14
embryo 04-06hr
 
 14
embryo 06-08hr
 
 21
embryo 08-10hr
 
 19
embryo 10-12hr
 
 22
embryo 12-14hr
 
 17
embryo 14-16hr
 
 19
embryo 16-18hr
 
 14
embryo 18-20hr
 
 15
embryo 20-22hr
 
 12
embryo 22-24hr
 
 11
larva L1
 
 13
larva L2
 
 15
larva L3 12hr old
 
 12
larva L3 puffstage 1-2
 
 13
larva L3 puffstage 3-6
 
 22
larva L3 puffstage 7-9
 26
white prepupae new
 (29)
white prepupae 12hr
 (36)
white prepupae 24hr
 (30)
pupae 2d postWPP
 26
pupae 3d postWPP
 
 13
pupae 4d postWPP
 
 14
adult male 01day
 
 15
adult male 05day
 
 16
adult male 30day
 
 16
adult female 01day
 (36)
adult female 05day
 (51)
adult female 30day
 (55)
Expression Level Scale
 Very low 
 Low 
 Moderate 
 Moderately high 
Linear, scaled to High expression
Developmental Stage   Expression Level
embryo 00-02hr
 
 82
embryo 02-04hr
 
 14
embryo 04-06hr
 
 14
embryo 06-08hr
 
 21
embryo 08-10hr
 
 19
embryo 10-12hr
 
 22
embryo 12-14hr
 
 17
embryo 14-16hr
 
 19
embryo 16-18hr
 
 14
embryo 18-20hr
 
 15
embryo 20-22hr
 
 12
embryo 22-24hr
 
 11
larva L1
 
 13
larva L2
 
 15
larva L3 12hr old
 
 12
larva L3 puffstage 1-2
 
 13
larva L3 puffstage 3-6
 
 22
larva L3 puffstage 7-9
 
 26
white prepupae new
 
 29
white prepupae 12hr
 
 36
white prepupae 24hr
 
 30
pupae 2d postWPP
 
 26
pupae 3d postWPP
 
 13
pupae 4d postWPP
 
 14
adult male 01day
 
 15
adult male 05day
 
 16
adult male 30day
 
 16
adult female 01day
 
 36
adult female 05day
 
 51
adult female 30day
 
 55
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
 
 82
embryo 02-04hr
 
 14
embryo 04-06hr
 
 14
embryo 06-08hr
 
 21
embryo 08-10hr
 
 19
embryo 10-12hr
 
 22
embryo 12-14hr
 
 17
embryo 14-16hr
 
 19
embryo 16-18hr
 
 14
embryo 18-20hr
 
 15
embryo 20-22hr
 
 12
embryo 22-24hr
 
 11
larva L1
 
 13
larva L2
 
 15
larva L3 12hr old
 
 12
larva L3 puffstage 1-2
 
 13
larva L3 puffstage 3-6
 
 22
larva L3 puffstage 7-9
 
 26
white prepupae new
 
 29
white prepupae 12hr
 
 36
white prepupae 24hr
 
 30
pupae 2d postWPP
 
 26
pupae 3d postWPP
 
 13
pupae 4d postWPP
 
 14
adult male 01day
 
 15
adult male 05day
 
 16
adult male 30day
 
 16
adult female 01day
 
 36
adult female 05day
 
 51
adult female 30day
 
 55
Expression Level Scale
 Extremely high 
log, scaled to maximum expression level
Developmental Stage   Expression Level
embryo 00-02hr
 
 82
embryo 02-04hr
 
 14
embryo 04-06hr
 
 14
embryo 06-08hr
 
 21
embryo 08-10hr
 
 19
embryo 10-12hr
 
 22
embryo 12-14hr
 
 17
embryo 14-16hr
 
 19
embryo 16-18hr
 
 14
embryo 18-20hr
 
 15
embryo 20-22hr
 
 12
embryo 22-24hr
 
 11
larva L1
 
 13
larva L2
 
 15
larva L3 12hr old
 
 12
larva L3 puffstage 1-2
 
 13
larva L3 puffstage 3-6
 
 22
larva L3 puffstage 7-9
 
 26
white prepupae new
 
 29
white prepupae 12hr
 
 36
white prepupae 24hr
 
 30
pupae 2d postWPP
 
 26
pupae 3d postWPP
 
 13
pupae 4d postWPP
 
 14
adult male 01day
 
 15
adult male 05day
 
 16
adult male 30day
 
 16
adult female 01day
 
 36
adult female 05day
 
 51
adult female 30day
 
 55
Expression Level Scale
 Very low 
 Low 
 Moderate 
 Moderately high 
 High 
 Very high 
log, scaled to Moderate expression
Developmental Stage   Expression Level
embryo 00-02hr
 (82)
embryo 02-04hr
 
 14
embryo 04-06hr
 
 14
embryo 06-08hr
 
 21
embryo 08-10hr
 
 19
embryo 10-12hr
 
 22
embryo 12-14hr
 
 17
embryo 14-16hr
 
 19
embryo 16-18hr
 
 14
embryo 18-20hr
 
 15
embryo 20-22hr
 
 12
embryo 22-24hr
 
 11
larva L1
 
 13
larva L2
 
 15
larva L3 12hr old
 
 12
larva L3 puffstage 1-2
 
 13
larva L3 puffstage 3-6
 
 22
larva L3 puffstage 7-9
 26
white prepupae new
 29
white prepupae 12hr
 (36)
white prepupae 24hr
 30
pupae 2d postWPP
 26
pupae 3d postWPP
 
 13
pupae 4d postWPP
 
 14
adult male 01day
 
 15
adult male 05day
 
 16
adult male 30day
 
 16
adult female 01day
 (36)
adult female 05day
 (51)
adult female 30day
 (55)
Expression Level Scale
 Very low 
 Low 
 Moderate 
 Moderately high 
log, scaled to High expression
Developmental Stage   Expression Level
embryo 00-02hr
 
 82
embryo 02-04hr
 
 14
embryo 04-06hr
 
 14
embryo 06-08hr
 
 21
embryo 08-10hr
 
 19
embryo 10-12hr
 
 22
embryo 12-14hr
 
 17
embryo 14-16hr
 
 19
embryo 16-18hr
 
 14
embryo 18-20hr
 
 15
embryo 20-22hr
 
 12
embryo 22-24hr
 
 11
larva L1
 
 13
larva L2
 
 15
larva L3 12hr old
 
 12
larva L3 puffstage 1-2
 
 13
larva L3 puffstage 3-6
 
 22
larva L3 puffstage 7-9
 
 26
white prepupae new
 
 29
white prepupae 12hr
 
 36
white prepupae 24hr
 
 30
pupae 2d postWPP
 
 26
pupae 3d postWPP
 
 13
pupae 4d postWPP
 
 14
adult male 01day
 
 15
adult male 05day
 
 16
adult male 30day
 
 16
adult female 01day
 
 36
adult female 05day
 
 51
adult female 30day
 
 55
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
 
 82
embryo 02-04hr
 
 14
embryo 04-06hr
 
 14
embryo 06-08hr
 
 21
embryo 08-10hr
 
 19
embryo 10-12hr
 
 22
embryo 12-14hr
 
 17
embryo 14-16hr
 
 19
embryo 16-18hr
 
 14
embryo 18-20hr
 
 15
embryo 20-22hr
 
 12
embryo 22-24hr
 
 11
larva L1
 
 13
larva L2
 
 15
larva L3 12hr old
 
 12
larva L3 puffstage 1-2
 
 13
larva L3 puffstage 3-6
 
 22
larva L3 puffstage 7-9
 
 26
white prepupae new
 
 29
white prepupae 12hr
 
 36
white prepupae 24hr
 
 30
pupae 2d postWPP
 
 26
pupae 3d postWPP
 
 13
pupae 4d postWPP
 
 14
adult male 01day
 
 15
adult male 05day
 
 16
adult male 30day
 
 16
adult female 01day
 
 36
adult female 05day
 
 51
adult female 30day
 
 55
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)
hide modENCODE Cell Lines RNA-Seq

modENCODE Cell Line Expression Data

(modENCODE_mRNA-Seq_cell.A)

(modENCODE_mRNA-Seq_cell.B)


   Styles
   Scales


[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+
 
 44
Schneider line 2 Sg4
 
 22
embryonic 1182-4H
 
 21
embryonic GM2
 
 19
embryonic Kc167
 
 16
embryonic S1
 
 37
embryonic S3
 
 21
leg disc CME L1
 
 27
wing disc CME-W2
 
 15
wing disc ML-DmD8
 
 19
wing disc ML-DmD9
 
 24
wing disc ML-DmD16-c3
 
 42
wing disc ML-DmD21
 
 28
wing disc ML-DmD32
 
 29
haltere disc ML-DmD17-c3
 
 42
eye-antennal disc ML-DmD11
 
 29
antennal disc ML-DmD20-c5
 
 25
mixed discs ML-DmD4-c1
 
 30
CNS ML-DmBG1-c1
 
 16
CNS ML-DmBG2-c2
 
 13
tumorous blood cells mbn2
 
 24
ovary fGS/OSS
 
 70
ovary OSC
 
 48
ovary OSS
 
 38
Expression Level Scale
 Very low 
 Low 
 Moderate 
 Moderately high 
 High 
Linear, scaled to Moderate expression
Cell Line   Expression Level
Schneider line 2 S2R+
 (44)
Schneider line 2 Sg4
 
 22
embryonic 1182-4H
 
 21
embryonic GM2
 
 19
embryonic Kc167
 
 16
embryonic S1
 (37)
embryonic S3
 
 21
leg disc CME L1
 (27)
wing disc CME-W2
 
 15
wing disc ML-DmD8
 
 19
wing disc ML-DmD9
 
 24
wing disc ML-DmD16-c3
 (42)
wing disc ML-DmD21
 (28)
wing disc ML-DmD32
 (29)
haltere disc ML-DmD17-c3
 (42)
eye-antennal disc ML-DmD11
 (29)
antennal disc ML-DmD20-c5
 
 25
mixed discs ML-DmD4-c1
 (30)
CNS ML-DmBG1-c1
 
 16
CNS ML-DmBG2-c2
 
 13
tumorous blood cells mbn2
 
 24
ovary fGS/OSS
 (70)
ovary OSC
 (48)
ovary OSS
 (38)
Expression Level Scale
 Very low 
 Low 
 Moderate 
 Moderately high 
Linear, scaled to High expression
Cell Line   Expression Level
Schneider line 2 S2R+
 
 44
Schneider line 2 Sg4
 
 22
embryonic 1182-4H
 
 21
embryonic GM2
 
 19
embryonic Kc167
 
 16
embryonic S1
 
 37
embryonic S3
 
 21
leg disc CME L1
 
 27
wing disc CME-W2
 
 15
wing disc ML-DmD8
 
 19
wing disc ML-DmD9
 
 24
wing disc ML-DmD16-c3
 
 42
wing disc ML-DmD21
 
 28
wing disc ML-DmD32
 
 29
haltere disc ML-DmD17-c3
 
 42
eye-antennal disc ML-DmD11
 
 29
antennal disc ML-DmD20-c5
 
 25
mixed discs ML-DmD4-c1
 
 30
CNS ML-DmBG1-c1
 
 16
CNS ML-DmBG2-c2
 
 13
tumorous blood cells mbn2
 
 24
ovary fGS/OSS
 
 70
ovary OSC
 
 48
ovary OSS
 
 38
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+
 
 44
Schneider line 2 Sg4
 
 22
embryonic 1182-4H
 
 21
embryonic GM2
 
 19
embryonic Kc167
 
 16
embryonic S1
 
 37
embryonic S3
 
 21
leg disc CME L1
 
 27
wing disc CME-W2
 
 15
wing disc ML-DmD8
 
 19
wing disc ML-DmD9
 
 24
wing disc ML-DmD16-c3
 
 42
wing disc ML-DmD21
 
 28
wing disc ML-DmD32
 
 29
haltere disc ML-DmD17-c3
 
 42
eye-antennal disc ML-DmD11
 
 29
antennal disc ML-DmD20-c5
 
 25
mixed discs ML-DmD4-c1
 
 30
CNS ML-DmBG1-c1
 
 16
CNS ML-DmBG2-c2
 
 13
tumorous blood cells mbn2
 
 24
ovary fGS/OSS
 
 70
ovary OSC
 
 48
ovary OSS
 
 38
Expression Level Scale
 Extremely high 
log, scaled to maximum expression level
Cell Line   Expression Level
Schneider line 2 S2R+
 
 44
Schneider line 2 Sg4
 
 22
embryonic 1182-4H
 
 21
embryonic GM2
 
 19
embryonic Kc167
 
 16
embryonic S1
 
 37
embryonic S3
 
 21
leg disc CME L1
 
 27
wing disc CME-W2
 
 15
wing disc ML-DmD8
 
 19
wing disc ML-DmD9
 
 24
wing disc ML-DmD16-c3
 
 42
wing disc ML-DmD21
 
 28
wing disc ML-DmD32
 
 29
haltere disc ML-DmD17-c3
 
 42
eye-antennal disc ML-DmD11
 
 29
antennal disc ML-DmD20-c5
 
 25
mixed discs ML-DmD4-c1
 
 30
CNS ML-DmBG1-c1
 
 16
CNS ML-DmBG2-c2
 
 13
tumorous blood cells mbn2
 
 24
ovary fGS/OSS
 
 70
ovary OSC
 
 48
ovary OSS
 
 38
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+
 (44)
Schneider line 2 Sg4
 
 22
embryonic 1182-4H
 
 21
embryonic GM2
 
 19
embryonic Kc167
 
 16
embryonic S1
 (37)
embryonic S3
 
 21
leg disc CME L1
 27
wing disc CME-W2
 
 15
wing disc ML-DmD8
 
 19
wing disc ML-DmD9
 
 24
wing disc ML-DmD16-c3
 (42)
wing disc ML-DmD21
 28
wing disc ML-DmD32
 29
haltere disc ML-DmD17-c3
 (42)
eye-antennal disc ML-DmD11
 29
antennal disc ML-DmD20-c5
 
 25
mixed discs ML-DmD4-c1
 30
CNS ML-DmBG1-c1
 
 16
CNS ML-DmBG2-c2
 
 13
tumorous blood cells mbn2
 
 24
ovary fGS/OSS
 (70)
ovary OSC
 (48)
ovary OSS
 (38)
Expression Level Scale
 Very low 
 Low 
 Moderate 
 Moderately high 
log, scaled to High expression
Cell Line   Expression Level
Schneider line 2 S2R+
 
 44
Schneider line 2 Sg4
 
 22
embryonic 1182-4H
 
 21
embryonic GM2
 
 19
embryonic Kc167
 
 16
embryonic S1
 
 37
embryonic S3
 
 21
leg disc CME L1
 
 27
wing disc CME-W2
 
 15
wing disc ML-DmD8
 
 19
wing disc ML-DmD9
 
 24
wing disc ML-DmD16-c3
 
 42
wing disc ML-DmD21
 
 28
wing disc ML-DmD32
 
 29
haltere disc ML-DmD17-c3
 
 42
eye-antennal disc ML-DmD11
 
 29
antennal disc ML-DmD20-c5
 
 25
mixed discs ML-DmD4-c1
 
 30
CNS ML-DmBG1-c1
 
 16
CNS ML-DmBG2-c2
 
 13
tumorous blood cells mbn2
 
 24
ovary fGS/OSS
 
 70
ovary OSC
 
 48
ovary OSS
 
 38
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+
 
 44
Schneider line 2 Sg4
 
 22
embryonic 1182-4H
 
 21
embryonic GM2
 
 19
embryonic Kc167
 
 16
embryonic S1
 
 37
embryonic S3
 
 21
leg disc CME L1
 
 27
wing disc CME-W2
 
 15
wing disc ML-DmD8
 
 19
wing disc ML-DmD9
 
 24
wing disc ML-DmD16-c3
 
 42
wing disc ML-DmD21
 
 28
wing disc ML-DmD32
 
 29
haltere disc ML-DmD17-c3
 
 42
eye-antennal disc ML-DmD11
 
 29
antennal disc ML-DmD20-c5
 
 25
mixed discs ML-DmD4-c1
 
 30
CNS ML-DmBG1-c1
 
 16
CNS ML-DmBG2-c2
 
 13
tumorous blood cells mbn2
 
 24
ovary fGS/OSS
 
 70
ovary OSC
 
 48
ovary OSS
 
 38
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
 
 

hide modENCODE Treatments RNA-Seq

modENCODE Treatment Expression Data

(modENCODE_mRNA-Seq_treatments)


   Styles
   Scales


[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
 
 41
cold shock, 4-day adult
 
 32
heat shock, 4-day adult
 
 25
Cadmium 50 mM 6 hrs, larvae L3
 
 12
Cadmium 50 mM 12 hrs, larvae L3
 
 10
Cadmium 50 mM 48 hrs, 4-day adult
 
 33
Cadmium 100 mM 48 hrs, 4-day adult
 
 84
Copper 0.5 mM 12 hrs, larvae L3
 
 22
Copper 15 mM 48 hrs, 4-day adult
 
 96
Zinc 5 mM 12 hrs, larvae L3
 
 23
Zinc 4.5 mM 48 hrs, 4-day adult
 
 42
Ethanol 2.5% 3 hrs, larvae L3
 
 51
Ethanol 5% 3 hrs, larvae L3
 
 10
Ethanol 10% 3 hrs, larvae L3
 
 9
Caffeine 1.5 mg/ml 4 hrs, larvae L3
 
 11
Caffeine 2.5 mg/ml 48 hrs, 4-day adult
 
 75
Caffeine 25 mg/ml 48 hrs, 4-day adult
 
 38
Paraquat 5 mM 48 hrs, 4-day adult
 
 49
Paraquat 10 mM 48 hrs, 4-day adult
 
 36
Rotenone 2 μg 12 hrs, larvae L3
 
 11
Rotenone 8 μg 12 hrs, larvae L3
 
 12
Expression Level Scale
 Very low 
 Low 
 Moderate 
 Moderately high 
 High 
 Very high 
Linear, scaled to Moderate expression
Treatment   Expression Level
extended cold, 4-day adult
 (41)
cold shock, 4-day adult
 (32)
heat shock, 4-day adult
 
 25
Cadmium 50 mM 6 hrs, larvae L3
 
 12
Cadmium 50 mM 12 hrs, larvae L3
 
 10
Cadmium 50 mM 48 hrs, 4-day adult
 (33)
Cadmium 100 mM 48 hrs, 4-day adult
 (84)
Copper 0.5 mM 12 hrs, larvae L3
 
 22
Copper 15 mM 48 hrs, 4-day adult
 (96)
Zinc 5 mM 12 hrs, larvae L3
 
 23
Zinc 4.5 mM 48 hrs, 4-day adult
 (42)
Ethanol 2.5% 3 hrs, larvae L3
 (51)
Ethanol 5% 3 hrs, larvae L3
 
 10
Ethanol 10% 3 hrs, larvae L3
 
 9
Caffeine 1.5 mg/ml 4 hrs, larvae L3
 
 11
Caffeine 2.5 mg/ml 48 hrs, 4-day adult
 (75)
Caffeine 25 mg/ml 48 hrs, 4-day adult
 (38)
Paraquat 5 mM 48 hrs, 4-day adult
 (49)
Paraquat 10 mM 48 hrs, 4-day adult
 (36)
Rotenone 2 μg 12 hrs, larvae L3
 
 11
Rotenone 8 μg 12 hrs, larvae L3
 
 12
Expression Level Scale
 Very low 
 Low 
 Moderate 
 Moderately high 
Linear, scaled to High expression
Treatment   Expression Level
extended cold, 4-day adult
 
 41
cold shock, 4-day adult
 
 32
heat shock, 4-day adult
 
 25
Cadmium 50 mM 6 hrs, larvae L3
 
 12
Cadmium 50 mM 12 hrs, larvae L3
 
 10
Cadmium 50 mM 48 hrs, 4-day adult
 
 33
Cadmium 100 mM 48 hrs, 4-day adult
 
 84
Copper 0.5 mM 12 hrs, larvae L3
 
 22
Copper 15 mM 48 hrs, 4-day adult
 
 96
Zinc 5 mM 12 hrs, larvae L3
 
 23
Zinc 4.5 mM 48 hrs, 4-day adult
 
 42
Ethanol 2.5% 3 hrs, larvae L3
 
 51
Ethanol 5% 3 hrs, larvae L3
 
 10
Ethanol 10% 3 hrs, larvae L3
 
 9
Caffeine 1.5 mg/ml 4 hrs, larvae L3
 
 11
Caffeine 2.5 mg/ml 48 hrs, 4-day adult
 
 75
Caffeine 25 mg/ml 48 hrs, 4-day adult
 
 38
Paraquat 5 mM 48 hrs, 4-day adult
 
 49
Paraquat 10 mM 48 hrs, 4-day adult
 
 36
Rotenone 2 μg 12 hrs, larvae L3
 
 11
Rotenone 8 μg 12 hrs, larvae L3
 
 12
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
 
 41
cold shock, 4-day adult
 
 32
heat shock, 4-day adult
 
 25
Cadmium 50 mM 6 hrs, larvae L3
 
 12
Cadmium 50 mM 12 hrs, larvae L3
 
 10
Cadmium 50 mM 48 hrs, 4-day adult
 
 33
Cadmium 100 mM 48 hrs, 4-day adult
 
 84
Copper 0.5 mM 12 hrs, larvae L3
 
 22
Copper 15 mM 48 hrs, 4-day adult
 
 96
Zinc 5 mM 12 hrs, larvae L3
 
 23
Zinc 4.5 mM 48 hrs, 4-day adult
 
 42
Ethanol 2.5% 3 hrs, larvae L3
 
 51
Ethanol 5% 3 hrs, larvae L3
 
 10
Ethanol 10% 3 hrs, larvae L3
 
 9
Caffeine 1.5 mg/ml 4 hrs, larvae L3
 
 11
Caffeine 2.5 mg/ml 48 hrs, 4-day adult
 
 75
Caffeine 25 mg/ml 48 hrs, 4-day adult
 
 38
Paraquat 5 mM 48 hrs, 4-day adult
 
 49
Paraquat 10 mM 48 hrs, 4-day adult
 
 36
Rotenone 2 μg 12 hrs, larvae L3
 
 11
Rotenone 8 μg 12 hrs, larvae L3
 
 12
Expression Level Scale
 Extremely high 
log, scaled to maximum expression level
Treatment   Expression Level
extended cold, 4-day adult
 
 41
cold shock, 4-day adult
 
 32
heat shock, 4-day adult
 
 25
Cadmium 50 mM 6 hrs, larvae L3
 
 12
Cadmium 50 mM 12 hrs, larvae L3
 
 10
Cadmium 50 mM 48 hrs, 4-day adult
 
 33
Cadmium 100 mM 48 hrs, 4-day adult
 
 84
Copper 0.5 mM 12 hrs, larvae L3
 
 22
Copper 15 mM 48 hrs, 4-day adult
 
 96
Zinc 5 mM 12 hrs, larvae L3
 
 23
Zinc 4.5 mM 48 hrs, 4-day adult
 
 42
Ethanol 2.5% 3 hrs, larvae L3
 
 51
Ethanol 5% 3 hrs, larvae L3
 
 10
Ethanol 10% 3 hrs, larvae L3
 
 9
Caffeine 1.5 mg/ml 4 hrs, larvae L3
 
 11
Caffeine 2.5 mg/ml 48 hrs, 4-day adult
 
 75
Caffeine 25 mg/ml 48 hrs, 4-day adult
 
 38
Paraquat 5 mM 48 hrs, 4-day adult
 
 49
Paraquat 10 mM 48 hrs, 4-day adult
 
 36
Rotenone 2 μg 12 hrs, larvae L3
 
 11
Rotenone 8 μg 12 hrs, larvae L3
 
 12
Expression Level Scale
 Very low 
 Low 
 Moderate 
 Moderately high 
 High 
 Very high 
log, scaled to Moderate expression
Treatment   Expression Level
extended cold, 4-day adult
 (41)
cold shock, 4-day adult
 32
heat shock, 4-day adult
 
 25
Cadmium 50 mM 6 hrs, larvae L3
 
 12
Cadmium 50 mM 12 hrs, larvae L3
 
 10
Cadmium 50 mM 48 hrs, 4-day adult
 (33)
Cadmium 100 mM 48 hrs, 4-day adult
 (84)
Copper 0.5 mM 12 hrs, larvae L3
 
 22
Copper 15 mM 48 hrs, 4-day adult
 (96)
Zinc 5 mM 12 hrs, larvae L3
 
 23
Zinc 4.5 mM 48 hrs, 4-day adult
 (42)
Ethanol 2.5% 3 hrs, larvae L3
 (51)
Ethanol 5% 3 hrs, larvae L3
 
 10
Ethanol 10% 3 hrs, larvae L3
 
 9
Caffeine 1.5 mg/ml 4 hrs, larvae L3
 
 11
Caffeine 2.5 mg/ml 48 hrs, 4-day adult
 (75)
Caffeine 25 mg/ml 48 hrs, 4-day adult
 (38)
Paraquat 5 mM 48 hrs, 4-day adult
 (49)
Paraquat 10 mM 48 hrs, 4-day adult
 (36)
Rotenone 2 μg 12 hrs, larvae L3
 
 11
Rotenone 8 μg 12 hrs, larvae L3
 
 12
Expression Level Scale
 Very low 
 Low 
 Moderate 
 Moderately high 
log, scaled to High expression
Treatment   Expression Level
extended cold, 4-day adult
 
 41
cold shock, 4-day adult
 
 32
heat shock, 4-day adult
 
 25
Cadmium 50 mM 6 hrs, larvae L3
 
 12
Cadmium 50 mM 12 hrs, larvae L3
 
 10
Cadmium 50 mM 48 hrs, 4-day adult
 
 33
Cadmium 100 mM 48 hrs, 4-day adult
 
 84
Copper 0.5 mM 12 hrs, larvae L3
 
 22
Copper 15 mM 48 hrs, 4-day adult
 
 96
Zinc 5 mM 12 hrs, larvae L3
 
 23
Zinc 4.5 mM 48 hrs, 4-day adult
 
 42
Ethanol 2.5% 3 hrs, larvae L3
 
 51
Ethanol 5% 3 hrs, larvae L3
 
 10
Ethanol 10% 3 hrs, larvae L3
 
 9
Caffeine 1.5 mg/ml 4 hrs, larvae L3
 
 11
Caffeine 2.5 mg/ml 48 hrs, 4-day adult
 
 75
Caffeine 25 mg/ml 48 hrs, 4-day adult
 
 38
Paraquat 5 mM 48 hrs, 4-day adult
 
 49
Paraquat 10 mM 48 hrs, 4-day adult
 
 36
Rotenone 2 μg 12 hrs, larvae L3
 
 11
Rotenone 8 μg 12 hrs, larvae L3
 
 12
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
 
 41
cold shock, 4-day adult
 
 32
heat shock, 4-day adult
 
 25
Cadmium 50 mM 6 hrs, larvae L3
 
 12
Cadmium 50 mM 12 hrs, larvae L3
 
 10
Cadmium 50 mM 48 hrs, 4-day adult
 
 33
Cadmium 100 mM 48 hrs, 4-day adult
 
 84
Copper 0.5 mM 12 hrs, larvae L3
 
 22
Copper 15 mM 48 hrs, 4-day adult
 
 96
Zinc 5 mM 12 hrs, larvae L3
 
 23
Zinc 4.5 mM 48 hrs, 4-day adult
 
 42
Ethanol 2.5% 3 hrs, larvae L3
 
 51
Ethanol 5% 3 hrs, larvae L3
 
 10
Ethanol 10% 3 hrs, larvae L3
 
 9
Caffeine 1.5 mg/ml 4 hrs, larvae L3
 
 11
Caffeine 2.5 mg/ml 48 hrs, 4-day adult
 
 75
Caffeine 25 mg/ml 48 hrs, 4-day adult
 
 38
Paraquat 5 mM 48 hrs, 4-day adult
 
 49
Paraquat 10 mM 48 hrs, 4-day adult
 
 36
Rotenone 2 μg 12 hrs, larvae L3
 
 11
Rotenone 8 μg 12 hrs, larvae L3
 
 12
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
 
 

hide Expression Clusters
A cluster of genes with similar mRNA expression dynamics across development.
hide External Data & Images
Linkouts
FLIGHT - Cell culture data for RNAi and other high-throughput technologies
FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
hide Alleles & Phenotypes
hide Summary of Allele Phenotypes
Lethality
Allele
Other Phenotypes
Allele
Phenotype manifest in
Allele
adult mushroom body & axon
antennal lobe & axon
dorsal mesothoracic disc & neuron | somatic clone
gamma-lobe & neuron | somatic clone
olfactory neuron & axon
olfactory neuron & dendrite
hide Classical Alleles ( 8 )
For All Classical Alleles Show

Allele of uspClassMutagenStocksKnown lesion
usp4hypomorphic allele - genetic evidence2 Yes
usp2amorphic allele - genetic evidence, loss of function allele1 Yes
usp3hypomorphic allele - genetic evidence1 Yes
usp10 --
usp50 Yes
uspunspecified
0 --
uspΔ1480 Yes
uspΔ2080 Yes
hide Alleles Carried on Transgenic Constructs ( 21 )
For All Alleles Carried on Transgenic Constructs Show

Allele of uspClassMutagenStocksKnown lesion
usphs.T:Scer\GAL42 Yes
uspGD15541 Yes
uspHMS016201 Yes
usphs.PO1 Yes
uspJF025461 Yes
uspT:Avic\GFP-SF,T:Zzzz\FLAG1 Yes
usp574.dsRNA.Scer\UAS0 Yes
uspAct5C.PS0 Yes
uspAct5C.PW0 Yes
uspcDa0 Yes
uspdsRNA.cBa0 Yes
uspdsRNA.Scer\UAS0 Yes
uspGMR.PZ0 Yes
usphs.C.T:Ecol\dam,T:Hsap\MYC0 Yes
usphs.N.T:Ecol\dam,T:Hsap\MYC0 Yes
uspMtnA.PD0 Yes
uspNIG.4380R0 Yes
uspScer\UAS.cCa0 Yes
uspScer\UAS.cGa0 Yes
uspScer\UAS.cJa0 Yes
usptOa0 Yes
hide Aneuploid Aberrations
Partially disrupted in
Duplicated in
Not disrupted in
Not duplicated in
Disrupted in
hide Transgenic Constructs & Insertions
Transgenic Constructs
Type of construct
Name
Expression data
heat-shock construct
GAL4 construct
Insertions
Type of insertions
Name
Expression data
insertion of mobile activating element
hide Gene Ontology: Function, Process & Cellular Component ( 32 unique terms )
hide Terms Based on Experimental Evidence ( 19 terms )
Molecular Function
CV term
References
inferred from direct assay
inferred from physical interaction with EcR
inferred from direct assay
inferred from physical interaction with egg
inferred from physical interaction with rig
inferred from direct assay
inferred from physical interaction with EcR
Biological Process
CV term
References
inferred from mutant phenotype
inferred from mutant phenotype
inferred from mutant phenotype
inferred from mutant phenotype
inferred from mutant phenotype
inferred from mutant phenotype
Cellular Component
CV term
References
inferred from mutant phenotype
inferred from physical interaction with EcR
hide Terms Based on Predictions or Assertions ( 18 terms )
Molecular Function
CV term
References
non-traceable author statement
Biological Process
CV term
References
non-traceable author statement
Cellular Component
CV term
References
inferred from sequence or structural similarity with UniProtKB:P51128
non-traceable author statement
non-traceable author statement
hide Sequence Ontology: Class of Gene
hide Interactions & Pathways
hide Summary of Physical Interactions
protein-protein
Interacting group
Assay
References
anti tag coimmunoprecipitation, peptide massfingerprinting
pull down, western blot, anti tag coimmunoprecipitation
hide Summary of Genetic Interactions
Interacts with
Please look at the allele data for full details of the genetic interactions
usp allele
Gene
References
hide External Data
Linkouts
BioGRID - A database of protein and genetic interactions
DPiM - DPiM, Drosophila Protein interaction Map
DroID - A comprehensive database of gene and protein interactions.
InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets.
SignaLink - A protein-protein and protein-miRNA interaction database with multi-layered structure and multiple confidence scores.
hide Orthologs
hide OrthoDB Orthologs (73) - based on analysis using Dmel annotation version 5.41
OrthoDB Ortholog Groups
Drosophila inclusive ortholog search
Dipteran inclusive ortholog search
Insect inclusive ortholog search
Arthropod inclusive ortholog search
Metazoa inclusive ortholog search
hideOrthologs in Drosophila Species (EOG6PCBC0)
Organism
Common Name
Gene
AAA Syntenic Ortholog
Multiple Dmel Genes in this Orthologous Group
Drosophila melanogaster
fruit fly 
 
 
Drosophila simulans
 
Y
 
Drosophila sechellia
 
Y
 
Drosophila erecta
 
Y
 
Drosophila yakuba
 
Y
 
Drosophila ananassae
 
Y
 
Drosophila pseudoobscura pseudoobscura
 
Y
 
Drosophila persimilis
 
Y
 
Drosophila willistoni
 
Y
 
Drosophila virilis
 
Y
 
Drosophila mojavensis
 
Y
 
Drosophila grimshawi
 
Y
 
hideOrthologs in non-Drosophila Dipterans (EOG6DNFD1)
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Aedes aegypti
Yellow fever mosquito 
 
Anopheles gambiae
Malaria mosquito 
 
Culex quinquefasciatus
Southern house mosquito 
 
hideOrthologs in non-Dipteran Insects (EOG67PW2D)
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Apis mellifera
Western honey bee 
Amel\USP
 
Nasonia vitripennis
Parasitic wasp 
Nvit\Nasvi2EG011156
 
Acromyrmex echinatior
Panamanian leafcutter ant 
Aech\AECH26780
 
Atta cephalotes
Leafcutter ant 
Acep\ACEP17552
 
Harpegnathos saltator
Jerdons jumping ant 
Hsal\HSAL12917
 
Linepithema humile
Argentine ant 
Lhum\LH23870
 
Linepithema humile
Argentine ant 
Lhum\LH23205
 
Pogonomyrmex barbatus
Red harvester ant 
Pbar\PB22238
 
Acyrthosiphon pisum
Pea aphid 
 
Bombyx mori
Silkmoth 
 
Bombyx mori
Silkmoth 
 
Pediculus humanus
Human body louse 
 
Tribolium castaneum
Red flour beetle 
 
hideOrthologs in non-Insect Arthropods (EOG631ZDJ)
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Daphnia pulex
Water flea 
 
Ixodes scapularis
Deer tick 
 
hideOrthologs in non-Arthropod Metazoa (EOG6G4VK8)
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Caenorhabditis elegans
Nematode 
Y
Strongylocentrotus purpuratus
Purple sea urchin 
Y
Strongylocentrotus purpuratus
Purple sea urchin 
Y
Danio rerio
Zebrafish 
Y
Danio rerio
Zebrafish 
Y
Danio rerio
Zebrafish 
Y
Danio rerio
Zebrafish 
Y
Danio rerio
Zebrafish 
Y
Danio rerio
Zebrafish 
Y
Danio rerio
Zebrafish 
Y
Danio rerio
Zebrafish 
Y
Danio rerio
Zebrafish 
Y
Danio rerio
Zebrafish 
Y
Danio rerio
Zebrafish 
Y
Danio rerio
Zebrafish 
Y
Xenopus tropicalis
Western clawed frog 
Y
Xenopus tropicalis
Western clawed frog 
Y
Xenopus tropicalis
Western clawed frog 
Y
Xenopus tropicalis
Western clawed frog 
Y
Xenopus tropicalis
Western clawed frog 
Y
Xenopus tropicalis
Western clawed frog 
Y
Xenopus tropicalis
Western clawed frog 
Y
Gallus gallus
Domestic chicken 
Y
Gallus gallus
Domestic chicken 
Y
Gallus gallus
Domestic chicken 
Y
Mus musculus
House mouse 
Y
Mus musculus
House mouse 
Y
Mus musculus
House mouse 
Y
Mus musculus
House mouse 
Y
Mus musculus
House mouse 
Y
Mus musculus
House mouse 
Y
Rattus norvegicus
Norway rat 
Y
Rattus norvegicus
Norway rat 
Y
Rattus norvegicus
Norway rat 
Y
Rattus norvegicus
Norway rat 
Y
Rattus norvegicus
Norway rat 
Y
Rattus norvegicus
Norway rat 
Y
Homo sapiens
Human 
Y
Homo sapiens
Human 
Y
Homo sapiens
Human 
Y
Homo sapiens
Human 
Y
Homo sapiens
Human 
Y
Homo sapiens
Human 
Y
hide Human Orthologs (6)
Gene
OMIM
HGNC
 
 
hideAAA Orthologs (11) based on analysis using Dmel annotation version 4.3
Organism
Gene
Drosophila simulans
Drosophila sechellia
Drosophila erecta
Drosophila yakuba
Drosophila ananassae
Drosophila pseudoobscura pseudoobscura
Drosophila persimilis
Drosophila willistoni
Drosophila virilis
Drosophila mojavensis
Drosophila grimshawi
hide Stocks & Reagents
hide Stocks Listed in FlyBase ( 11 )
Bloomington
Kyoto
107830
VDRC
hide Genomic Clones ( 2 )
Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
hide cDNA Clones ( 71 )
Please Note
This section lists cDNAs and ESTs that fall within the genomic extent of the gene model, which may include cDNAs and ESTs of genes within introns, or of overlapping genes. Please see GBrowse for alignment of the cDNAs and ESTs to the gene model.
cDNA Clones, Fully Sequenced
BDGP DGC clones
Other clones
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones
Other clones
hide RNAi & Array Information
Linkouts
DRSC - Results from RNAi screens.
GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents
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hide Other Information
hide Discoverer
Lefevre.
 
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hide Relationship to Other Genes
Source for database identity of
Source for database merge of
Additional comments
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dsRNA has been made from templates generated with primers directed against this gene. RNAi of usp reduces the primary dendrite outgrowth of ddaD and ddaE neurons, but causes only modest reduction of lateral branching and lateral branch outgrowth. RNAi also causes defects in muscle, alterations in the number of MD neurons, defects in dendrite morphogenesis and reproducible defects in da dendrite development.
dsRNA made from templates generated with primers directed against this gene tested in RNAi screen for effects on Kc167 and S2R+ cell morphology.
The EcR/usp heterodimer DNA binding activity requires activation by a chaperone heterocomplex of six proteins including the products of Hsp83 and the Hsc70 genes.
usp has a cell autonomous role in controlling neuronal remodelling.
EcR/usp may play an essential role as a hormonal timer.
The ng-EcRE, located within the coding region of ng1 and ng2, binds the EcR/usp heterodimer through its widely spaced half sites.
usp has no apparent function in mid-third instar larvae, but is required in late third instar larvae for the appropriate developmental and transcriptional responses to the ecdysone pulse that triggers puparium formation.
usp is required in the anterior of the ovary for normal terminal filament differentiation.
Binding site selection procedure demonstrates that the EcR/usp heterodimer binds to the core recognition motif (consensus sequence consists of a perfect palindrome of the heptameric half-site sequence GAGGTCA that is separated by a single A/T base pair).
The function of a bacterially expressed usp protein is studied and results demonstrate the suitability of this technology for functional studies of insect nuclear receptors.
Cotransfection studies show that heterodimers of usp and human thyroid hormone receptor β (T3Rβ) can transactivate the human apolopoprotein A-II (apoA-II) promoter.
usp protein binds juvenile hormone III and juvenile hormone III acid with specificity, adopting a different final conformation state for each ligand.
usp is required for normal morphogenetic furrow movement and ommatidial cluster formation.
The EcR/usp heterodimer binds in vitro to direct repeats and these repeats can confer ecdysteroid responsiveness on minimal promoters in a cell transfection assay. The natural pseudopalindromic EcR/usp binding site in the Fbp1 enhancer is required to mediate a fat body-specific ecdysteroid response. The profound differences in structure between these two types of EcR/usp binding site do not dictate a spatial and temporal specificity of the transcriptional response they mediate.
Interaction of the DNA binding domain with a 20-hydroxyecdysone palindromic response element from the promoter region of Hsp27 is studied.
The usp gene is essential for the correct spatial expression of Vm32E.
DNA-blotting assay has identified a high affinity ecdysone receptor binding site within the ng1 and ng2 coding sequence. EMSA assay demonstrates the 93bp 'ng element' is able to bind an EcR/usp heterodimer and usp alone.
Testing pairwise combinations of the hormone receptor superfamily demonstrates EcR and usp interact as a dimer.
The usp product acts as an allosteric effector to enhance steroid binding by the EcR product. Under some conditions, DNA binding by EcR/usp product is highly steroid-dependent.
Clonal analysis with usp mutations in adult flies reveals a range of imaginal disc phenotypes.
The svp product modulates usp product-based signalling both in vitro and in vivo. Overexpression of usp rescues the larva from the lethal effects of overexpression of svp.
The in vitro characterisation of the EcR/usp binding site its ecdysone- dependent in vivo occupancy in different genetic backgrounds support the conclusion that the Fbp1 enhancer is a primary target of the EcR.
usp expression undergoes numerous and frequent changes during embryonic, larval and adult development.
Ecdysteroid-regulated gene.
The equilibrium dissociation constant of the usp protein to its response element on the Cp15 promoter is determined and compared to the binding activities of other nuclear hormone receptors to their cognate elements.
Transient cotransfection experiments in HeLa cells demonstrated that EcR must heterodimerize with usp (the homolog of the mammalian retinoid X receptor) for DNA binding and transactivation. EcR/usp gene product DNA binding activity is unaffected by ecdysteroid and 9-cis-retinoic acid.
EcR and usp native gene products co-localise on ecdysone-responsive loci. Physical associations in the presence and absence of ecdysone redefine the ecdysone receptor as a dynamic complex whose activity may be altered by combinatorial interactions among subunits and ligand.
Distribution of usp product during oogenesis, and in vitro binding properties of bacterially produced usp product both to an optimal binding site and to the Cp15 promoter have been studied. USP may operate as a heterodimer in vivo, though identity of the partner remains to be determined.
Evolutionary history for nuclear receptor genes, in which gene duplication events and swapping between domains of different origins took place, is studied.
usp is a Drosophila partner of EcR. Together usp and EcR bind DNA in a highly cooperative pattern. Cotransfection of both usp and EcR is required to render cultured mammalian cells ecdysone responsive.
usp has been cloned and sequenced.
usp product is a retinoid X receptor homologue, this suggests that similar chemical cues underlie morphogenetic signalling in vertebrate and invertebrate systems.
Molecular cloning and characterization has shown usp to be a novel member of the zinc finger protein superfamily.
Mutants are recessive lethals. usp1/usp1 or usp1/γ progeny of usp1/+ mothers die during the first larval instar or in the molt to the second instar. Those that die during the molt to the second instar sometimes have incompletely molted the first instar set of larval spiracles and thus have two sets of spiracles (FBrf0042629; FBrf0055872). usp1/Y embryos derived from usp1/usp1 germ cells die just prior to or just after hatching with an oval scar on the ventral surface of the posterior eighth abdominal or ninth abdominal segment. The spiracles of these animals appear normal as does the rest of the cuticle and the ventral nervous system. Paternally supplied usp+ completely rescues this phenotype and allows survival to adulthood (FBrf0042629; FBrf0055872). Use of a conditional expression system for rescue of the first/second instar lethal phase results in survival into the third instar and early pupal periods, with no animals surviving beyond pupal stage P4 (FBrf0055872). usp1/0//usp+ gynandromorphs do not survive suggesting that the gene is required in multiple parts of the body and not just in the terminal regions. γ-ray induced usp1/usp1 clones survive in the female germ-line, abdomen, thorax and head, showing that usp is not a general cell lethal. Clones in the head are associated with defects in rhabdomere and ommatidial morphology (FBrf0055872). Expression of a usp cDNA at high levels throughout development rescues the usp- phenotype and has no deleterious effect on usp+ animals, suggesting that any necessary spatial or temporal regulation of usp action occurs by regulation of some other factor such as a ligand.
 
Encodes a protein that binds the promoter region of Cp15.
 
hide External Crossreferences & Linkouts
Sequence Crossreferences
RefSeq (Transcripts)
RefSeq (Proteins)
Entrez Gene - A searchable database of RefSeq genes.
Other Crossreferences
InterPro domains - A database of protein families, domains, and functional sites
PDB - Protein Data Bank. An information portal to biological macromolecular structures
BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
Linkouts
BioGRID - A database of protein and genetic interactions
DPiM - DPiM, Drosophila Protein interaction Map
DroID - A comprehensive database of gene and protein interactions.
DRSC - Results from RNAi screens.
FLIGHT - Cell culture data for RNAi and other high-throughput technologies
FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans
GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents
Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution
InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets.
modMine - Data generated by the modENCODE project.
REDfly - A database of transcriptional regulatory elements.
SignaLink - A protein-protein and protein-miRNA interaction database with multi-layered structure and multiple confidence scores.
hide Synonyms & Secondary IDs ( 25 )
Reported As
Symbol Synonym
cf1
 
l(1)2Cf
 
Name Synonym
Chorion factor 1
 
chorion factor CF1
X receptor at 2C
Secondary FlyBase IDs
hide References ( 335 )
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hide Recent research papers ( 25 )
Bielska et al., 2012, J. Steroid Biochem. Mol. Biol. 132(3-5): 227--238
Alternative sumoylation sites in the Drosophila nuclear receptor Usp. [FBrf0219655]
Chauhan et al., 2012, Development 139(11): 1997--2008
Histone Recognition and Nuclear Receptor Co-Activator Functions of Drosophila Cara Mitad, a Homolog of the N-Terminal Portion of Mammalian MLL2 and MLL3. [FBrf0218263]
Gauthier et al., 2012, PLoS Genet. 8(8): e1002883
Cryptocephal, the Drosophila melanogaster ATF4, Is a Specific Coactivator for Ecdysone Receptor Isoform B2. [FBrf0219233]
Hackney et al., 2012, PLoS ONE 7(11): e49105
Tissue damage disrupts developmental progression and ecdysteroid biosynthesis in Drosophila. [FBrf0220007]
Kucherenko et al., 2012, EMBO J. 31(24): 4511--4523
Steroid-induced microRNA let-7 acts as a spatio-temporal code for neuronal cell fate in the developing Drosophila brain. [FBrf0220235]
Morris and Spradling, 2012, PLoS ONE 7(10): e46109
Steroid Signaling within Drosophila Ovarian Epithelial Cells Sex-Specifically Modulates Early Germ Cell Development and Meiotic Entry. [FBrf0219659]
Mou et al., 2012, Proc. Natl. Acad. Sci. U.S.A. 109(8): 2949--2954
Control of target gene specificity during metamorphosis by the steroid response gene E93. [FBrf0217473]
Pakula et al., 2012, J. Biomol. Struct. Dyn. 30(4): 379--393
Conformational changes in the DNA-binding domains of the ecdysteroid receptor during the formation of a complex with the hsp27 response element. [FBrf0219103]
Schauer et al., 2012, Insect Mol. Biol. 21(3): 383--394
N- and C-terminal degradation of ecdysteroid receptor isoforms, when transiently expressed in mammalian CHO cells, is regulated by the proteasome and cysteine and threonine proteases. [FBrf0219864]
Zeng and Hou, 2012, Development 139(21): 3917--3925
Broad relays hormone signals to regulate stem cell differentiation in Drosophila midgut during metamorphosis. [FBrf0219644]
Zoglowek et al., 2012, Biol. Chem. 393(6): 457--471
The composite nature of the interaction between nuclear receptors EcR and DHR38. [FBrf0218420]
Betanska et al., 2011, Arch. Insect Biochem. Physiol. 76(1): 12--21
The importance of exportin and Ran for nucleocytoplasmic shuttling of the ecdysteroid receptor. [FBrf0212558]
Boulanger et al., 2011, Nat. Neurosci. 14(1): 37--44
ftz-f1 and Hr39 opposing roles on EcR expression during Drosophila mushroom body neuron remodeling. [FBrf0212642]
Dubrovsky et al., 2011, J. Biol. Chem. 286(38): 33689--33700
The Drosophila FTZ-F1 Nuclear Receptor Mediates Juvenile Hormone Activation of E75A Gene Expression through an Intracellular Pathway. [FBrf0215576]
Gancz et al., 2011, PLoS Biol. 9(11): e1001202
Coordinated regulation of niche and stem cell precursors by hormonal signaling. [FBrf0217934]
Gradilla et al., 2011, Genetics 189(3): 871--883
Isoform-Specific Regulation of a Steroid Hormone Nuclear Receptor by an E3 Ubiquitin Ligase in Drosophila melanogaster. [FBrf0216551]
Itoh et al., 2011, Genes Cells 16(12): 1159--1167
Membrane-bound transporter controls the circadian transcription of clock genes in Drosophila. [FBrf0216813]
Johnston et al., 2011, Mol. Cell 44(1): 51--61
Ecdysone- and NO-Mediated Gene Regulation by Competing EcR/Usp and E75A Nuclear Receptors during Drosophila Development. [FBrf0216342]
Kirilly et al., 2011, Neuron 72(1): 86--100
Intrinsic epigenetic factors cooperate with the steroid hormone ecdysone to govern dendrite pruning in Drosophila. [FBrf0216319]
König et al., 2011, EMBO J. 30(8): 1549--1562
Ecdysteroids affect Drosophila ovarian stem cell niche formation and early germline differentiation. [FBrf0213531]
Schauer et al., 2011, J. Steroid Biochem. Mol. Biol. 124(3-5): 84--92
The N-terminus of ecdysteroid receptor isoforms and ultraspiracle interacts with different ecdysteroid response elements in a sequence specific manner to modulate transcriptional activity. [FBrf0214316]
Schauer et al., 2011, Insect Mol. Biol. 20(6): 701--711
Influence of hormone response elements (HREs) on ecdysteroid receptor concentration. [FBrf0217463]
Schwedes et al., 2011, J. Insect Physiol. 57(7): 899--907
Ecdysone receptor expression and activity in adult Drosophila melanogaster. [FBrf0214050]
Tremmel et al., 2011, Insect Mol. Biol. 20(4): 417--428
Influence of helix 12 of Ultraspiracle on Drosophila melanogaster ecdysone receptor function. [FBrf0214419]
Tremmel et al., 2011, Molec. Cell. Endocrinol. 332(1-2): 293--300
Interaction of the N-terminus of ecdysone receptor isoforms with the ligand-binding domain. [FBrf0214211]
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All reviews listed in FlyBase were published before 2011