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Gene Dmel\Rpn3

General Information
Symbol	Dmel\Rpn3	Species	D. melanogaster
Name	Regulatory particle non-ATPase 3	Annotation symbol	CG42641
Feature type	protein_coding_gene	FlyBase ID	FBgn0261396
Gene Model Status	Current	Stock availability	9 publicly available
Also Known As	Dox-A2, CG10484, p58, l(2)37Bf
Genomic Location
Chromosome (arm)	2L	Recombination map	2-53.9
Cytogenetic map	37B12-37B12	Sequence location	2L:19,051,790..19,053,681 [+]
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 Regulatory particle non-ATPase 3 is referred to in FlyBase by the symbol Dmel\Rpn3 (CG42641, FBgn0261396). It is a protein_coding_gene from Drosophila melanogaster. There is experimental evidence that it has the molecular function: endopeptidase activity. There is experimental evidence that it is involved in the biological process: proteolysis. 12 alleles are reported. No phenotypic data is available. It has 2 annotated transcripts and 2 annotated polypeptides. Protein features are: 26S proteasome regulatory subunit, C-terminal; PCI/PINT associated module; Proteasome component (PCI) domain; Tetratricopeptide-like helical; Winged helix-turn-helix transcription repressor DNA-binding domain. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of very high expression to a trough of moderately high expression. Peak expression observed within 00-06 hour embryonic stages, during late larval stages, during early pupal stages. Summary of FlyAtlas Anatomical Expression Data: High or moderate levels of expression observed in all larval and adult organs/tissues. Expression at high levels in the following post-embryonic organs or tissues: larval central nervous system, larval midgut, larval hindgut, larval/adult Malpighian tubules, adult heart, larval/adult fat body, larval salivary gland, larval trachea, adult ovary, larval/adult carcass. Expression at moderate levels in the following post-embryonic organs or tissues: adult head, adult eye, adult central nervous system, adult crop, adult midgut, adult hindgut, adult salivary gland, adult spermathecae, adult male reproductive system. Comments on Affy2 ProbeSet: ProbeSet 1628269_at completely aligns to an exonic region of the only FlyBase-annotated transcript isoform of Rpn3. Gene sequence location is 2L:19051790..19053681.
User Contributed Data
	Beta version, feedback welcome
Phenotypic Description from the Red Book (Lindsley & Zimm 1992)
Gene/Allele symbols may differ from current usage	Dox-A2: Diphenol oxidase A2 subunit The structural gene for the A2 component of phenol oxidase, which utilized diphenol substrates. Developmentally regulated; levels low until just prior to pupariation; dramatic rise to maximum at puparium formation, followed by reduced, but still high, levels throughout pupal stage, again decreasing at eclosion (Geiger and Mitchell, 1966, J. Insect Physiol. 12: 755-65). Heterozygotes for lethal alleles show reduced diphenol oxidase activity; homozygotes die as first instar larvae; dead larvae do not turn black. One homozygous Dox-A21 escaper reaching pharate adult stage was liberated from the pupa case; it was chalk white, devoid of any cuticular pigment; cell lethal; no homozygous clones observed for any of the lethal alleles.
Recent Updates
Description	What does this section display? This section contains items that were added to this record for each release. It currently only tracks new links between this FlyBase report and other FlyBase data classes (e.g. genes, references, stocks) or controlled vocabulary terms (e.g. GO, anatomy terms). What does this section not display? This section does not currently display links that were removed or gene model changes.
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FB2013_03
FB2013_02
All updates	Click here to see a list of all updates to this record from FB2010_08 and on.
Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map Evidence for location 37B12-37B12   Limits computationally determined from genome sequence between P{lacW}l(2)37Dbk16106&P{lacW}Catsupk05424 and P{lacW}Ddck02104
Experimentally Determined Cytological Location
Cytogenetic map Notes References 37B10-37B10   (determined by in situ hybridisation)   (Pentz et al., 1986)
Experimentally Determined Recombination Data
Location	2-53.9
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\Rpn3 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 5.48
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) Rpn3-RA FBtr0302289  NM_057952   1831   494 Rpn3-RB FBtr0336843  NM_001273628   1692   494
Additional Transcript Data & Comments
Reported size (kB)	1.657 (compiled cDNA) (Pentz and Wright, 1991) 1.7 (northern blot) (Pentz et al., 1986)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kDa) Length (aa) Theoretical pI RefSeq ID GenBank protein Rpn3-PA   FBpp0291495   56.0   494   9.41     NP_477300   AAF53749 Rpn3-PB   FBpp0307804   56.0   494   9.41     NP_001260557   AGB93092
Additional Polypeptide Data & Comments
Reported size (kDa)	494 (aa); 56 (kD) (Pentz and Wright, 1991)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Proteasome component (PCI) domain (IPR000717) PCI/PINT associated module (IPR013143) 26S proteasome regulatory subunit, C-terminal (IPR013586) Tetratricopeptide-like helical (IPR011990) Winged helix-turn-helix DNA-binding domain (IPR011991)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AA440873   AA536517   AA697010   AA698491   AA698846   AA802738   AA802837   AA802869   AA803959   AE014134 AAF53749   AC009205   AE014134 AGB93092   AI061906   AI107521   AI259607   AI294744   AI297943   AI387204   AI456292   AI456636   AI519220   AI519756   AI534940   AY089337 AAL90075   BE978345   BF486453   BF487735   BF487844   BF492999   BF493000   BF494244   BF494458   BF494887   BF494896   BF496806   BF496878   BF497237   BF498628   BF500299   BF500935   BF501103   BF503121   BG631995   BG633811   BG636037   BG640549   BI237585   BI563896   BI566107   BI574666   BI574693   BI574735   BI576271   BI576509   BI587165   BI589066   BI589133   BI616727   BI619621   BI622452   BI624855   BI629364   BI638937   BI640283   BP553340   BP553341   BT030894   BT044249   CK605232   CK605233   CK657222   CK657663   CK659025   CK659943   CO262141   CO264239   CO279210   CO301484   CO308535   CO325093   EC060883   EC084210   EC203779   EC208004   EC212248   EC228751   EC231024   EC234743   EC240272   EL874761   EL874762   EL879241   EL879481   EL879602   EL884040   EL884041   ES695612   ES695617   ES695618   ES696436   ES696457   ES696462   ES696948   ES696950   EV575544   EV588133   FE862759   FE862783   FE862903   FE862952   FE863139   FE863360   FE863441   GH740451   GH740518   GH741381   GH747468   GH747596   GH763126   GH763174   M63010 AAB00732
UniProtKB/Swiss-Prot	P25161
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
Additional Descriptive Data
	Rpn3 transcripts are less abundant in embryos than in larvae and adults. (Pentz et al., 1986)
Marker for
Subcellular Localization
CV Term
Polypeptide Expression
mass spectroscopy Stage Tissue/Position (including subcellular localization) Reference day 7 of adulthood -- day 49 of adulthood   adult heart   (Cammarato et al., 2011)
Additional Descriptive Data
Marker for
Subcellular Localization (GO Cellular Component)
CV term Evidence References
proteasome regulatory particle inferred from direct assay (Sumegi et al., 2003) inferred from direct assay AND inferred from sequence or structural similarity with human PSMD3 (Holzl et al., 2000)
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: High or moderate levels of expression observed in all larval and adult organs/tissues. Expression at high levels in the following post-embryonic organs or tissues: larval central nervous system, larval midgut, larval hindgut, larval/adult Malpighian tubules, adult heart, larval/adult fat body, larval salivary gland, larval trachea, adult ovary, larval/adult carcass. Expression at moderate levels in the following post-embryonic organs or tissues: adult head, adult eye, adult central nervous system, adult crop, adult midgut, adult hindgut, adult salivary gland, adult spermathecae, adult male reproductive system. [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    596.85 Larval Midgut    782.2 Larval Hindgut    781.8 Larval Malpighian Tubules    1656.8 Larval Fat Body    676.4 Larval Salivary Gland    862.9 Larval Trachea    548.95 Larval Carcass    1317.275 Adult Head    322.6 Adult Eye    291.35 Adult Brain    266.3 Adult Thoracic-Abdominal Ganglion    253.6 Adult Crop    493.6 Adult Midgut    412.7 Adult Hindgut    396.8 Adult Malpighian Tubules    612.7 Adult Fat Body    822.2 Adult Salivary Gland    341.8 Adult Heart    900.75 Adult VirginFemale Spermatheca    479.4 Adult InseminatedFemale Spermatheca    460.7 Adult Ovary    802.7 Adult Testis    327.9 Adult Male Accessory Gland    433.8 Adult Carcass    642.3 Expression Level Scale  None   Low   Moderate   High   Very high  Linear, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System  (596.85) Larval Midgut  (782.2) Larval Hindgut  (781.8) Larval Malpighian Tubules  (1656.8) Larval Fat Body  (676.4) Larval Salivary Gland  (862.9) Larval Trachea  (548.95) Larval Carcass  (1317.275) Adult Head    322.6 Adult Eye    291.35 Adult Brain    266.3 Adult Thoracic-Abdominal Ganglion    253.6 Adult Crop    493.6 Adult Midgut    412.7 Adult Hindgut    396.8 Adult Malpighian Tubules  (612.7) Adult Fat Body  (822.2) Adult Salivary Gland    341.8 Adult Heart  (900.75) Adult VirginFemale Spermatheca    479.4 Adult InseminatedFemale Spermatheca    460.7 Adult Ovary  (802.7) Adult Testis    327.9 Adult Male Accessory Gland    433.8 Adult Carcass  (642.3) Expression Level Scale  None   Low   Moderate   High  Linear, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    596.85 Larval Midgut    782.2 Larval Hindgut    781.8 Larval Malpighian Tubules  (1656.8) Larval Fat Body    676.4 Larval Salivary Gland    862.9 Larval Trachea    548.95 Larval Carcass  (1317.275) Adult Head    322.6 Adult Eye    291.35 Adult Brain    266.3 Adult Thoracic-Abdominal Ganglion    253.6 Adult Crop    493.6 Adult Midgut    412.7 Adult Hindgut    396.8 Adult Malpighian Tubules    612.7 Adult Fat Body    822.2 Adult Salivary Gland    341.8 Adult Heart    900.75 Adult VirginFemale Spermatheca    479.4 Adult InseminatedFemale Spermatheca    460.7 Adult Ovary    802.7 Adult Testis    327.9 Adult Male Accessory Gland    433.8 Adult Carcass    642.3 Expression Level Scale  None   Low   Moderate   High   Very high  Linear, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    596.85 Larval Midgut    782.2 Larval Hindgut    781.8 Larval Malpighian Tubules    1656.8 Larval Fat Body    676.4 Larval Salivary Gland    862.9 Larval Trachea    548.95 Larval Carcass    1317.275 Adult Head    322.6 Adult Eye    291.35 Adult Brain    266.3 Adult Thoracic-Abdominal Ganglion    253.6 Adult Crop    493.6 Adult Midgut    412.7 Adult Hindgut    396.8 Adult Malpighian Tubules    612.7 Adult Fat Body    822.2 Adult Salivary Gland    341.8 Adult Heart    900.75 Adult VirginFemale Spermatheca    479.4 Adult InseminatedFemale Spermatheca    460.7 Adult Ovary    802.7 Adult Testis    327.9 Adult Male Accessory Gland    433.8 Adult Carcass    642.3 Expression Level Scale  Very high  log, scaled to maximum expression level Tissue   Expression Level Larval Central Nervous System    596.85 Larval Midgut    782.2 Larval Hindgut    781.8 Larval Malpighian Tubules    1656.8 Larval Fat Body    676.4 Larval Salivary Gland    862.9 Larval Trachea    548.95 Larval Carcass    1317.275 Adult Head    322.6 Adult Eye    291.35 Adult Brain    266.3 Adult Thoracic-Abdominal Ganglion    253.6 Adult Crop    493.6 Adult Midgut    412.7 Adult Hindgut    396.8 Adult Malpighian Tubules    612.7 Adult Fat Body    822.2 Adult Salivary Gland    341.8 Adult Heart    900.75 Adult VirginFemale Spermatheca    479.4 Adult InseminatedFemale Spermatheca    460.7 Adult Ovary    802.7 Adult Testis    327.9 Adult Male Accessory Gland    433.8 Adult Carcass    642.3 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System  596.85 Larval Midgut  782.2 Larval Hindgut  781.8 Larval Malpighian Tubules  (1656.8) Larval Fat Body  676.4 Larval Salivary Gland  (862.9) Larval Trachea  548.95 Larval Carcass  (1317.275) Adult Head    322.6 Adult Eye    291.35 Adult Brain    266.3 Adult Thoracic-Abdominal Ganglion    253.6 Adult Crop    493.6 Adult Midgut    412.7 Adult Hindgut    396.8 Adult Malpighian Tubules  612.7 Adult Fat Body  (822.2) Adult Salivary Gland    341.8 Adult Heart  (900.75) Adult VirginFemale Spermatheca    479.4 Adult InseminatedFemale Spermatheca    460.7 Adult Ovary  802.7 Adult Testis    327.9 Adult Male Accessory Gland    433.8 Adult Carcass  642.3 Expression Level Scale  None   Low   Moderate   High  log, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    596.85 Larval Midgut    782.2 Larval Hindgut    781.8 Larval Malpighian Tubules  1656.8 Larval Fat Body    676.4 Larval Salivary Gland    862.9 Larval Trachea    548.95 Larval Carcass  1317.275 Adult Head    322.6 Adult Eye    291.35 Adult Brain    266.3 Adult Thoracic-Abdominal Ganglion    253.6 Adult Crop    493.6 Adult Midgut    412.7 Adult Hindgut    396.8 Adult Malpighian Tubules    612.7 Adult Fat Body    822.2 Adult Salivary Gland    341.8 Adult Heart    900.75 Adult VirginFemale Spermatheca    479.4 Adult InseminatedFemale Spermatheca    460.7 Adult Ovary    802.7 Adult Testis    327.9 Adult Male Accessory Gland    433.8 Adult Carcass    642.3 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    596.85 Larval Midgut    782.2 Larval Hindgut    781.8 Larval Malpighian Tubules    1656.8 Larval Fat Body    676.4 Larval Salivary Gland    862.9 Larval Trachea    548.95 Larval Carcass    1317.275 Adult Head    322.6 Adult Eye    291.35 Adult Brain    266.3 Adult Thoracic-Abdominal Ganglion    253.6 Adult Crop    493.6 Adult Midgut    412.7 Adult Hindgut    396.8 Adult Malpighian Tubules    612.7 Adult Fat Body    822.2 Adult Salivary Gland    341.8 Adult Heart    900.75 Adult VirginFemale Spermatheca    479.4 Adult InseminatedFemale Spermatheca    460.7 Adult Ovary    802.7 Adult Testis    327.9 Adult Male Accessory Gland    433.8 Adult Carcass    642.3 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    322.6   NA  Eye    291.35   NA  Brain    266.3   596.85  Central Nervous System    NA   NA  Thoracic-Abdominal Ganglion    253.6   NA  Crop    493.6   782.2  Midgut    412.7   781.8  Hindgut    396.8   1656.8  Malpighian Tubules    612.7   676.4  Fat Body    822.2   862.9  Salivary Gland    341.8   NA  Heart    900.75   548.95  Trachea    NA   NA  VirginFemale Spermatheca    479.4   NA  InseminatedFemale Spermatheca    460.7   NA  Ovary    802.7   NA  Testis    327.9   NA  Male Accessory Gland    433.8   1317.275  Carcass    642.3 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    154 central nervous system, larvae L3    136 central nervous system, pupae P8    42 head, virgin 1-day female    44 head, virgin 4-day female    35 head, virgin 20-day female    52 head, mated 1-day female    30 head, mated 4-day female    29 head, mated 20-day female    43 head, mated 1-day male    53 head, mated 4-day male    39 head, mated 20-day male    60 salivary gland, larvae L3 wandering    40 salivary gland, white prepupae    159 digestive system, larvae L3 wandering    333 digestive system, 1-day adult    56 digestive system, 4-day adult    51 digestive system, 20-day adult    57 fat body, larvae L3 wandering    41 fat body, white prepupae    136 fat body, pupae P8    93 carcass, larvae L3 wandering    302 carcass, 1-day adult    55 carcass, 4-day adult    64 carcass, 20-day adult    80 ovary, virgin 4-day female    195 ovary, mated 4-day female    141 testis, mated 4-day male    174 accessory gland, mated 4-day male    52 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  (154) central nervous system, larvae L3  (136) central nervous system, pupae P8  (42) head, virgin 1-day female  (44) head, virgin 4-day female  (35) head, virgin 20-day female  (52) head, mated 1-day female  (30) head, mated 4-day female  (29) head, mated 20-day female  (43) head, mated 1-day male  (53) head, mated 4-day male  (39) head, mated 20-day male  (60) salivary gland, larvae L3 wandering  (40) salivary gland, white prepupae  (159) digestive system, larvae L3 wandering  (333) digestive system, 1-day adult  (56) digestive system, 4-day adult  (51) digestive system, 20-day adult  (57) fat body, larvae L3 wandering  (41) fat body, white prepupae  (136) fat body, pupae P8  (93) carcass, larvae L3 wandering  (302) carcass, 1-day adult  (55) carcass, 4-day adult  (64) carcass, 20-day adult  (80) ovary, virgin 4-day female  (195) ovary, mated 4-day female  (141) testis, mated 4-day male  (174) accessory gland, mated 4-day male  (52) Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering  (154) central nervous system, larvae L3  (136) central nervous system, pupae P8    42 head, virgin 1-day female    44 head, virgin 4-day female    35 head, virgin 20-day female    52 head, mated 1-day female    30 head, mated 4-day female    29 head, mated 20-day female    43 head, mated 1-day male    53 head, mated 4-day male    39 head, mated 20-day male    60 salivary gland, larvae L3 wandering    40 salivary gland, white prepupae  (159) digestive system, larvae L3 wandering  (333) digestive system, 1-day adult    56 digestive system, 4-day adult    51 digestive system, 20-day adult    57 fat body, larvae L3 wandering    41 fat body, white prepupae  (136) fat body, pupae P8    93 carcass, larvae L3 wandering  (302) carcass, 1-day adult    55 carcass, 4-day adult    64 carcass, 20-day adult    80 ovary, virgin 4-day female  (195) ovary, mated 4-day female  (141) testis, mated 4-day male  (174) accessory gland, mated 4-day male    52 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    154 central nervous system, larvae L3    136 central nervous system, pupae P8    42 head, virgin 1-day female    44 head, virgin 4-day female    35 head, virgin 20-day female    52 head, mated 1-day female    30 head, mated 4-day female    29 head, mated 20-day female    43 head, mated 1-day male    53 head, mated 4-day male    39 head, mated 20-day male    60 salivary gland, larvae L3 wandering    40 salivary gland, white prepupae    159 digestive system, larvae L3 wandering    333 digestive system, 1-day adult    56 digestive system, 4-day adult    51 digestive system, 20-day adult    57 fat body, larvae L3 wandering    41 fat body, white prepupae    136 fat body, pupae P8    93 carcass, larvae L3 wandering    302 carcass, 1-day adult    55 carcass, 4-day adult    64 carcass, 20-day adult    80 ovary, virgin 4-day female    195 ovary, mated 4-day female    141 testis, mated 4-day male    174 accessory gland, mated 4-day male    52 Expression Level Scale  Extremely high  log, scaled to maximum expression level Tissue   Expression Level imaginal disc, larvae L3 wandering    154 central nervous system, larvae L3    136 central nervous system, pupae P8    42 head, virgin 1-day female    44 head, virgin 4-day female    35 head, virgin 20-day female    52 head, mated 1-day female    30 head, mated 4-day female    29 head, mated 20-day female    43 head, mated 1-day male    53 head, mated 4-day male    39 head, mated 20-day male    60 salivary gland, larvae L3 wandering    40 salivary gland, white prepupae    159 digestive system, larvae L3 wandering    333 digestive system, 1-day adult    56 digestive system, 4-day adult    51 digestive system, 20-day adult    57 fat body, larvae L3 wandering    41 fat body, white prepupae    136 fat body, pupae P8    93 carcass, larvae L3 wandering    302 carcass, 1-day adult    55 carcass, 4-day adult    64 carcass, 20-day adult    80 ovary, virgin 4-day female    195 ovary, mated 4-day female    141 testis, mated 4-day male    174 accessory gland, mated 4-day male    52 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  (154) central nervous system, larvae L3  (136) central nervous system, pupae P8  (42) head, virgin 1-day female  (44) head, virgin 4-day female  (35) head, virgin 20-day female  (52) head, mated 1-day female  30 head, mated 4-day female  29 head, mated 20-day female  (43) head, mated 1-day male  (53) head, mated 4-day male  (39) head, mated 20-day male  (60) salivary gland, larvae L3 wandering  (40) salivary gland, white prepupae  (159) digestive system, larvae L3 wandering  (333) digestive system, 1-day adult  (56) digestive system, 4-day adult  (51) digestive system, 20-day adult  (57) fat body, larvae L3 wandering  (41) fat body, white prepupae  (136) fat body, pupae P8  (93) carcass, larvae L3 wandering  (302) carcass, 1-day adult  (55) carcass, 4-day adult  (64) carcass, 20-day adult  (80) ovary, virgin 4-day female  (195) ovary, mated 4-day female  (141) testis, mated 4-day male  (174) accessory gland, mated 4-day male  (52) Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering  (154) central nervous system, larvae L3  136 central nervous system, pupae P8    42 head, virgin 1-day female    44 head, virgin 4-day female    35 head, virgin 20-day female    52 head, mated 1-day female    30 head, mated 4-day female    29 head, mated 20-day female    43 head, mated 1-day male    53 head, mated 4-day male    39 head, mated 20-day male    60 salivary gland, larvae L3 wandering    40 salivary gland, white prepupae  (159) digestive system, larvae L3 wandering  (333) digestive system, 1-day adult    56 digestive system, 4-day adult    51 digestive system, 20-day adult    57 fat body, larvae L3 wandering    41 fat body, white prepupae  136 fat body, pupae P8    93 carcass, larvae L3 wandering  (302) carcass, 1-day adult    55 carcass, 4-day adult    64 carcass, 20-day adult    80 ovary, virgin 4-day female  (195) ovary, mated 4-day female  141 testis, mated 4-day male  (174) accessory gland, mated 4-day male    52 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    154 central nervous system, larvae L3    136 central nervous system, pupae P8    42 head, virgin 1-day female    44 head, virgin 4-day female    35 head, virgin 20-day female    52 head, mated 1-day female    30 head, mated 4-day female    29 head, mated 20-day female    43 head, mated 1-day male    53 head, mated 4-day male    39 head, mated 20-day male    60 salivary gland, larvae L3 wandering    40 salivary gland, white prepupae    159 digestive system, larvae L3 wandering    333 digestive system, 1-day adult    56 digestive system, 4-day adult    51 digestive system, 20-day adult    57 fat body, larvae L3 wandering    41 fat body, white prepupae    136 fat body, pupae P8    93 carcass, larvae L3 wandering    302 carcass, 1-day adult    55 carcass, 4-day adult    64 carcass, 20-day adult    80 ovary, virgin 4-day female    195 ovary, mated 4-day female    141 testis, mated 4-day male    174 accessory gland, mated 4-day male    52 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  Heatmap Tissue   Expression Level imaginal disc, larvae L3 wandering     central nervous system, larvae L3     central nervous system, pupae P8     head, virgin 1-day female     head, virgin 4-day female     head, virgin 20-day female     head, mated 1-day female     head, mated 4-day female     head, mated 20-day female     head, mated 1-day male     head, mated 4-day male     head, mated 20-day male     salivary gland, larvae L3 wandering     salivary gland, white prepupae     digestive system, larvae L3 wandering     digestive system, 1-day adult     digestive system, 4-day adult     digestive system, 20-day adult     fat body, larvae L3 wandering     fat body, white prepupae     fat body, pupae P8     carcass, larvae L3 wandering     carcass, 1-day adult     carcass, 4-day adult     carcass, 20-day adult     ovary, virgin 4-day female     ovary, mated 4-day female     testis, mated 4-day male     accessory gland, mated 4-day male
modENCODE Development RNA-Seq
modENCODE Temporal Expression Data (modENCODE_mRNA-Seq_U)    Styles Linear Logarithmic Heatmap    Scales gene max expression Moderate expression bin max High expression bin max Extremely high expression bin max Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of very high expression to a trough of moderately high expression. Peak expression observed within 00-06 hour embryonic stages, during late larval stages, during early pupal 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    163 embryo 02-04hr    42 embryo 04-06hr    79 embryo 06-08hr    88 embryo 08-10hr    61 embryo 10-12hr    57 embryo 12-14hr    35 embryo 14-16hr    30 embryo 16-18hr    22 embryo 18-20hr    20 embryo 20-22hr    19 embryo 22-24hr    18 larva L1    35 larva L2    77 larva L3 12hr old    55 larva L3 puffstage 1-2    91 larva L3 puffstage 3-6    169 larva L3 puffstage 7-9    259 white prepupae new    309 white prepupae 12hr    106 white prepupae 24hr    102 pupae 2d postWPP    67 pupae 3d postWPP    47 pupae 4d postWPP    93 adult male 01day    70 adult male 05day    61 adult male 30day    58 adult female 01day    92 adult female 05day    119 adult female 30day    117 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr  (163) embryo 02-04hr  (42) embryo 04-06hr  (79) embryo 06-08hr  (88) embryo 08-10hr  (61) embryo 10-12hr  (57) embryo 12-14hr  (35) embryo 14-16hr  (30) embryo 16-18hr    22 embryo 18-20hr    20 embryo 20-22hr    19 embryo 22-24hr    18 larva L1  (35) larva L2  (77) larva L3 12hr old  (55) larva L3 puffstage 1-2  (91) larva L3 puffstage 3-6  (169) larva L3 puffstage 7-9  (259) white prepupae new  (309) white prepupae 12hr  (106) white prepupae 24hr  (102) pupae 2d postWPP  (67) pupae 3d postWPP  (47) pupae 4d postWPP  (93) adult male 01day  (70) adult male 05day  (61) adult male 30day  (58) adult female 01day  (92) adult female 05day  (119) adult female 30day  (117) Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr  (163) embryo 02-04hr    42 embryo 04-06hr    79 embryo 06-08hr    88 embryo 08-10hr    61 embryo 10-12hr    57 embryo 12-14hr    35 embryo 14-16hr    30 embryo 16-18hr    22 embryo 18-20hr    20 embryo 20-22hr    19 embryo 22-24hr    18 larva L1    35 larva L2    77 larva L3 12hr old    55 larva L3 puffstage 1-2    91 larva L3 puffstage 3-6  (169) larva L3 puffstage 7-9  (259) white prepupae new  (309) white prepupae 12hr  106 white prepupae 24hr  102 pupae 2d postWPP    67 pupae 3d postWPP    47 pupae 4d postWPP    93 adult male 01day    70 adult male 05day    61 adult male 30day    58 adult female 01day    92 adult female 05day  (119) adult female 30day  (117) 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    163 embryo 02-04hr    42 embryo 04-06hr    79 embryo 06-08hr    88 embryo 08-10hr    61 embryo 10-12hr    57 embryo 12-14hr    35 embryo 14-16hr    30 embryo 16-18hr    22 embryo 18-20hr    20 embryo 20-22hr    19 embryo 22-24hr    18 larva L1    35 larva L2    77 larva L3 12hr old    55 larva L3 puffstage 1-2    91 larva L3 puffstage 3-6    169 larva L3 puffstage 7-9    259 white prepupae new    309 white prepupae 12hr    106 white prepupae 24hr    102 pupae 2d postWPP    67 pupae 3d postWPP    47 pupae 4d postWPP    93 adult male 01day    70 adult male 05day    61 adult male 30day    58 adult female 01day    92 adult female 05day    119 adult female 30day    117 Expression Level Scale  Extremely high  log, scaled to maximum expression level Developmental Stage   Expression Level embryo 00-02hr    163 embryo 02-04hr    42 embryo 04-06hr    79 embryo 06-08hr    88 embryo 08-10hr    61 embryo 10-12hr    57 embryo 12-14hr    35 embryo 14-16hr    30 embryo 16-18hr    22 embryo 18-20hr    20 embryo 20-22hr    19 embryo 22-24hr    18 larva L1    35 larva L2    77 larva L3 12hr old    55 larva L3 puffstage 1-2    91 larva L3 puffstage 3-6    169 larva L3 puffstage 7-9    259 white prepupae new    309 white prepupae 12hr    106 white prepupae 24hr    102 pupae 2d postWPP    67 pupae 3d postWPP    47 pupae 4d postWPP    93 adult male 01day    70 adult male 05day    61 adult male 30day    58 adult female 01day    92 adult female 05day    119 adult female 30day    117 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr  (163) embryo 02-04hr  (42) embryo 04-06hr  (79) embryo 06-08hr  (88) embryo 08-10hr  (61) embryo 10-12hr  (57) embryo 12-14hr  (35) embryo 14-16hr  30 embryo 16-18hr    22 embryo 18-20hr    20 embryo 20-22hr    19 embryo 22-24hr    18 larva L1  (35) larva L2  (77) larva L3 12hr old  (55) larva L3 puffstage 1-2  (91) larva L3 puffstage 3-6  (169) larva L3 puffstage 7-9  (259) white prepupae new  (309) white prepupae 12hr  (106) white prepupae 24hr  (102) pupae 2d postWPP  (67) pupae 3d postWPP  (47) pupae 4d postWPP  (93) adult male 01day  (70) adult male 05day  (61) adult male 30day  (58) adult female 01day  (92) adult female 05day  (119) adult female 30day  (117) Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr  (163) embryo 02-04hr    42 embryo 04-06hr    79 embryo 06-08hr    88 embryo 08-10hr    61 embryo 10-12hr    57 embryo 12-14hr    35 embryo 14-16hr    30 embryo 16-18hr    22 embryo 18-20hr    20 embryo 20-22hr    19 embryo 22-24hr    18 larva L1    35 larva L2    77 larva L3 12hr old    55 larva L3 puffstage 1-2    91 larva L3 puffstage 3-6  (169) larva L3 puffstage 7-9  (259) white prepupae new  (309) white prepupae 12hr  106 white prepupae 24hr  102 pupae 2d postWPP    67 pupae 3d postWPP    47 pupae 4d postWPP    93 adult male 01day    70 adult male 05day    61 adult male 30day    58 adult female 01day    92 adult female 05day  119 adult female 30day  117 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    163 embryo 02-04hr    42 embryo 04-06hr    79 embryo 06-08hr    88 embryo 08-10hr    61 embryo 10-12hr    57 embryo 12-14hr    35 embryo 14-16hr    30 embryo 16-18hr    22 embryo 18-20hr    20 embryo 20-22hr    19 embryo 22-24hr    18 larva L1    35 larva L2    77 larva L3 12hr old    55 larva L3 puffstage 1-2    91 larva L3 puffstage 3-6    169 larva L3 puffstage 7-9    259 white prepupae new    309 white prepupae 12hr    106 white prepupae 24hr    102 pupae 2d postWPP    67 pupae 3d postWPP    47 pupae 4d postWPP    93 adult male 01day    70 adult male 05day    61 adult male 30day    58 adult female 01day    92 adult female 05day    119 adult female 30day    117 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+    182 Schneider line 2 Sg4    152 embryonic 1182-4H    122 embryonic GM2    192 embryonic Kc167    57 embryonic S1    436 embryonic S3    129 leg disc CME L1    127 wing disc CME-W2    88 wing disc ML-DmD8    71 wing disc ML-DmD9    169 wing disc ML-DmD16-c3    202 wing disc ML-DmD21    186 wing disc ML-DmD32    111 haltere disc ML-DmD17-c3    174 eye-antennal disc ML-DmD11    171 antennal disc ML-DmD20-c5    181 mixed discs ML-DmD4-c1    177 CNS ML-DmBG1-c1    154 CNS ML-DmBG2-c2    273 tumorous blood cells mbn2    136 ovary fGS/OSS    81 ovary OSC    120 ovary OSS    45 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+  (182) Schneider line 2 Sg4  (152) embryonic 1182-4H  (122) embryonic GM2  (192) embryonic Kc167  (57) embryonic S1  (436) embryonic S3  (129) leg disc CME L1  (127) wing disc CME-W2  (88) wing disc ML-DmD8  (71) wing disc ML-DmD9  (169) wing disc ML-DmD16-c3  (202) wing disc ML-DmD21  (186) wing disc ML-DmD32  (111) haltere disc ML-DmD17-c3  (174) eye-antennal disc ML-DmD11  (171) antennal disc ML-DmD20-c5  (181) mixed discs ML-DmD4-c1  (177) CNS ML-DmBG1-c1  (154) CNS ML-DmBG2-c2  (273) tumorous blood cells mbn2  (136) ovary fGS/OSS  (81) ovary OSC  (120) ovary OSS  (45) Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+  (182) Schneider line 2 Sg4  (152) embryonic 1182-4H  (122) embryonic GM2  (192) embryonic Kc167    57 embryonic S1  (436) embryonic S3  (129) leg disc CME L1  (127) wing disc CME-W2    88 wing disc ML-DmD8    71 wing disc ML-DmD9  (169) wing disc ML-DmD16-c3  (202) wing disc ML-DmD21  (186) wing disc ML-DmD32  (111) haltere disc ML-DmD17-c3  (174) eye-antennal disc ML-DmD11  (171) antennal disc ML-DmD20-c5  (181) mixed discs ML-DmD4-c1  (177) CNS ML-DmBG1-c1  (154) CNS ML-DmBG2-c2  (273) tumorous blood cells mbn2  (136) ovary fGS/OSS    81 ovary OSC  (120) ovary OSS    45 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+    182 Schneider line 2 Sg4    152 embryonic 1182-4H    122 embryonic GM2    192 embryonic Kc167    57 embryonic S1    436 embryonic S3    129 leg disc CME L1    127 wing disc CME-W2    88 wing disc ML-DmD8    71 wing disc ML-DmD9    169 wing disc ML-DmD16-c3    202 wing disc ML-DmD21    186 wing disc ML-DmD32    111 haltere disc ML-DmD17-c3    174 eye-antennal disc ML-DmD11    171 antennal disc ML-DmD20-c5    181 mixed discs ML-DmD4-c1    177 CNS ML-DmBG1-c1    154 CNS ML-DmBG2-c2    273 tumorous blood cells mbn2    136 ovary fGS/OSS    81 ovary OSC    120 ovary OSS    45 Expression Level Scale  Extremely high  log, scaled to maximum expression level Cell Line   Expression Level Schneider line 2 S2R+    182 Schneider line 2 Sg4    152 embryonic 1182-4H    122 embryonic GM2    192 embryonic Kc167    57 embryonic S1    436 embryonic S3    129 leg disc CME L1    127 wing disc CME-W2    88 wing disc ML-DmD8    71 wing disc ML-DmD9    169 wing disc ML-DmD16-c3    202 wing disc ML-DmD21    186 wing disc ML-DmD32    111 haltere disc ML-DmD17-c3    174 eye-antennal disc ML-DmD11    171 antennal disc ML-DmD20-c5    181 mixed discs ML-DmD4-c1    177 CNS ML-DmBG1-c1    154 CNS ML-DmBG2-c2    273 tumorous blood cells mbn2    136 ovary fGS/OSS    81 ovary OSC    120 ovary OSS    45 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+  (182) Schneider line 2 Sg4  (152) embryonic 1182-4H  (122) embryonic GM2  (192) embryonic Kc167  (57) embryonic S1  (436) embryonic S3  (129) leg disc CME L1  (127) wing disc CME-W2  (88) wing disc ML-DmD8  (71) wing disc ML-DmD9  (169) wing disc ML-DmD16-c3  (202) wing disc ML-DmD21  (186) wing disc ML-DmD32  (111) haltere disc ML-DmD17-c3  (174) eye-antennal disc ML-DmD11  (171) antennal disc ML-DmD20-c5  (181) mixed discs ML-DmD4-c1  (177) CNS ML-DmBG1-c1  (154) CNS ML-DmBG2-c2  (273) tumorous blood cells mbn2  (136) ovary fGS/OSS  (81) ovary OSC  (120) ovary OSS  (45) Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+  (182) Schneider line 2 Sg4  (152) embryonic 1182-4H  122 embryonic GM2  (192) embryonic Kc167    57 embryonic S1  (436) embryonic S3  129 leg disc CME L1  127 wing disc CME-W2    88 wing disc ML-DmD8    71 wing disc ML-DmD9  (169) wing disc ML-DmD16-c3  (202) wing disc ML-DmD21  (186) wing disc ML-DmD32  111 haltere disc ML-DmD17-c3  (174) eye-antennal disc ML-DmD11  (171) antennal disc ML-DmD20-c5  (181) mixed discs ML-DmD4-c1  (177) CNS ML-DmBG1-c1  (154) CNS ML-DmBG2-c2  (273) tumorous blood cells mbn2  136 ovary fGS/OSS    81 ovary OSC  120 ovary OSS    45 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+    182 Schneider line 2 Sg4    152 embryonic 1182-4H    122 embryonic GM2    192 embryonic Kc167    57 embryonic S1    436 embryonic S3    129 leg disc CME L1    127 wing disc CME-W2    88 wing disc ML-DmD8    71 wing disc ML-DmD9    169 wing disc ML-DmD16-c3    202 wing disc ML-DmD21    186 wing disc ML-DmD32    111 haltere disc ML-DmD17-c3    174 eye-antennal disc ML-DmD11    171 antennal disc ML-DmD20-c5    181 mixed discs ML-DmD4-c1    177 CNS ML-DmBG1-c1    154 CNS ML-DmBG2-c2    273 tumorous blood cells mbn2    136 ovary fGS/OSS    81 ovary OSC    120 ovary OSS    45 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    89 cold shock, 4-day adult    74 heat shock, 4-day adult    104 Cadmium 50 mM 6 hrs, larvae L3    108 Cadmium 50 mM 12 hrs, larvae L3    195 Cadmium 50 mM 48 hrs, 4-day adult    95 Cadmium 100 mM 48 hrs, 4-day adult    121 Copper 0.5 mM 12 hrs, larvae L3    68 Copper 15 mM 48 hrs, 4-day adult    44 Zinc 5 mM 12 hrs, larvae L3    66 Zinc 4.5 mM 48 hrs, 4-day adult    47 Ethanol 2.5% 3 hrs, larvae L3    141 Ethanol 5% 3 hrs, larvae L3    91 Ethanol 10% 3 hrs, larvae L3    75 Caffeine 1.5 mg/ml 4 hrs, larvae L3    120 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    123 Caffeine 25 mg/ml 48 hrs, 4-day adult    68 Paraquat 5 mM 48 hrs, 4-day adult    109 Paraquat 10 mM 48 hrs, 4-day adult    143 Rotenone 2 μg 12 hrs, larvae L3    123 Rotenone 8 μg 12 hrs, larvae L3    125 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  (89) cold shock, 4-day adult  (74) heat shock, 4-day adult  (104) Cadmium 50 mM 6 hrs, larvae L3  (108) Cadmium 50 mM 12 hrs, larvae L3  (195) Cadmium 50 mM 48 hrs, 4-day adult  (95) Cadmium 100 mM 48 hrs, 4-day adult  (121) Copper 0.5 mM 12 hrs, larvae L3  (68) Copper 15 mM 48 hrs, 4-day adult  (44) Zinc 5 mM 12 hrs, larvae L3  (66) Zinc 4.5 mM 48 hrs, 4-day adult  (47) Ethanol 2.5% 3 hrs, larvae L3  (141) Ethanol 5% 3 hrs, larvae L3  (91) Ethanol 10% 3 hrs, larvae L3  (75) Caffeine 1.5 mg/ml 4 hrs, larvae L3  (120) Caffeine 2.5 mg/ml 48 hrs, 4-day adult  (123) Caffeine 25 mg/ml 48 hrs, 4-day adult  (68) Paraquat 5 mM 48 hrs, 4-day adult  (109) Paraquat 10 mM 48 hrs, 4-day adult  (143) Rotenone 2 μg 12 hrs, larvae L3  (123) Rotenone 8 μg 12 hrs, larvae L3  (125) Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    89 cold shock, 4-day adult    74 heat shock, 4-day adult  104 Cadmium 50 mM 6 hrs, larvae L3  (108) Cadmium 50 mM 12 hrs, larvae L3  (195) Cadmium 50 mM 48 hrs, 4-day adult    95 Cadmium 100 mM 48 hrs, 4-day adult  (121) Copper 0.5 mM 12 hrs, larvae L3    68 Copper 15 mM 48 hrs, 4-day adult    44 Zinc 5 mM 12 hrs, larvae L3    66 Zinc 4.5 mM 48 hrs, 4-day adult    47 Ethanol 2.5% 3 hrs, larvae L3  (141) Ethanol 5% 3 hrs, larvae L3    91 Ethanol 10% 3 hrs, larvae L3    75 Caffeine 1.5 mg/ml 4 hrs, larvae L3  (120) Caffeine 2.5 mg/ml 48 hrs, 4-day adult  (123) Caffeine 25 mg/ml 48 hrs, 4-day adult    68 Paraquat 5 mM 48 hrs, 4-day adult  (109) Paraquat 10 mM 48 hrs, 4-day adult  (143) Rotenone 2 μg 12 hrs, larvae L3  (123) Rotenone 8 μg 12 hrs, larvae L3  (125) 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    89 cold shock, 4-day adult    74 heat shock, 4-day adult    104 Cadmium 50 mM 6 hrs, larvae L3    108 Cadmium 50 mM 12 hrs, larvae L3    195 Cadmium 50 mM 48 hrs, 4-day adult    95 Cadmium 100 mM 48 hrs, 4-day adult    121 Copper 0.5 mM 12 hrs, larvae L3    68 Copper 15 mM 48 hrs, 4-day adult    44 Zinc 5 mM 12 hrs, larvae L3    66 Zinc 4.5 mM 48 hrs, 4-day adult    47 Ethanol 2.5% 3 hrs, larvae L3    141 Ethanol 5% 3 hrs, larvae L3    91 Ethanol 10% 3 hrs, larvae L3    75 Caffeine 1.5 mg/ml 4 hrs, larvae L3    120 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    123 Caffeine 25 mg/ml 48 hrs, 4-day adult    68 Paraquat 5 mM 48 hrs, 4-day adult    109 Paraquat 10 mM 48 hrs, 4-day adult    143 Rotenone 2 μg 12 hrs, larvae L3    123 Rotenone 8 μg 12 hrs, larvae L3    125 Expression Level Scale  Extremely high  log, scaled to maximum expression level Treatment   Expression Level extended cold, 4-day adult    89 cold shock, 4-day adult    74 heat shock, 4-day adult    104 Cadmium 50 mM 6 hrs, larvae L3    108 Cadmium 50 mM 12 hrs, larvae L3    195 Cadmium 50 mM 48 hrs, 4-day adult    95 Cadmium 100 mM 48 hrs, 4-day adult    121 Copper 0.5 mM 12 hrs, larvae L3    68 Copper 15 mM 48 hrs, 4-day adult    44 Zinc 5 mM 12 hrs, larvae L3    66 Zinc 4.5 mM 48 hrs, 4-day adult    47 Ethanol 2.5% 3 hrs, larvae L3    141 Ethanol 5% 3 hrs, larvae L3    91 Ethanol 10% 3 hrs, larvae L3    75 Caffeine 1.5 mg/ml 4 hrs, larvae L3    120 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    123 Caffeine 25 mg/ml 48 hrs, 4-day adult    68 Paraquat 5 mM 48 hrs, 4-day adult    109 Paraquat 10 mM 48 hrs, 4-day adult    143 Rotenone 2 μg 12 hrs, larvae L3    123 Rotenone 8 μg 12 hrs, larvae L3    125 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  (89) cold shock, 4-day adult  (74) heat shock, 4-day adult  (104) Cadmium 50 mM 6 hrs, larvae L3  (108) Cadmium 50 mM 12 hrs, larvae L3  (195) Cadmium 50 mM 48 hrs, 4-day adult  (95) Cadmium 100 mM 48 hrs, 4-day adult  (121) Copper 0.5 mM 12 hrs, larvae L3  (68) Copper 15 mM 48 hrs, 4-day adult  (44) Zinc 5 mM 12 hrs, larvae L3  (66) Zinc 4.5 mM 48 hrs, 4-day adult  (47) Ethanol 2.5% 3 hrs, larvae L3  (141) Ethanol 5% 3 hrs, larvae L3  (91) Ethanol 10% 3 hrs, larvae L3  (75) Caffeine 1.5 mg/ml 4 hrs, larvae L3  (120) Caffeine 2.5 mg/ml 48 hrs, 4-day adult  (123) Caffeine 25 mg/ml 48 hrs, 4-day adult  (68) Paraquat 5 mM 48 hrs, 4-day adult  (109) Paraquat 10 mM 48 hrs, 4-day adult  (143) Rotenone 2 μg 12 hrs, larvae L3  (123) Rotenone 8 μg 12 hrs, larvae L3  (125) Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    89 cold shock, 4-day adult    74 heat shock, 4-day adult  104 Cadmium 50 mM 6 hrs, larvae L3  108 Cadmium 50 mM 12 hrs, larvae L3  (195) Cadmium 50 mM 48 hrs, 4-day adult    95 Cadmium 100 mM 48 hrs, 4-day adult  121 Copper 0.5 mM 12 hrs, larvae L3    68 Copper 15 mM 48 hrs, 4-day adult    44 Zinc 5 mM 12 hrs, larvae L3    66 Zinc 4.5 mM 48 hrs, 4-day adult    47 Ethanol 2.5% 3 hrs, larvae L3  141 Ethanol 5% 3 hrs, larvae L3    91 Ethanol 10% 3 hrs, larvae L3    75 Caffeine 1.5 mg/ml 4 hrs, larvae L3  120 Caffeine 2.5 mg/ml 48 hrs, 4-day adult  123 Caffeine 25 mg/ml 48 hrs, 4-day adult    68 Paraquat 5 mM 48 hrs, 4-day adult  109 Paraquat 10 mM 48 hrs, 4-day adult  143 Rotenone 2 μg 12 hrs, larvae L3  123 Rotenone 8 μg 12 hrs, larvae L3  125 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    89 cold shock, 4-day adult    74 heat shock, 4-day adult    104 Cadmium 50 mM 6 hrs, larvae L3    108 Cadmium 50 mM 12 hrs, larvae L3    195 Cadmium 50 mM 48 hrs, 4-day adult    95 Cadmium 100 mM 48 hrs, 4-day adult    121 Copper 0.5 mM 12 hrs, larvae L3    68 Copper 15 mM 48 hrs, 4-day adult    44 Zinc 5 mM 12 hrs, larvae L3    66 Zinc 4.5 mM 48 hrs, 4-day adult    47 Ethanol 2.5% 3 hrs, larvae L3    141 Ethanol 5% 3 hrs, larvae L3    91 Ethanol 10% 3 hrs, larvae L3    75 Caffeine 1.5 mg/ml 4 hrs, larvae L3    120 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    123 Caffeine 25 mg/ml 48 hrs, 4-day adult    68 Paraquat 5 mM 48 hrs, 4-day adult    109 Paraquat 10 mM 48 hrs, 4-day adult    143 Rotenone 2 μg 12 hrs, larvae L3    123 Rotenone 8 μg 12 hrs, larvae L3    125 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. (Graveley et al., 2011) mE1_20_mRNA_expression_cluster_02
External Data & Images
Linkouts	FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0261396
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele lethal, with Scer\GAL4pnr-MD237 Rpn3GD6990 lethal | larval stage Rpn32 Rpn33 Rpn35 lethal | larval stage | recessive Rpn31 viable | reduced Rpn3mfs1 Sterility Allele sterile Rpn3mfs1 Other Phenotypes Allele body color defective Rpn31 wild-type Rpn3+t5.2 Phenotype manifest in Allele
Classical Alleles ( 5 )
For All Classical Alleles Show
Allele of Rpn3 Class Mutagen Stocks Known lesion Rpn31 ethyl methanesulfonate gamma ray 2 Yes Rpn3mfs1 ethyl methanesulfonate gamma ray 2 -- Rpn33 ethyl methanesulfonate gamma ray 1 -- Rpn32 ethyl methanesulfonate gamma ray 0 Yes Rpn35 ethyl methanesulfonate gamma ray 0 --
Alleles Carried on Transgenic Constructs ( 7 )
For All Alleles Carried on Transgenic Constructs Show
Allele of Rpn3 Class Mutagen Stocks Known lesion Rpn3GD6990 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes Rpn3HM05247 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes Rpn3HMS01033 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes Rpn3KK101504 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes Rpn3+t5.2 in vitro construct - genomic fragment 0 Yes Rpn3B4 in vitro construct - genomic fragment 0 Yes Rpn3NIG.10484R in vitro construct - RNAi in vitro construct - regulatory fusion 0 Yes
Aneuploid Aberrations
Disrupted in	Df(2L)Exel6042 (Ryder, 2004.4.26) Df(2L)hk18 (Wright, 1996, Pentz et al., 1986) Df(2L)hk-UC1 (Stathakis et al., 1995, Wright, 1996) Df(2L)hk-UC2 (Wright, 1996, Stathakis et al., 1995) Df(2L)TW130 (Pentz et al., 1986, Stathakis et al., 1995, Wright, 1996) Df(2L)VA18 (Pentz et al., 1986, Gilbert et al., 1984, Stathakis et al., 1995, Wright, 1996) Df(2L)VA21 (Wright, 1996, Stathakis et al., 1995) Df(2L)VA23 (Stathakis et al., 1995)
Not disrupted in	Df(2L)E55 (Stathakis et al., 1995) Df(2L)NST (Stathakis et al., 1995, Pentz et al., 1986, Wright, 1996) Df(2L)OD15 (Pentz et al., 1986, Stathakis et al., 1995, Wright, 1996) Df(2L)Sd37 (Stathakis et al., 1995, Wright, 1996) Df(2L)Sd57 (Stathakis et al., 1995, Wright, 1996) Df(2L)Sd77 (Wright, 1996, Stathakis et al., 1995) Df(2L)TE37C-1 (Gilbert et al., 1984, Wright, 1996) Df(2L)TE37C-7 (Stathakis et al., 1995, Wright, 1996) Df(2L)TW137 (Stathakis et al., 1995) Df(2L)TW203 (Pentz et al., 1986, Stathakis et al., 1995, Wright, 1996) Df(2L)VA12 (Stathakis et al., 1995, Gilbert et al., 1984, Pentz et al., 1986, Wright, 1996) Df(2L)VA13 (Gilbert et al., 1984, Wright, 1996) Df(2L)VA17 (Pentz et al., 1986, Gilbert et al., 1984, Wright, 1996, Stathakis et al., 1995) Df(2L)VA19 (Stathakis et al., 1995, Wright, 1996)
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{NIG.10484R} NA P{TRiP.HM05247} NA P{TRiP.HMS01033} NA
Insertions
	Type of insertions Name Expression data
Gene Ontology: Function, Process & Cellular Component ( 8 unique terms )
Terms Based on Experimental Evidence ( 3 terms )
Molecular Function
CV term Evidence References
contributes_to endopeptidase activity inferred from direct assay (Holzl et al., 2000)
Biological Process
CV term Evidence References
proteolysis inferred from direct assay AND inferred from sequence or structural similarity with human PSMD3 AND inferred from sequence or structural similarity with Saccharomyces RPN3 (Holzl et al., 2000)
Cellular Component
CV term Evidence References
proteasome regulatory particle inferred from direct assay (Sumegi et al., 2003) inferred from direct assay AND inferred from sequence or structural similarity with human PSMD3 (Holzl et al., 2000)
Terms Based on Predictions or Assertions ( 6 terms )
Molecular Function
CV term Evidence References
endopeptidase activity inferred from sequence or structural similarity (Apweiler, 1999.12.27, Swiss-Prot Project Members, 1992.5.1) enzyme regulator activity inferred from electronic annotation with InterPro:IPR013586 (FlyBase Curators et al., 2004-)
Biological Process
CV term Evidence References
proteasomal ubiquitin-dependent protein catabolic process inferred by curator from GO:0005838 (Sumegi et al., 2003) regulation of protein catabolic process inferred from electronic annotation with InterPro:IPR013586 (FlyBase Curators et al., 2004-)
Cellular Component
CV term Evidence References
proteasome complex inferred from sequence or structural similarity (Apweiler, 1999.12.27) proteasome regulatory particle, lid subcomplex inferred from sequence or structural similarity with Saccharomyces RPN3 (Holzl et al., 2000)
Sequence Ontology: Class of Gene
	nuclear_gene   protein_coding_gene
Interactions & Pathways
Summary of Physical Interactions
protein-protein
Interacting group Assay References
Rpn3 - Arp1 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rpn3 - CG10934 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rpn3 - CG11210 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rpn3 - CG14718 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rpn3 - CG2183 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rpn3 - CG3303 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rpn3 - CG5027 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rpn3 - CG5854 experimental knowledge based (Guruharsha et al., 2011) Rpn3 - CG6073 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rpn3 - CG9547 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rpn3 - CG9588 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rpn3 - CSN4 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rpn3 - Cct2 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rpn3 - Cyp12d1-p experimental knowledge based (Guruharsha et al., 2011) Rpn3 - Ent2 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rpn3 - Gmd anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rpn3 - Lapsyn anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rpn3 - Nmdar1 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rpn3 - Pka-R1 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rpn3 - Prosα7 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rpn3 - Prosβ2 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rpn3 - Prosβ6 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rpn3 - RagC-D anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rpn3 - Rpn1 experimental knowledge based (Guruharsha et al., 2011) Rpn3 - Rpn11 anti tag coimmunoprecipitation, peptide massfingerprinting, experimental knowledge based (Mintseris et al., 2009.11.23, Guruharsha et al., 2011) Rpn3 - Rpn13 experimental knowledge based (Guruharsha et al., 2011) Rpn3 - Rpn2 experimental knowledge based (Guruharsha et al., 2011) Rpn3 - Rpn5 experimental knowledge based (Guruharsha et al., 2011) Rpn3 - Rpn6 experimental knowledge based (Guruharsha et al., 2011) Rpn3 - Rpn7 experimental knowledge based (Guruharsha et al., 2011) Rpn3 - Rpn8 experimental knowledge based (Guruharsha et al., 2011) Rpn3 - Rpn9 experimental knowledge based (Guruharsha et al., 2011) Rpn3 - Rpp30 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rpn3 - Rpt1 experimental knowledge based (Guruharsha et al., 2011) Rpn3 - Rpt2 experimental knowledge based (Guruharsha et al., 2011) Rpn3 - Rpt3 experimental knowledge based (Guruharsha et al., 2011) Rpn3 - Rpt4 experimental knowledge based (Guruharsha et al., 2011) Rpn3 - Rpt5 experimental knowledge based (Guruharsha et al., 2011) Rpn3 - Rpt6 experimental knowledge based (Guruharsha et al., 2011) Rpn3 - Snap anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rpn3 - Uch-L5 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rpn3 - ine anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rpn3 - noi anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rpn3 - porin anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rpn3 - tyn anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rpn3 - βggt-II anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23)
Summary of Genetic Interactions
Interacts with	Please look at the allele data for full details of the genetic interactions Rpn3 allele Gene References
External Data
Linkouts	BioGRID - A database of protein and genetic interactions • 61163 DroID - A comprehensive database of gene and protein interactions. • FBgn0261396 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 35176
Orthologs
OrthoDB Orthologs (38) - 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 EOG6D278M Dipteran inclusive ortholog search EOG6JWVNW Insect inclusive ortholog search EOG6S7HK9 Arthropod inclusive ortholog search EOG6905R7 Metazoa inclusive ortholog search EOG612ZZR
Orthologs in Drosophila Species (EOG6D278M)
Organism Common Name Gene AAA Syntenic Ortholog Multiple Dmel Genes in this Orthologous Group Drosophila melanogaster fruit fly  Dmel\Rpn3     Drosophila simulans   Dsim\GD24178 Y   Drosophila sechellia   Dsec\GM17319 Y   Drosophila erecta   Dere\GG21155 Y   Drosophila yakuba   Dyak\GE13227 Y   Drosophila ananassae   Dana\GF14695 Y   Drosophila pseudoobscura pseudoobscura   Dpse\GA10344 Y   Drosophila persimilis   Dper\GL26159 Y   Drosophila willistoni   Dwil\GK24169 Y   Drosophila virilis   Dvir\GJ11636 Y   Drosophila mojavensis   Dmoj\GI13097 Y   Drosophila grimshawi   Dgri\GH10894 Y
Orthologs in non-Drosophila Dipterans (EOG6JWVNW)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Aedes aegypti Yellow fever mosquito  Aaeg\AAEL012122   Anopheles gambiae Malaria mosquito  Agam\Dox-A2   Culex quinquefasciatus Southern house mosquito  Cqui\CPIJ802320
Orthologs in non-Dipteran Insects (EOG6S7HK9)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Apis mellifera Western honey bee  Amel\GB54573   Nasonia vitripennis Parasitic wasp  Nvit\Nasvi2EG002579   Acromyrmex echinatior Panamanian leafcutter ant  Aech\AECH14710   Atta cephalotes Leafcutter ant  Acep\ACEP24129   Camponotus floridanus Florida carpenter ant  Cflo\CFLO13933   Harpegnathos saltator Jerdons jumping ant  Hsal\HSAL15061   Linepithema humile Argentine ant  Lhum\LH18786   Pogonomyrmex barbatus Red harvester ant  Pbar\PB12600   Solenopsis invicta Red fire ant  Sinv\SINV17522   Acyrthosiphon pisum Pea aphid  Apim\ACYPI009816   Bombyx mori Silkmoth  Bmor\BGIBMGA002953   Pediculus humanus Human body louse  Phum\PHUM163740   Tribolium castaneum Red flour beetle  Tcas\TC014286
Orthologs in non-Insect Arthropods (EOG6905R7)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Daphnia pulex Water flea  Dpux\JGI_V11_227411   Ixodes scapularis Deer tick  Isca\ISCW024379
Orthologs in non-Arthropod Metazoa (EOG612ZZR)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Caenorhabditis elegans Nematode  Cele\rpn-3   Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_028912gn   Danio rerio Zebrafish  Drer\psmd3   Xenopus tropicalis Western clawed frog  Xtro\psmd3   Gallus gallus Domestic chicken  Ggal\ENSGALG00000022293   Mus musculus House mouse  Mmus\Psmd3   Rattus norvegicus Norway rat  Rnor\Psmd3   Homo sapiens Human  Hsap\PSMD3
Human Orthologs (1)
Gene OMIM HGNC Hsap\PSMD3
AAA Orthologs (11) based on analysis using Dmel annotation version 4.3
Organism Gene Drosophila simulans Dsim\GD24178 Drosophila sechellia Dsec\GM17319 Drosophila erecta Dere\GG21155 Drosophila yakuba Dyak\GE13227 Drosophila ananassae Dana\GF14695 Drosophila pseudoobscura pseudoobscura Dpse\GA10344 Drosophila persimilis Dper\GL26159 Drosophila willistoni Dwil\GK24169 Drosophila virilis Dvir\GJ11636 Drosophila mojavensis Dmoj\GI13097 Drosophila grimshawi Dgri\GH10894
Stocks & Reagents
Stocks Listed in FlyBase ( 9 )
Bloomington	4202 Rpn31 pr1/CyO 3191 Rpn3mfs1 pr1/CyO 5373 Rpn33 pr1 or49h/CyO 34561 y1 sc* v1; P{TRiP.HMS01033}attP2 30503 y1 sc* v1; P{TRiP.HM05247}attP2/TM3, Sb1
Kyoto	107629 Rpn31 pr1/CyO 103229 CyO, Cy1 dplv1 pr1 cn2 / Rpn3mfs1 Bl1
VDRC	v108582 P{KK101504}VIE-260B v49423 w1118; P{GD6990}v49423
Genomic Clones ( 1 )
	BACR04C20 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 102 )
	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	AT15146
Other clones	FI06020 IP19605
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	AT02685 AT03065 AT03656 AT03667 AT10778 AT10878 AT11369 AT13069 AT16090 AT16326 AT19031 AT20752 AT22773 AT22910 AT26795 AT29742 GH05246 GH17659 GM06238 GM06383 GM06481 GM08909 GM12370 HL04793 HL05793 LD15930 LD17159 LD34970 LD36184 LD36723 LD38734 LD39510 LP03060 LP08187 LP12393 LP16444 LP18091 LP23345 LP24148 RE33834 RH25978 RH26513 RH26561 RH27646 RH30741 RH30841 RH32801 RH33084 RH35229 RH46783 RH50691 RH54330 RH58216 RH64563 SD01231 SD11591 SD13618 SD21343 SD23101
Other clones	20028 29863 58654 67464 155926 AT01374 bs77d07 CK01.1C.H9 CK01.1C.H11 CK01.99C.G10 Dmel_dig_020001_0718_1348 Dmel_neb_012841_0190_3414 EK084457 EK133811 EK138264 EK181161 EK195561 EK258631 FGM223H08 IP09245 IP09445 IP09545 IP14857 IP15411 RH34630 RM06673 RM06773 RM06873 RM06973 RM07073 RM07173 RM07273 RP001020908 RP001028084 RP001028120 RP001031079 RP001032023 RP001032402 RP001037390 UT01775
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0261396 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 35176
Antibody Information
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of	Source for identity of: Rpn3 Dox-A2 (FlyBase, 1992-)
Source for database merge of
Additional comments	The nomenclature of genes encoding subunits of the 26S proteasome of D. melanogaster have been standardized according to FBrf0215459. These symbols/names largely follow those used already in FlyBase, and largely mirror fly community usage. HOWEVER, note that at least one other nomenclature system exists that is followed by the HUGO Gene Nomenclature Committee (HGNC), for example, with the unfortunate result that several D. melanogaster genes have shared synonyms. (FlyBase, 2009-) FlyBase curator comment: FBrf0044478 showed that lesions in the gene corresponding to the CG10484 annotation reduce the activity of the A2 component of phenol oxidase originally described in FBrf0017315, while the A1 and A3 phenol oxidase components originally described in FBrf0017315 are unaffected in these mutant alleles. Thus FBrf0044478 states that the mutants probably identify a structural locus for the A2 phenol oxidase component and designated this locus "Diphenol oxidase-A2, Dox-A2". However, cloning of the gene in FBrf0054017 revealed that the encoded protein had no homology to non-insect phenol oxidases at that time, but instead shows high amino acid identity (57% over the entire length of the D. melanogaster protein) to the mouse Psmd3 gene (accession number MGI:48687), which encodes a proteasome subunit. FBrf0128494 showed that the protein encoded by the CG10484 annotation is a subunit of the regulatory complex of the 26S proteasome in D. melanogaster. FBrf0058767 suggests that the A2 component of phenol oxidase seen in FBrf0017315 could have been an artificial derivative produced from either the A1 or A3 components by the activity of endogenous proteases during extraction, since protease inhibitors were not used in sample preparation (the A2 phenol oxidase component was not detected in FBrf0058767 where serine proteases inhibitors were present during sample preparation). Alternatively, FBrf0027144 shows that the speck (sp) mutants have a marked decreased in the amount of the A2 component of phenol oxidase, and thus FBrf0044480 notes that the A2 component may be a dimer of two non-identical subunits coded for by "Dox-A2" and sp. Given the uncertainty over whether the gene corresponding to the CG10484 annotation does encode a structural locus for the A2 component of phenol oxidase, but the good evidence that it is a proteasome subunit, the gene has been renamed to "Rpn3, Regulatory particle non-ATPase 3" following the nomenclature used in FBrf0152082, which uses the nomenclature used for S. cerevisiae proteasome regulatory particle subunits described in PubMed:9697412. In addition, the annotation corresponding to the gene has been renamed from CG10484 to CG42641 in release 5.22 of the genome annotation. (Millburn, 2009.9.4) The "Dox-A2" locus may encode a structural locus for the A2 component of diphenol oxidase. The speck (sp) locus may also be a structural gene for the A2 component (FBrf0027144), so the A2 component may be a dimer of two non-identical subunits. (Pentz et al., 1986) Mutations at the Dox-A2 locus alter only the activity of the A2 component of phenol oxidase, thus Dox-A2 probably identifies a structural locus for the A2 component. (Pentz et al., 1986)
Other Comments
	RNAi generated by PCR using primers directed to this gene causes a cell growth and viability phenotype when assayed in Kc167 and S2R+ cells. (Boutros et al., 2004) In a sample of 79 genes with multiple introns, 33 showed significant heterogeneity in G+C content among introns of the same gene and significant positive correspondence between the intron and the third codon position G+C content within genes. These results are consistent with selection adding against preferred codons at the start of genes. (Kliman and Eyre-Walker, 1998) Located between coordinates -64.5 and -62.8. (Stathakis et al., 1995)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_057952 NM_001273628 RefSeq (Proteins) • NP_477300 NP_001260557 DDBJ / EMBL / GenBank • AAB00732 AAF53749 AAL90075 AC009205 AGB93092 AY089337 BF500299 M63010 Entrez Gene - A searchable database of RefSeq genes. • 35176 UniProtKB/Swiss-Prot • P25161
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • Proteasome component (PCI) domain (IPR000717) PCI/PINT associated module (IPR013143) 26S proteasome regulatory subunit, C-terminal (IPR013586) Tetratricopeptide-like helical (IPR011990) Winged helix-turn-helix DNA-binding domain (IPR011991)
Linkouts
	BioGRID - A database of protein and genetic interactions • 61163 DroID - A comprehensive database of gene and protein interactions. • FBgn0261396 DRSC - Results from RNAi screens. • FBgn0261396 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0261396 FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0261396 FlyReactome - A curated knowledgebase of Drosophila melanogaster pathways • 99105 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 35176 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 35176 modMine - Data generated by the modENCODE project. • FBgn0261396
Synonyms & Secondary IDs ( 16 )
Reported As
Symbol Synonym	CG10484 (Perkins et al., 2009, Ma et al., 2002, Giot et al., 2003, Boutros et al., 2004, Ryder, 2004.4.26, Barbash and Lorigan, 2007, Keleman et al., 2009.8.5, Cammarato et al., 2011, Lundgren et al., 2005, Belote and Zhong, 2009) CG42641 (Ni et al., 2010.12.1) Dox (Thor et al., 1999) Dox-A2 (Hoopfer et al., 2008, Guest et al., 2011, Ma et al., 2002, Nie et al., 2009, Barbash and Lorigan, 2007, McCrady and Tolin, 1994, Wright, 1987, Pentz and Wright, 1991, Kliman and Eyre-Walker, 1998, Foley and O'Farrell, 2004, Pentz et al., 1986, Pentz et al., 1986, Jasper et al., 2002, Bolshakov et al., 2002, Roshina and Pasyukova, 2007, Lundgren et al., 2005, Japanese National Institute of Genetics, 2012.5.21) DoxA2 (Zeng et al., 2000, ) DXA2_DROME (Aravind and Ponting, 1998) l(2)37Bf (Pentz et al., 1986, Gilbert et al., 1984, ) l(2)37Bf+   p58 (Ma et al., 2002, Sumegi et al., 2003, Kurucz et al., 2002, Holzl et al., 2000) Rpn3 (Nickell et al., 2009, Millburn, 2009.9.4, Ma et al., 2002, Bader et al., 2010, Lundgren et al., 2005, Belote and Zhong, 2009) RPN3 (Guenin et al., 2010) S3 (Lundgren et al., 2005)
Name Synonym	Diphenol oxidase-A2 (Wright, 1987) diphenol oxidase A2 (Matsukage et al., 1995) Diphenol oxidase A2 (Jasper et al., 2002, Cammarato et al., 2011) Regulatory particle non-ATPase 3 (Millburn, 2009.9.4)
Secondary FlyBase IDs
	FBgn0000486 FBgn0261364
References ( 56 )
Generate a list of	All references relating to this gene ( 56 )
List References by type	Research paper  ( 30 ) Supplementary material  ( 6 ) Review  ( 2 ) Personal communication to FlyBase  ( 10 ) FlyBase analysis  ( 4 ) Stock list  ( 1 ) Protein sequence record  ( 1 ) Curated genome annotation  ( 2 )
Recent research papers ( 2 )
	Booker et al., 2011, BMC Genomics 12: 50 False negative rates in Drosophila cell-based RNAi screens: a case study. [FBrf0212969] Guest et al., 2011, BMC Syst. Biol. 5(1): 65 A protein network-guided screen for cell cycle regulators in Drosophila. [FBrf0213913] Show all research papers ...
Recent reviews (0)
	All reviews listed in FlyBase were published before 2011 Show reviews ...