• Home
• Tools
  • Tools Overview
  • Query Tools

    
    • QuickSearch
    • QueryBuilder
    • TermLink
    • CytoSearch
    • RNA-Seq Search
    • Interactions Browser
    • ImageBrowse
    • Find A Person
    • Google™ FlyBase
  • Genomic/Map Tools

    
    • BLAST
    • GBrowse
    • GBrowse 2 Beta
    • CytoSearch
    • Feature Mapper
    • Aberrations Maps
    • Chromosome Maps
    • Coordinates Converter
  • Retrieve/Convert

    
    • Batch Download
    • Coordinates Converter
    • ID Converter
  • Data Submission

    
    • Fast-Track Your Paper
    • Submit Personal Comm
    • Add A New Person
    • Update Person Info
  • People

    
    • Find A Person
    • Add A New Person
    • Update Person Info
• Files
  • Files Overview
  • Current release
  • Archived releases
  • Map Conversion
  • FTP site:
  • Releases (FTP)
  • Genomes (FTP)
• Species
  • Phylogeny
  • Sequenced Species
  • Synteny Table
  • Color Illustrations
  • Abbreviations
• Documents
  • About FlyBase
  • Reference Manual:
  • Sections
  • Contents
  • Nomenclature
  • Release Notes
• Resources
  • All Resources
  • Model Organisms
  • Stock Collections
  • Vectors & Constructs
  • Other links:
  • BDGP
  • DGRC
  • DIS by issue
  • FlyExpress
  • Interactive Fly
  • modENCODE
  • Textpresso for Fly
• News
  • News
  • FlyBase Forum
  • FlyBase Positions
  • Meetings
  • Courses
  • Fly Board
  • White papers
  • Funding
  • bionet.dros
• Help
  • Google™ FlyBase
  • Site Map
  • FAQs
  • FlyBase Guides
  • Video Tutorials
  • Report help
  • New to Flies
  • Pers. comm.
  • Author guidelines
  • Contact FlyBase
• Archives
  • Prior Release
  • Other Archives
  • Coordinate Converter

Gene Dmel\usp

General Information
Symbol	Dmel\usp	Species	D. melanogaster
Name	ultraspiracle	Annotation symbol	CG4380
Feature type	protein_coding_gene	FlyBase ID	FBgn0003964
Gene Model Status	Current	Stock availability	11 publicly available
Also Known As	DmUSP, CF1, dUSP, EG:22E5.1, NR2B4, CF1/Usp
Genomic Location
Chromosome (arm)	X	Recombination map
Cytogenetic map	2C7-2C7	Sequence location	X:1,932,829..1,936,344 [-]
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 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
	Beta version, feedback welcome
External Summaries
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.
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.
Update Feed	Click the icon below to subscribe to this FlyBase record and receive updates automatically through your feed reader.
FB2013_03
FB2013_02	Controlled Vocabulary Terms transcription regulatory region sequence-specific DNA binding response to ecdysone activator ecdysone receptor complex
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 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)   (Henrich et al., 1990) 2C-2C   (determined by in situ hybridisation)   (Oro et al., 1990)
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\usp 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 5.43 Shares 5' UTR with downstream gene. Low-frequency RNA-Seq exon junction(s) not annotated. Gene model reviewed during 5.46
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) usp-RA FBtr0070346  NM_057433   2515   508 usp-RB FBtr0333803  NM_001272239   3040   508
Additional Transcript Data & Comments
Reported size (kB)	2.4 (northern blot) (Oro et al., 1990, Shea et al., 1990)
Comments
External Data
Crossreferences
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     NP_476781   AAF45707 usp-PB   FBpp0305937   55.2   508   8.05     NP_001259168   AGB95014
Additional Polypeptide Data & Comments
Reported size (kDa)	508 (aa) (Oro et al., 1990) 507 (aa); 55 (kD predicted) (Henrich et al., 1990) 55 (kD) (Christianson et al., 1992) 54, 48 (kD observed) (Henrich et al., 1994)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Zinc finger, NHR/GATA-type (IPR013088) Nuclear hormone receptor, ligand-binding, core (IPR000536) Zinc finger, nuclear hormone receptor-type (IPR001628) Steroid hormone receptor (IPR001723) Nuclear hormone receptor, ligand-binding (IPR008946) Retinoid X receptor/HNF4 (IPR000003) PDB - Protein Data Bank. An information portal to biological macromolecular structures • 1HG4
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AA390870   AA391001   AA439415   AE014298 AAF45707   AE014298 AGB95014   AI294698   AI295311   AI404326   AL031765 CAA21122   AL513225   AW942107   AY069393 AAL39538   BI213172   BI228489   BI242941   BI363855   BI365258   BI365417   BI376191   BI376194   BI376195   BI565858   BI577127   BI632016   BI635419   BI638036   BI642018   CK659237   CO275864   CO275933   CO289648   CO300154   CO313025   CO320273   CO321503   EC056943   EC056945   EC059962   EC066282   EC067154   EC087959   EC200432   EC221627   EC230737   EC250449   EV592622   GH754139   GH771418   GH772002   GH773373   GH774178   GH783565   GH788857   GH794993   GH815479   GH821819   GH826159   GH833110   GH856365   GH856661   GH862463   GH864059   GH875566   GH877744   GH891500   GH905097   GH908513   GH910302   GH914688   GH926339   GH935536   GH951308   GH973233   GH973999   GH976074   GH979992   X52591 CAA36827   X53379 CAA37459   X53417 CAA37496
UniProtKB/Swiss-Prot	P20153
UniProtKB/TrEMBL
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
No Assay Recorded Stage Tissue/Position (including subcellular localization) Reference adult stage & oogenesis   follicle cell   (Shea et al., 1990) expression microarray Stage Tissue/Position (including subcellular localization) Reference adult stage   adult mushroom body   (Kobayashi et al., 2006) in situ Stage Tissue/Position (including subcellular localization) Reference embryonic stage | early   organism | ubiquitous   (Oro et al., 1992) embryonic stage 1 -- 3   organism   (Fisher et al., 2012) Comment:maternally deposited embryonic stage 4 -- 6   organism | ubiquitous   (Fisher et al., 2012) embryonic stage 12   embryonic/larval midgut   (Oro et al., 1992) ventral nerve cord   (Oro et al., 1992) adult stageoogenesis stage S8 -- S14   oocyte   (Oro et al., 1992) nurse cell   (Oro et al., 1992) northern blot Stage Tissue/Position (including subcellular localization) Reference embryonic stage -- adult stage     (Oro et al., 1990, Henrich et al., 1994) oogenesis & adult stage | female   ovary   (Shea et al., 1990)
Additional Descriptive Data
	usp transcripts are more abundant in ovarian follicles than in other tissues and stages. (Shea et al., 1990) 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. (Oro et al., 1992) 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. (Henrich et al., 1994) usp transcripts are expressed throughout the life cycle with the highest levels in embryos and adults. (Oro et al., 1990)
Marker for
Subcellular Localization
CV Term
Polypeptide Expression
No Assay Recorded Stage Tissue/Position (including subcellular localization) Reference adult stage & oogenesis   follicle cell   (Christianson et al., 1992) enzyme assay or biochemical detection Stage Tissue/Position (including subcellular localization) Reference adult stage & oogenesis   follicle cell   (Shea et al., 1990) immunolocalization Stage Tissue/Position (including subcellular localization) Reference third instar larval stage   eye disc   (Zelhof et al., 1997) adult stage & oogenesis   nurse cell   (Christianson et al., 1992) western blot Stage Tissue/Position (including subcellular localization) Reference embryonic stage -- pupal stage     (Henrich et al., 1994) wandering third instar larval stage   embryonic/larval fat body   (Henrich et al., 1994) ring gland   (Henrich et al., 1994) wing disc   (Henrich et al., 1994) embryonic/larval central nervous system   (Henrich et al., 1994) antennal disc   (Henrich et al., 1994) embryonic/larval salivary gland   (Henrich et al., 1994) ventral thoracic disc   (Henrich et al., 1994)
Additional Descriptive Data
	usp protein is present in nuclear extracts from ovaries. (Christianson et al., 1992, Shea et al., 1990) usp protein is expressed in all cells of the eye imaginal disc. (Zelhof et al., 1997) 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. (Henrich et al., 1994) usp protein is present in ovarian follicles. (Shea et al., 1990)
Marker for
Subcellular Localization (GO Cellular Component)
CV term Evidence References
activator ecdysone receptor complex inferred from direct assay (Lehmann and Korge, 1995) dendrite inferred from mutant phenotype (Kuo et al., 2005) ecdysone receptor holocomplex inferred from physical interaction with EcR (Zelhof et al., 1995) nucleus inferred from direct assay (Christianson et al., 1992, Shea et al., 1990, Johnston et al., 2011)
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: 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)
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    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
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 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)
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+    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
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    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
Expression Clusters
	A cluster of genes with similar mRNA expression dynamics across development. (The modENCODE Consortium, 2010) mE2_34_mRNA_expression_cluster_02
External Data & Images
Linkouts	BDGP expression data • LD09973 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0003964 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG4380-RA
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele lethal usp3 usp4 uspΔ148 lethal, with Scer\GAL4phm.PU uspGD1554 lethal | embryonic stage | recessive | rescuable maternal effect uspΔ148 lethal | germline clone | rescuable maternal effect usp3 lethal | larval stage uspΔ148 lethal | larval stage | maternal effect usp3 lethal | larval stage | partially | heat sensitive usphs.T:Scer\GAL4 lethal | larval stage | recessive usp3 lethal | pupal stage, with Scer\GAL4pnr-MD237 uspGD1554 lethal | recessive usp2 usp3 usp4 usp5 Other Phenotypes Allele circadian rhythm defective, with Scer\GAL4P2.4.Pdf uspNIG.4380R hypoactive, with usp2 usphs.PO hypoactive, with usphs.PO usp2 neuroanatomy defective usp3 neuroanatomy defective, with Scer\GAL4109(2)80 uspGD1554 neuroanatomy defective | pupal stage usp3 touch sensitivity defective, with usp2 usphs.PO touch sensitivity defective, with usphs.PO usp2 wild-type usptOa Phenotype manifest in Allele adult mushroom body & axon usp3 antennal lobe & axon usp3 border follicle cell | somatic clone uspunspecified dendrite, with Scer\GAL4109(2)80 uspGD1554 dendritic arborizing neuron | P-stage usp3 dorsal appendage | germline clone | maternal effect usp3 dorsal mesothoracic disc & neuron | somatic clone usp2 usp3 dorsal multidendritic neuron ddaC, with Scer\GAL4109(2)80 uspGD1554 egg | germline clone | maternal effect usp3 egg chamber | germline clone usp4 embryo | dorsal closure stage | maternal effect uspΔ148 embryo | embryonic stage 14 | maternal effect uspΔ148 embryo | germline clone | posterior usp3 embryonic/first instar larval cuticle | germline clone usp4 embryonic/larval anterior spiracle, with usp2 usphs.PO embryonic/larval anterior spiracle, with usphs.PO usp2 embryonic/larval midgut | embryonic stage, with usp2 usphs.PO embryonic/larval midgut | embryonic stage, with usphs.PO usp2 embryonic/larval salivary gland | embryonic stage, with usp2 usphs.PO embryonic/larval salivary gland | embryonic stage, with usphs.PO usp2 embryonic/larval tracheal system | maternal effect uspΔ148 female germline cell | supernumerary | heat sensitive usphs.T:Scer\GAL4 gamma-lobe & neuron | somatic clone usp3 usp5 imaginal disc, with usp2 usphs.PO imaginal disc, with usphs.PO usp2 midgut constriction | maternal effect uspΔ148 midgut imaginal island, with usp2 usphs.PO midgut imaginal island, with usphs.PO usp2 morphogenetic furrow | somatic clone usp3 usp4 mushroom body gamma-lobe | P-stage usp3 olfactory neuron & axon usp3 olfactory neuron & dendrite usp3 ommatidial precursor cluster | somatic clone usp3 usp4 ommatidium | somatic clone uspunspecified retina | cell non-autonomous | somatic clone usp3 retina | somatic clone usp3 rhabdomere | somatic clone usp3 terminal filament usp3 triple row | ectopic | precursor | somatic clone uspunspecified
Classical Alleles ( 8 )
For All Classical Alleles Show
Allele of usp Class Mutagen Stocks Known lesion usp4 hypomorphic allele - genetic evidence ethyl methanesulfonate chemical 2 Yes usp2 amorphic allele - genetic evidence, loss of function allele X ray 1 Yes usp3 hypomorphic allele - genetic evidence ethyl methanesulfonate chemical 1 Yes usp1 X ray 0 -- usp5 ethyl methanesulfonate 0 Yes uspunspecified 0 -- uspΔ148 P-element activity 0 Yes uspΔ208 P-element activity 0 Yes
Alleles Carried on Transgenic Constructs ( 21 )
For All Alleles Carried on Transgenic Constructs Show
Allele of usp Class Mutagen Stocks Known lesion usphs.T:Scer\GAL4 in vitro construct - regulatory fusion in vitro construct - coding region fusion 2 Yes uspGD1554 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes uspHMS01620 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes usphs.PO in vitro construct - regulatory fusion 1 Yes uspJF02546 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes uspT:Avic\GFP-SF,T:Zzzz\FLAG in vitro construct - coding region fusion 1 Yes usp574.dsRNA.Scer\UAS in vitro construct - regulatory fusion in vitro construct - RNAi 0 Yes uspAct5C.PS in vitro construct - regulatory fusion 0 Yes uspAct5C.PW in vitro construct - regulatory fusion 0 Yes uspcDa in vitro construct 0 Yes uspdsRNA.cBa in vitro construct - RNAi 0 Yes uspdsRNA.Scer\UAS in vitro construct - regulatory fusion in vitro construct - RNAi 0 Yes uspGMR.PZ in vitro construct - regulatory fusion 0 Yes usphs.C.T:Ecol\dam,T:Hsap\MYC in vitro construct - regulatory fusion in vitro construct - coding region fusion 0 Yes usphs.N.T:Ecol\dam,T:Hsap\MYC in vitro construct - regulatory fusion in vitro construct - coding region fusion 0 Yes uspMtnA.PD in vitro construct - regulatory fusion 0 Yes uspNIG.4380R in vitro construct - regulatory fusion in vitro construct - RNAi 0 Yes uspScer\UAS.cCa in vitro construct - regulatory fusion 0 Yes uspScer\UAS.cGa in vitro construct - regulatory fusion 0 Yes uspScer\UAS.cJa in vitro construct - regulatory fusion 0 Yes usptOa in vitro construct - genomic fragment 0 Yes
Aneuploid Aberrations
Partially disrupted in	Df(1)ActnΔ148 (Wahlstrom et al., 2006, Chavoshi et al., 2010) Df(1)ActnΔ208 (Wahlstrom et al., 2004)
Duplicated in	Dp(1;3)DC037 (Venken et al., 2010) Dp(1;3)DC413 (Popodi et al., 2010-, Venken et al., 2010) Dp(1;3)wvco (Perrimon et al., 1985)
Not disrupted in	Df(1)2F1-3A4 (Perrimon et al., 1985) Df(1)64c18 (Perrimon et al., 1985) Df(1)278.4B1 (Perrimon et al., 1985) Df(1)JA52 (Perrimon et al., 1985) Df(1)JC105 (Perrimon et al., 1985) Df(1)l24 (Perrimon et al., 1985) Df(1)L271 (Perrimon et al., 1985) Df(1)Pgd-kz (Perrimon et al., 1985) Df(1)pn7a (Perrimon et al., 1985) Df(1)pn38 (Perrimon et al., 1985) Df(1)TEM304 (Perrimon et al., 1985) In(1)C99Lwm4R (Perrimon et al., 1985)
Not duplicated in	Dp(1;Y)w+303 (Perrimon et al., 1985)
Disrupted in	Df(1)ActnΔ148 (Chavoshi et al., 2010) Tp(3;1)KA21 (Oro et al., 1990)
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data heat-shock construct P{hs-GAL4-usp.LBD} NA P{hs-usp} NA UAS construct P{GD1554} NA P{TRiP.HMS01620} NA P{TRiP.JF02546} NA P{UAS-usp.C} NA P{UAS-usp.G} NA P{UAS-usp.J} NA P{UAS-usp.RNAi} NA P{UAS-Usp-RNAi.574} NA GAL4 construct P{hs-GAL4-usp.LBD} No characterization construct P{d/cusp} NA P{GMR-usp.Z} NA P{NIG.4380R} NA P{usptOa} NA PBac{usp-GFP.FLAG} NA
Insertions
	Type of insertions Name Expression data insertion of mobile activating element P{EP}ActnEP1193 NA P{XP}d00712 NA
Gene Ontology: Function, Process & Cellular Component ( 32 unique terms )
Terms Based on Experimental Evidence ( 19 terms )
Molecular Function
CV term Evidence References
DNA binding inferred from direct assay (Johnston et al., 2011) ecdysteroid hormone receptor activity inferred from direct assay (Christianson et al., 1992) contributes_to ecdysteroid hormone receptor activity inferred from physical interaction with EcR (Zelhof et al., 1995) lipid binding inferred from direct assay (Clayton et al., 2001) protein binding inferred from physical interaction with egg (Stabell et al., 2006) inferred from physical interaction with rig (Gates et al., 2004) protein heterodimerization activity inferred from direct assay (Bitra and Palli, 2009) inferred from physical interaction with EcR (Zelhof et al., 1995) protein homodimerization activity inferred from direct assay (Bitra and Palli, 2009) contributes_to RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription inferred from physical interaction with EcR (Zelhof et al., 1995) transcription regulatory region sequence-specific DNA binding inferred from direct assay (Lehmann and Korge, 1995)
Biological Process
CV term Evidence References
border follicle cell migration inferred from mutant phenotype (Bai et al., 2000) dendrite morphogenesis inferred from mutant phenotype (Parrish et al., 2006) germ cell development inferred from mutant phenotype (König et al., 2011) muscle organ development inferred from mutant phenotype (Parrish et al., 2006) neuron development inferred from mutant phenotype (Parrish et al., 2006) neuron remodeling inferred from mutant phenotype (Lee et al., 2000, Awasaki and Ito, 2004) response to ecdysone inferred from mutant phenotype (Johnston et al., 2011)
Cellular Component
CV term Evidence References
activator ecdysone receptor complex inferred from direct assay (Lehmann and Korge, 1995) dendrite inferred from mutant phenotype (Kuo et al., 2005) ecdysone receptor holocomplex inferred from physical interaction with EcR (Zelhof et al., 1995) nucleus inferred from direct assay (Christianson et al., 1992, Shea et al., 1990, Johnston et al., 2011)
Terms Based on Predictions or Assertions ( 18 terms )
Molecular Function
CV term Evidence References
DNA binding non-traceable author statement (Swiss-Prot Project Members, 1991.2.1) ecdysteroid hormone receptor activity non-traceable author statement (Swiss-Prot Project Members, 1991.2.1) juvenile hormone binding traceable author statement (Wheeler and Nijhout, 2003) ligand-activated sequence-specific DNA binding RNA polymerase II transcription factor activity inferred from sequence or structural similarity with UniProtKB:P51128 (FlyBase, 1992-) non-traceable author statement (Maglich et al., 2001) sequence-specific DNA binding transcription factor activity inferred from sequence or structural similarity with UniProtKB:P51128 (FlyBase, 1992-) zinc ion binding inferred from electronic annotation with InterPro:IPR000003, InterPro:IPR001628, InterPro:IPR013088 (FlyBase Curators et al., 2004-)
Biological Process
CV term Evidence References
dendrite morphogenesis non-traceable author statement (Grueber and Jan, 2004) ecdysone-mediated induction of salivary gland cell autophagic cell death non-traceable author statement (Buszczak and Segraves, 2000) metamorphosis non-traceable author statement (Swiss-Prot Project Members, 1991.2.1) negative regulation of cell differentiation traceable author statement (Kozlova and Thummel, 2000) negative regulation of transcription, DNA-dependent traceable author statement (Kozlova and Thummel, 2000) positive regulation of transcription, DNA-dependent traceable author statement (Wheeler and Nijhout, 2003) regulation of development, heterochronic traceable author statement (Thummel, 2001) regulation of transcription, DNA-dependent inferred from electronic annotation with InterPro:IPR000003, InterPro:IPR000536, InterPro:IPR001628, InterPro:IPR001723, InterPro:IPR008946, InterPro:IPR013088 (FlyBase Curators et al., 2004-) steroid hormone mediated signaling pathway inferred from electronic annotation with InterPro:IPR000536, InterPro:IPR008946 (FlyBase Curators et al., 2004-)
Cellular Component
CV term Evidence References
ecdysone receptor holocomplex traceable author statement (Buszczak and Segraves, 2000) nucleus inferred from sequence or structural similarity with UniProtKB:P51128 (FlyBase, 1992-) non-traceable author statement (Swiss-Prot Project Members, 1991.2.1) polytene chromosome non-traceable author statement (Kozlova and Thummel, 2000)
Sequence Ontology: Class of Gene
	nuclear_gene   protein_coding_gene
Interactions & Pathways
Summary of Physical Interactions
protein-protein
Interacting group Assay References
usp - Hex-A anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) usp - Lpt pull down, western blot, anti tag coimmunoprecipitation (Chauhan et al., 2012)
Summary of Genetic Interactions
Interacts with	Please look at the allele data for full details of the genetic interactions usp allele Gene References usp3 EcR (Hodin and Riddiford, 1998) usphs.PO svp (Zelhof et al., 1995)
External Data
Linkouts	BioGRID - A database of protein and genetic interactions • 57709 DPiM - DPiM, Drosophila Protein interaction Map • FBgn0003964 DroID - A comprehensive database of gene and protein interactions. • FBgn0003964 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 31165 SignaLink - A protein-protein and protein-miRNA interaction database with multi-layered structure and multiple confidence scores. • P20153
Orthologs
OrthoDB Orthologs (73) - 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 EOG6PCBC0 Dipteran inclusive ortholog search EOG6DNFD1 Insect inclusive ortholog search EOG67PW2D Arthropod inclusive ortholog search EOG631ZDJ Metazoa inclusive ortholog search EOG6G4VK8
Orthologs in Drosophila Species (EOG6PCBC0)
Organism Common Name Gene AAA Syntenic Ortholog Multiple Dmel Genes in this Orthologous Group Drosophila melanogaster fruit fly  Dmel\usp     Drosophila simulans   Dsim\GD16395 Y   Drosophila sechellia   Dsec\GM18927 Y   Drosophila erecta   Dere\GG12659 Y   Drosophila yakuba   Dyak\GE16988 Y   Drosophila ananassae   Dana\GF21986 Y   Drosophila pseudoobscura pseudoobscura   Dpse\GA18146 Y   Drosophila persimilis   Dper\GL15129 Y   Drosophila willistoni   Dwil\GK25746 Y   Drosophila virilis   Dvir\GJ16389 Y   Drosophila mojavensis   Dmoj\GI15428 Y   Drosophila grimshawi   Dgri\GH24408 Y
Orthologs in non-Drosophila Dipterans (EOG6DNFD1)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Aedes aegypti Yellow fever mosquito  Aaeg\AAEL000395   Anopheles gambiae Malaria mosquito  Agam\AGAP002095   Culex quinquefasciatus Southern house mosquito  Cqui\CPIJ016024
Orthologs 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  Apim\ACYPI005934   Bombyx mori Silkmoth  Bmor\BGIBMGA006183   Bombyx mori Silkmoth  Bmor\BGIBMGA006184   Pediculus humanus Human body louse  Phum\PHUM164330   Tribolium castaneum Red flour beetle  Tcas\usp
Orthologs in non-Insect Arthropods (EOG631ZDJ)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Daphnia pulex Water flea  Dpux\JGI_V11_219609   Ixodes scapularis Deer tick  Isca\ISCW005340
Orthologs in non-Arthropod Metazoa (EOG6G4VK8)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Caenorhabditis elegans Nematode  Cele\unc-55 Y Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_028422gn Y Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_023867gn Y Danio rerio Zebrafish  Drer\ENSDARG00000005593 Y Danio rerio Zebrafish  Drer\rxrab Y Danio rerio Zebrafish  Drer\nr2f2 Y Danio rerio Zebrafish  Drer\nr2f6a Y Danio rerio Zebrafish  Drer\ENSDARG00000052695 Y Danio rerio Zebrafish  Drer\nr2f5 Y Danio rerio Zebrafish  Drer\nr2f1b Y Danio rerio Zebrafish  Drer\rxraa Y Danio rerio Zebrafish  Drer\nr2f6b Y Danio rerio Zebrafish  Drer\rxrbb Y Danio rerio Zebrafish  Drer\rxrgb Y Danio rerio Zebrafish  Drer\rxrba Y Xenopus tropicalis Western clawed frog  Xtro\rxrg Y Xenopus tropicalis Western clawed frog  Xtro\nr2f6 Y Xenopus tropicalis Western clawed frog  Xtro\rxrb Y Xenopus tropicalis Western clawed frog  Xtro\nr2f1 Y Xenopus tropicalis Western clawed frog  Xtro\rxra Y Xenopus tropicalis Western clawed frog  Xtro\nr2f5 Y Xenopus tropicalis Western clawed frog  Xtro\nr2f2 Y Gallus gallus Domestic chicken  Ggal\NR2F2 Y Gallus gallus Domestic chicken  Ggal\RXRA Y Gallus gallus Domestic chicken  Ggal\RXRG Y Mus musculus House mouse  Mmus\Nr2f1 Y Mus musculus House mouse  Mmus\Rxrg Y Mus musculus House mouse  Mmus\Nr2f2 Y Mus musculus House mouse  Mmus\Rxrb Y Mus musculus House mouse  Mmus\Nr2f6 Y Mus musculus House mouse  Mmus\Rxra Y Rattus norvegicus Norway rat  Rnor\Rxrg Y Rattus norvegicus Norway rat  Rnor\Rxrb Y Rattus norvegicus Norway rat  Rnor\Nr2f1 Y Rattus norvegicus Norway rat  Rnor\Nr2f2 Y Rattus norvegicus Norway rat  Rnor\Rxra Y Rattus norvegicus Norway rat  Rnor\Nr2f6 Y Homo sapiens Human  Hsap\NR2B3 Y Homo sapiens Human  Hsap\RXRB Y Homo sapiens Human  Hsap\NR2F1 Y Homo sapiens Human  Hsap\NR2F2 Y Homo sapiens Human  Hsap\NR2B1 Y Homo sapiens Human  Hsap\NR2F6 Y
Human Orthologs (6)
Gene OMIM HGNC Hsap\NR2B3     Hsap\RXRB     Hsap\NR2F1     Hsap\NR2F2     Hsap\NR2B1     Hsap\NR2F6
AAA Orthologs (11) based on analysis using Dmel annotation version 4.3
Organism Gene Drosophila simulans Dsim\GD16395 Drosophila sechellia Dsec\GM18927 Drosophila erecta Dere\GG12659 Drosophila yakuba Dyak\GE16988 Drosophila ananassae Dana\GF21986 Drosophila pseudoobscura pseudoobscura Dpse\GA18146 Drosophila persimilis Dper\GL15129 Drosophila willistoni Dwil\GK25746 Drosophila virilis Dvir\GJ16389 Drosophila mojavensis Dmoj\GI15428 Drosophila grimshawi Dgri\GH24408
Stocks & Reagents
Stocks Listed in FlyBase ( 11 )
Bloomington	4660 usp4/FM7a 29974 usp3/FM7a 31414 usp2/FM7a 23659 w1118; P{hs-GAL4-usp.LBD}3 38672 w1118; PBac{usp-GFP.FLAG}VK00033 27258 y1 v1; P{TRiP.JF02546}attP2 28864 w1118; P{UAS-Stinger}2; P{hs-GAL4-usp.LBD}3 31415 w*; P{hs-usp}3 pp/TM3, Sb1 36729 y1 sc* v1; P{TRiP.HMS01620}attP2
Kyoto	107830 usp4/FM7a
VDRC	v16893 w1118; P{GD1554}v16893/TM3
Genomic Clones ( 2 )
	BACR05N09 BACR32O19 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
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	LD09973
Other clones	DPiM_LD09973
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	GH23982 LD09081 LD13982 LP08129 LP08907 LP16860 RE18520 RE26044 RE40450 RE48821 RE50510 RE50721 RE61503 RE62895 RE63310 RH33054 RH57624 RH62338 SD16665 SD16765 SD22323
Other clones	19950 60737 105441 156058 176686 178518 CK01.4C.C2 CK01.4C.E2 CK01.91C.H8 CK01.144C.G6 Dmel_neb_008754_0655_1731 EK071664 EK119007 EK119159 EK177506 EK185814 EK230947 EK283428 RP003043393 RP003047824 RP003080776 RP003087529 RP003093061 RP003107754 RP003130357 RP003138835 RP003160609 RP003161387 RP003168608 RP003181551 RP003186373 RP003222822 RP003240780 RP003305885 RP003333582 RP003348772 RP003372729 RP003379914 RP003415425 RP003462200 RP003548633 RP003553273 RP003597093 RP004165370 RP004243896 RP004328093 RP004372264 RP004385398
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0003964 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 31165
Antibody Information
	monoclonal (Christianson et al., 1992)
Other Information
Discoverer
	Lefevre.
Etymology
Identification
Relationship to Other Genes
Source for database identity of
Source for database merge of
Additional comments
Other Comments
	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. (Parrish et al., 2006) dsRNA made from templates generated with primers directed against this gene tested in RNAi screen for effects on Kc167 and S2R+ cell morphology. (Kiger et al., 2003) 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. (Arbeitman and Hogness, 2000) usp has a cell autonomous role in controlling neuronal remodelling. (Lee et al., 2000) EcR/usp may play an essential role as a hormonal timer. (Brodu et al., 1999) The ng-EcRE, located within the coding region of ng1 and ng2, binds the EcR/usp heterodimer through its widely spaced half sites. (Crispi et al., 1998) 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. (Hall and Thummel, 1998) usp is required in the anterior of the ovary for normal terminal filament differentiation. (Hodin and Riddiford, 1998) 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). (Vogtli et al., 1998) 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. (Elke et al., 1997) Cotransfection studies show that heterodimers of usp and human thyroid hormone receptor β (T3Rβ) can transactivate the human apolopoprotein A-II (apoA-II) promoter. (Hatzivassiliou et al., 1997) usp protein binds juvenile hormone III and juvenile hormone III acid with specificity, adopting a different final conformation state for each ligand. (Jones and Sharp, 1997) usp is required for normal morphogenetic furrow movement and ommatidial cluster formation. (Zelhof et al., 1997) 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. (Antoniewski et al., 1996) Interaction of the DNA binding domain with a 20-hydroxyecdysone palindromic response element from the promoter region of Hsp27 is studied. (Rusin et al., 1996) The usp gene is essential for the correct spatial expression of Vm32E. (Cavaliere et al., 1995) 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. (D'Avino et al., 1995) Testing pairwise combinations of the hormone receptor superfamily demonstrates EcR and usp interact as a dimer. (Horner et al., 1995) 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. (Hu et al., 1995) Clonal analysis with usp mutations in adult flies reveals a range of imaginal disc phenotypes. (Sutherland and Kafatos, 1995) 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. (Zelhof et al., 1995) 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. (Antoniewski et al., 1994) usp expression undergoes numerous and frequent changes during embryonic, larval and adult development. (Henrich et al., 1994) Ecdysteroid-regulated gene. (Andres et al., 1993) 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. (Christianson and Kafatos, 1993) 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. (Thomas et al., 1993) 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. (Yao et al., 1993) 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. (Christianson et al., 1992) Evolutionary history for nuclear receptor genes, in which gene duplication events and swapping between domains of different origins took place, is studied. (Laudet et al., 1992) 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. (Yao et al., 1992) usp has been cloned and sequenced. (Henrich et al., 1990) usp product is a retinoid X receptor homologue, this suggests that similar chemical cues underlie morphogenetic signalling in vertebrate and invertebrate systems. (Oro et al., 1990) Molecular cloning and characterization has shown usp to be a novel member of the zinc finger protein superfamily. (Shea et al., 1990) 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.
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_057433 NM_001272239 RefSeq (Proteins) • NP_476781 NP_001259168 DDBJ / EMBL / GenBank • AA391001 AAF45707 AAL39538 AGB95014 AL031765 AL513225 AW942107 AY069393 CAA21122 CAA36827 CAA37459 CAA37496 X52591 X53379 X53417 Entrez Gene - A searchable database of RefSeq genes. • 31165 UniProtKB/Swiss-Prot • P20153
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • Zinc finger, NHR/GATA-type (IPR013088) Nuclear hormone receptor, ligand-binding, core (IPR000536) Zinc finger, nuclear hormone receptor-type (IPR001628) Steroid hormone receptor (IPR001723) Nuclear hormone receptor, ligand-binding (IPR008946) Retinoid X receptor/HNF4 (IPR000003) PDB - Protein Data Bank. An information portal to biological macromolecular structures • 1HG4 BDGP expression data - Patterns of gene expression in Drosophila embryogenesis • LD09973
Linkouts
	BioGRID - A database of protein and genetic interactions • 57709 DPiM - DPiM, Drosophila Protein interaction Map • FBgn0003964 DroID - A comprehensive database of gene and protein interactions. • FBgn0003964 DRSC - Results from RNAi screens. • FBgn0003964 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0003964 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG4380-RA FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0003964 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 31165 Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution • /gene/uspiracl.htm InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 31165 modMine - Data generated by the modENCODE project. • FBgn0003964 REDfly - A database of transcriptional regulatory elements. • FBgn0003964 SignaLink - A protein-protein and protein-miRNA interaction database with multi-layered structure and multiple confidence scores. • P20153
Synonyms & Secondary IDs ( 25 )
Reported As
Symbol Synonym	2C (Henrich et al., 1990) CF1 (Zhang et al., 2002, Scherer et al., 1993, Khoury Christianson and Kafatos, 1993, Orr-Weaver, 1991) Cf1 (Shea et al., 1990) cf1   CF1/Usp (Malva et al., 1994) CF1/USP (Christianson and Kafatos, 1993) CG4380 (Lee et al., 2003, Benos, 2000.12.13, Ni et al., 2011.7.19, Chang et al., 2008) DmUSP (Bitra and Palli, 2009, Dinan et al., 2001, Wang et al., 2000, Wang et al., 1998, Dhadialla et al., 2007, Li et al., 2007) dmUSP (Jones and Jones, 2000, Jones et al., 2010) DmUsp (Henrich and Brown, 1995) dUSP (Xu et al., 2002, Jones et al., 2001, Wozniak et al., 2004) EG:22E5.1 (Benos et al., 2001, Benos, 2000.12.13, ) l(1)2Cf   l(1)usp (Perrimon et al., 1985) NR2B4 (Nuclear Receptors Nomenclature Committee, 1999, King-Jones and Thummel, 2005) usp (Baker and Russell, 2009, Wahlstrom et al., 2006, Flatt et al., 2005, Bai et al., 2000, Jordan et al., 2005, Hoopfer et al., 2008, Song et al., 2003, Bernardi et al., 2007, Romani et al., 2007, Thummel, 2007.4, Kobayashi et al., 2006, Chavoshi et al., 2010, Shi et al., 2007, Gradilla et al., 2011, Hackney and Dobens, 2008, Maki et al., 2004, Beck et al., 2009, Ables and Drummond-Barbosa, 2010, Gauhar et al., 2009, Itoh et al., 2011, Ou et al., 2008, Chang et al., 2008, Yang et al., 2004, Mou et al., 2012, Bernardi et al., 2009, Beatty et al., 2006, Grimaud and Becker, 2009, Perkins et al., 2009.8.10, Kirilly et al., 2009, Lin et al., 2009, Popodi et al., 2010-, Beckstead et al., 2005, Spokony and White, 2012.5.22, Morris and Spradling, 2012, Ritter and Beckstead, 2010, König et al., 2011, Boulanger et al., 2011, Dubrovsky et al., 2011, Chauhan et al., 2012, Gancz et al., 2011, Venken et al., 2010) USP (Beatty et al., 2009, Schubiger et al., 2005, Davis et al., 2005, Ng and Bird, 2000, Gauhar et al., 2005, Devarakonda et al., 2003, Gorski and Marra, 2002, Broadus et al., 1999, Hu and Cherbas, 1997, Palanker et al., 2006, Moorman et al., 2006, Moorman et al., 2006, King-Jones and Thummel, 2005, Grebe et al., 2004, Baker et al., 2007, Stabell et al., 2006, Costantino et al., 2008, Williams and Truman, 2005, Clayton et al., 2001, Schauer et al., 2011, Tremmel et al., 2011, Zhu et al., 2006, Costantino et al., 2008, Sun and Song, 2006, Bergman et al., 2004, Jang et al., 2009, Soin et al., 2008, Dalton et al., 2009, Kimura et al., 2008, Fang et al., 2005, Jones et al., 2006, Francis et al., 2010, Schwedes et al., 2011, Sun et al., 2007, Gauthier et al., 2012, Schauer et al., 2012, Schauer et al., 2011) Usp (Rorth, 2002, Buszczak and Segraves, 2000, Ghbeish et al., 2000, Lavorgna et al., 1991, Johnston et al., 2007, Parrish et al., 2006, Nedelsky et al., 2010, Bernardo et al., 2008, Dutko-Gwóźdź et al., 2008, de la Cruz et al., 2000, Tremmel et al., 2011, Johnston et al., 2011, Braun et al., 2009, Ruff et al., 2009, Krusiński et al., 2008, Cronauer et al., 2007, Betanska et al., 2007, Schuldiner et al., 2008, Cakouros et al., 2008, Davis et al., 2007, Martin et al., 2007, Azoitei and Spindler-Barth, 2009, Flatt et al., 2008, Bruey-Sedano et al., 2005, Dobryszycki et al., 2006, Krusiński et al., 2010, Betanska et al., 2011, Bielska et al., 2012, Zoglowek et al., 2012, Pakula et al., 2012) XR2C (Oro et al., 1990)
Name Synonym	Chorion factor 1   chorion factor CF1 (King, 1990.6.7) ultraspiracle (Bitra and Palli, 2009, Baker and Russell, 2009, Palanker et al., 2006, Flatt et al., 2005, Jordan et al., 2005, Kobayashi et al., 2006, Shi et al., 2007, Wozniak et al., 2004, Yepiskoposyan et al., 2006, Williams and Truman, 2005, Maki et al., 2004, de la Cruz et al., 2000, Schauer et al., 2011, Cakouros et al., 2008, Chang et al., 2008, Yang et al., 2004, Flatt et al., 2008, Beatty et al., 2006, Grimaud and Becker, 2009, Dobryszycki et al., 2006, Lin et al., 2009, Fang et al., 2005, Jones et al., 2006, Krusiński et al., 2010, Betanska et al., 2011, Dubrovsky et al., 2011, Sun et al., 2007, Chauhan et al., 2012) Ultraspiracle (Beatty et al., 2009, Lafont, 2000, Farkas and Mechler, 2001, Moorman et al., 2006, Starz-Gaiano and Montell, 2004, Tremmel et al., 2011, Tremmel et al., 2011, Beck et al., 2009, Braun et al., 2009, Ruff et al., 2009, Jang et al., 2009, Bernardi et al., 2009, Soin et al., 2008, Kirilly et al., 2009, Dalton et al., 2009, Ritter and Beckstead, 2010, Schauer et al., 2012) Ultraspiricle (Costantino et al., 2008) X receptor at 2C (Oro et al., 1990)
Secondary FlyBase IDs
References ( 335 )
Generate a list of	All references relating to this gene ( 335 )
List References by type	Research paper  ( 199 ) Supplementary material  ( 5 ) Review  ( 45 ) Personal communication to FlyBase  ( 11 ) Abstract  ( 67 ) FlyBase analysis  ( 2 ) DNA/RNA sequence record  ( 1 ) Letter  ( 1 ) Protein sequence record  ( 1 ) Website  ( 1 ) Curated genome annotation  ( 2 )
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] Show all research papers ...
Recent reviews (0)
	All reviews listed in FlyBase were published before 2011 Show reviews ...