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Gene Dmel\rux

General Information
Symbol	Dmel\rux	Species	D. melanogaster
Name	roughex	Annotation symbol	CG4336
Feature type	protein_coding_gene	FlyBase ID	FBgn0003302
Gene Model Status	Current	Stock availability	15 publicly available
Genomic Location
Chromosome (arm)	X	Recombination map	1-15.0
Cytogenetic map	5D2-5D2	Sequence location	X:5,929,786..5,931,833 [-]
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 roughex is referred to in FlyBase by the symbol Dmel\rux (CG4336, FBgn0003302). It is a protein_coding_gene from Drosophila melanogaster. Its molecular function is unknown. There is experimental evidence that it is involved in the biological process: mitotic cell cycle; regulation of cell cycle. 42 alleles are reported. The phenotypes of these alleles are annotated with: onion stage spermatid; eye disc; eye; cyst cell; mitotic cell cycle; Nebenkern; photoreceptor cell; photoreceptor cell R8. It has 2 annotated transcripts and 2 annotated polypeptides. Protein features are: Drosophila roughex. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of low expression. Peak expression observed within 00-12 hour embryonic stages, at stages throughout the pupal period, in adult male stages. Summary of FlyAtlas Anatomical Expression Data: Expression at high levels in the following post-embryonic organs or tissues: adult testis. Expression at moderate levels in the following post-embryonic organs or tissues: larval/adult central nervous system, adult ovary. Comments on Affy2 ProbeSet: ProbeSet 1635811_at completely aligns to an exonic region of the only FlyBase-annotated transcript isoform of rux. Gene sequence location is X:5929786..5931833.
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	rux: roughex Eyes smaller than wild type and uniformly rough. Male sterile. RK2.
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
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 5D2-5D2   Limits computationally determined from genome sequence between P{EP}EP1457EP1457&P{EP}CG5928EP1083 and P{EP}EP1311&P{EP}EP1384
Experimentally Determined Cytological Location
Cytogenetic map Notes References
Experimentally Determined Recombination Data
Location	1-15.0
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\rux 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 5.46
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) rux-RA FBtr0070889  NM_078498   1420   335 rux-RB FBtr0307288  NM_001258611   1319   335
Additional Transcript Data & Comments
Reported size (kB)	1.9, 1.3 (northern blot) (Thomas et al., 1994)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kDa) Length (aa) Theoretical pI RefSeq ID GenBank protein rux-PA   FBpp0070854   37.9   335   5.13     NP_511053   AAF46113 rux-PB   FBpp0298289   37.9   335   5.13     NP_001245540   AFH07254
Additional Polypeptide Data & Comments
Reported size (kDa)	335 (aa) (Thomas et al., 1994)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Drosophila roughex (IPR009259)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AE014298 AAF46113   AE014298 AFH07254   AI402783   AW940845   AY119537 AAM50191   BE978160   CK662476   GH947004   GH947444   GH948397   GH952357   GH957585   GH957637   GH957783   GH960894   GH964459   GH964529   GH967576   GH968174   GH970216   GH970650   GH972384   GH976594   GH982180   GH982286   GH982443   U19583 AAA61580
UniProtKB/Swiss-Prot	P50445
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
in situ Stage Tissue/Position (including subcellular localization) Reference embryonic stage 1 -- 3   organism   (Fisher et al., 2012) Comment:maternally deposited embryonic stage 9 -- 10   central brain primordium   (Fisher et al., 2012) ventral nerve cord primordium   (Fisher et al., 2012) embryonic stage 11 -- 12   central brain primordium   (Fisher et al., 2012) ventral nerve cord primordium   (Fisher et al., 2012) embryonic stage 13 -- 16   embryonic brain   (Fisher et al., 2012) embryonic central brain neuron   (Fisher et al., 2012) embryonic/larval nervous system   (Fisher et al., 2012) lateral cord   (Fisher et al., 2012) lateral cord neuron   (Fisher et al., 2012) ventral nerve cord   (Fisher et al., 2012) northern blot Stage Tissue/Position (including subcellular localization) Reference embryonic stage     (Thomas et al., 1994) larval stage   imaginal disc   (Thomas et al., 1994) larval stage & adult stage     (Thomas et al., 1994) adult stage     (Thomas et al., 1994) RT-PCR Stage Tissue/Position (including subcellular localization) Reference embryonic stage 5 -- 9   organism   (Foley and Sprenger, 2001) Comment:2-4 hr AEL embryonic stage 15 -- 16   organism   (Foley and Sprenger, 2001) Comment:12-24 hr AEL third instar larval stage -- adult stage   organism   (Foley and Sprenger, 2001)
Additional Descriptive Data
Marker for
Subcellular Localization
CV Term
Polypeptide Expression
Additional Descriptive Data
Marker for
Subcellular Localization (GO Cellular Component)
CV term Evidence References
nucleus inferred from direct assay (Avedisov 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: Expression at high levels in the following post-embryonic organs or tissues: adult testis. Expression at moderate levels in the following post-embryonic organs or tissues: larval/adult central nervous system, adult ovary. [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    124.35 Larval Midgut    28.9 Larval Hindgut    24.8 Larval Malpighian Tubules    28.1 Larval Fat Body    72.4 Larval Salivary Gland    48.6 Larval Trachea    33.65 Larval Carcass    25.575 Adult Head    71.4 Adult Eye    58.05 Adult Brain    193.6 Adult Thoracic-Abdominal Ganglion    128.3 Adult Crop    46.1 Adult Midgut    28.1 Adult Hindgut    30.9 Adult Malpighian Tubules    31.8 Adult Fat Body    14.9 Adult Salivary Gland    39.4 Adult Heart    22.75 Adult VirginFemale Spermatheca    22.3 Adult InseminatedFemale Spermatheca    25.1 Adult Ovary    180 Adult Testis    641 Adult Male Accessory Gland    55.5 Adult Carcass    25.2 Expression Level Scale  None   Low   Moderate   High  Linear, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    124.35 Larval Midgut    28.9 Larval Hindgut    24.8 Larval Malpighian Tubules    28.1 Larval Fat Body    72.4 Larval Salivary Gland    48.6 Larval Trachea    33.65 Larval Carcass    25.575 Adult Head    71.4 Adult Eye    58.05 Adult Brain    193.6 Adult Thoracic-Abdominal Ganglion    128.3 Adult Crop    46.1 Adult Midgut    28.1 Adult Hindgut    30.9 Adult Malpighian Tubules    31.8 Adult Fat Body    14.9 Adult Salivary Gland    39.4 Adult Heart    22.75 Adult VirginFemale Spermatheca    22.3 Adult InseminatedFemale Spermatheca    25.1 Adult Ovary    180 Adult Testis  (641) Adult Male Accessory Gland    55.5 Adult Carcass    25.2 Expression Level Scale  None   Low   Moderate   High  Linear, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    124.35 Larval Midgut    28.9 Larval Hindgut    24.8 Larval Malpighian Tubules    28.1 Larval Fat Body    72.4 Larval Salivary Gland    48.6 Larval Trachea    33.65 Larval Carcass    25.575 Adult Head    71.4 Adult Eye    58.05 Adult Brain    193.6 Adult Thoracic-Abdominal Ganglion    128.3 Adult Crop    46.1 Adult Midgut    28.1 Adult Hindgut    30.9 Adult Malpighian Tubules    31.8 Adult Fat Body    14.9 Adult Salivary Gland    39.4 Adult Heart    22.75 Adult VirginFemale Spermatheca    22.3 Adult InseminatedFemale Spermatheca    25.1 Adult Ovary    180 Adult Testis    641 Adult Male Accessory Gland    55.5 Adult Carcass    25.2 Expression Level Scale  None   Low   Moderate   High   Very high  Linear, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    124.35 Larval Midgut    28.9 Larval Hindgut    24.8 Larval Malpighian Tubules    28.1 Larval Fat Body    72.4 Larval Salivary Gland    48.6 Larval Trachea    33.65 Larval Carcass    25.575 Adult Head    71.4 Adult Eye    58.05 Adult Brain    193.6 Adult Thoracic-Abdominal Ganglion    128.3 Adult Crop    46.1 Adult Midgut    28.1 Adult Hindgut    30.9 Adult Malpighian Tubules    31.8 Adult Fat Body    14.9 Adult Salivary Gland    39.4 Adult Heart    22.75 Adult VirginFemale Spermatheca    22.3 Adult InseminatedFemale Spermatheca    25.1 Adult Ovary    180 Adult Testis    641 Adult Male Accessory Gland    55.5 Adult Carcass    25.2 Expression Level Scale  Very high  log, scaled to maximum expression level Tissue   Expression Level Larval Central Nervous System    124.35 Larval Midgut    28.9 Larval Hindgut    24.8 Larval Malpighian Tubules    28.1 Larval Fat Body    72.4 Larval Salivary Gland    48.6 Larval Trachea    33.65 Larval Carcass    25.575 Adult Head    71.4 Adult Eye    58.05 Adult Brain    193.6 Adult Thoracic-Abdominal Ganglion    128.3 Adult Crop    46.1 Adult Midgut    28.1 Adult Hindgut    30.9 Adult Malpighian Tubules    31.8 Adult Fat Body    14.9 Adult Salivary Gland    39.4 Adult Heart    22.75 Adult VirginFemale Spermatheca    22.3 Adult InseminatedFemale Spermatheca    25.1 Adult Ovary    180 Adult Testis    641 Adult Male Accessory Gland    55.5 Adult Carcass    25.2 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    124.35 Larval Midgut    28.9 Larval Hindgut    24.8 Larval Malpighian Tubules    28.1 Larval Fat Body    72.4 Larval Salivary Gland    48.6 Larval Trachea    33.65 Larval Carcass    25.575 Adult Head    71.4 Adult Eye    58.05 Adult Brain    193.6 Adult Thoracic-Abdominal Ganglion    128.3 Adult Crop    46.1 Adult Midgut    28.1 Adult Hindgut    30.9 Adult Malpighian Tubules    31.8 Adult Fat Body    14.9 Adult Salivary Gland    39.4 Adult Heart    22.75 Adult VirginFemale Spermatheca    22.3 Adult InseminatedFemale Spermatheca    25.1 Adult Ovary    180 Adult Testis  641 Adult Male Accessory Gland    55.5 Adult Carcass    25.2 Expression Level Scale  None   Low   Moderate   High  log, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    124.35 Larval Midgut    28.9 Larval Hindgut    24.8 Larval Malpighian Tubules    28.1 Larval Fat Body    72.4 Larval Salivary Gland    48.6 Larval Trachea    33.65 Larval Carcass    25.575 Adult Head    71.4 Adult Eye    58.05 Adult Brain    193.6 Adult Thoracic-Abdominal Ganglion    128.3 Adult Crop    46.1 Adult Midgut    28.1 Adult Hindgut    30.9 Adult Malpighian Tubules    31.8 Adult Fat Body    14.9 Adult Salivary Gland    39.4 Adult Heart    22.75 Adult VirginFemale Spermatheca    22.3 Adult InseminatedFemale Spermatheca    25.1 Adult Ovary    180 Adult Testis    641 Adult Male Accessory Gland    55.5 Adult Carcass    25.2 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    124.35 Larval Midgut    28.9 Larval Hindgut    24.8 Larval Malpighian Tubules    28.1 Larval Fat Body    72.4 Larval Salivary Gland    48.6 Larval Trachea    33.65 Larval Carcass    25.575 Adult Head    71.4 Adult Eye    58.05 Adult Brain    193.6 Adult Thoracic-Abdominal Ganglion    128.3 Adult Crop    46.1 Adult Midgut    28.1 Adult Hindgut    30.9 Adult Malpighian Tubules    31.8 Adult Fat Body    14.9 Adult Salivary Gland    39.4 Adult Heart    22.75 Adult VirginFemale Spermatheca    22.3 Adult InseminatedFemale Spermatheca    25.1 Adult Ovary    180 Adult Testis    641 Adult Male Accessory Gland    55.5 Adult Carcass    25.2 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    71.4   NA  Eye    58.05   NA  Brain    193.6   124.35  Central Nervous System    NA   NA  Thoracic-Abdominal Ganglion    128.3   NA  Crop    46.1   28.9  Midgut    no informative data   24.8  Hindgut    30.9   28.1  Malpighian Tubules    31.8   no informative data  Fat Body    14.9   48.6  Salivary Gland    39.4   NA  Heart    22.75   33.65  Trachea    NA   NA  VirginFemale Spermatheca    22.3   NA  InseminatedFemale Spermatheca    25.1   NA  Ovary    180   NA  Testis    641   NA  Male Accessory Gland    55.5   25.575  Carcass    25.2 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    27 central nervous system, larvae L3    8 central nervous system, pupae P8    8 head, virgin 1-day female    2 head, virgin 4-day female    4 head, virgin 20-day female    5 head, mated 1-day female    2 head, mated 4-day female    3 head, mated 20-day female    3 head, mated 1-day male    4 head, mated 4-day male    5 head, mated 20-day male    6 salivary gland, larvae L3 wandering    1 salivary gland, white prepupae    4 digestive system, larvae L3 wandering    4 digestive system, 1-day adult    2 digestive system, 4-day adult    2 digestive system, 20-day adult    2 fat body, larvae L3 wandering    0 fat body, white prepupae    6 fat body, pupae P8    16 carcass, larvae L3 wandering    5 carcass, 1-day adult    1 carcass, 4-day adult    2 carcass, 20-day adult    3 ovary, virgin 4-day female    8 ovary, mated 4-day female    5 testis, mated 4-day male    66 accessory gland, mated 4-day male    7 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  Linear, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering  (27) central nervous system, larvae L3    8 central nervous system, pupae P8    8 head, virgin 1-day female    2 head, virgin 4-day female    4 head, virgin 20-day female    5 head, mated 1-day female    2 head, mated 4-day female    3 head, mated 20-day female    3 head, mated 1-day male    4 head, mated 4-day male    5 head, mated 20-day male    6 salivary gland, larvae L3 wandering    1 salivary gland, white prepupae    4 digestive system, larvae L3 wandering    4 digestive system, 1-day adult    2 digestive system, 4-day adult    2 digestive system, 20-day adult    2 fat body, larvae L3 wandering    0 fat body, white prepupae    6 fat body, pupae P8    16 carcass, larvae L3 wandering    5 carcass, 1-day adult    1 carcass, 4-day adult    2 carcass, 20-day adult    3 ovary, virgin 4-day female    8 ovary, mated 4-day female    5 testis, mated 4-day male  (66) accessory gland, mated 4-day male    7 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    27 central nervous system, larvae L3    8 central nervous system, pupae P8    8 head, virgin 1-day female    2 head, virgin 4-day female    4 head, virgin 20-day female    5 head, mated 1-day female    2 head, mated 4-day female    3 head, mated 20-day female    3 head, mated 1-day male    4 head, mated 4-day male    5 head, mated 20-day male    6 salivary gland, larvae L3 wandering    1 salivary gland, white prepupae    4 digestive system, larvae L3 wandering    4 digestive system, 1-day adult    2 digestive system, 4-day adult    2 digestive system, 20-day adult    2 fat body, larvae L3 wandering    0 fat body, white prepupae    6 fat body, pupae P8    16 carcass, larvae L3 wandering    5 carcass, 1-day adult    1 carcass, 4-day adult    2 carcass, 20-day adult    3 ovary, virgin 4-day female    8 ovary, mated 4-day female    5 testis, mated 4-day male    66 accessory gland, mated 4-day male    7 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    27 central nervous system, larvae L3    8 central nervous system, pupae P8    8 head, virgin 1-day female    2 head, virgin 4-day female    4 head, virgin 20-day female    5 head, mated 1-day female    2 head, mated 4-day female    3 head, mated 20-day female    3 head, mated 1-day male    4 head, mated 4-day male    5 head, mated 20-day male    6 salivary gland, larvae L3 wandering    1 salivary gland, white prepupae    4 digestive system, larvae L3 wandering    4 digestive system, 1-day adult    2 digestive system, 4-day adult    2 digestive system, 20-day adult    2 fat body, larvae L3 wandering    0 fat body, white prepupae    6 fat body, pupae P8    16 carcass, larvae L3 wandering    5 carcass, 1-day adult    1 carcass, 4-day adult    2 carcass, 20-day adult    3 ovary, virgin 4-day female    8 ovary, mated 4-day female    5 testis, mated 4-day male    66 accessory gland, mated 4-day male    7 Expression Level Scale  Extremely high  log, scaled to maximum expression level Tissue   Expression Level imaginal disc, larvae L3 wandering    27 central nervous system, larvae L3    8 central nervous system, pupae P8    8 head, virgin 1-day female    2 head, virgin 4-day female    4 head, virgin 20-day female    5 head, mated 1-day female    2 head, mated 4-day female    3 head, mated 20-day female    3 head, mated 1-day male    4 head, mated 4-day male    5 head, mated 20-day male    6 salivary gland, larvae L3 wandering    1 salivary gland, white prepupae    4 digestive system, larvae L3 wandering    4 digestive system, 1-day adult    2 digestive system, 4-day adult    2 digestive system, 20-day adult    2 fat body, larvae L3 wandering    0 fat body, white prepupae    6 fat body, pupae P8    16 carcass, larvae L3 wandering    5 carcass, 1-day adult    1 carcass, 4-day adult    2 carcass, 20-day adult    3 ovary, virgin 4-day female    8 ovary, mated 4-day female    5 testis, mated 4-day male    66 accessory gland, mated 4-day male    7 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  log, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering  27 central nervous system, larvae L3    8 central nervous system, pupae P8    8 head, virgin 1-day female    2 head, virgin 4-day female    4 head, virgin 20-day female    5 head, mated 1-day female    2 head, mated 4-day female    3 head, mated 20-day female    3 head, mated 1-day male    4 head, mated 4-day male    5 head, mated 20-day male    6 salivary gland, larvae L3 wandering    1 salivary gland, white prepupae    4 digestive system, larvae L3 wandering    4 digestive system, 1-day adult    2 digestive system, 4-day adult    2 digestive system, 20-day adult    2 fat body, larvae L3 wandering    0 fat body, white prepupae    6 fat body, pupae P8    16 carcass, larvae L3 wandering    5 carcass, 1-day adult    1 carcass, 4-day adult    2 carcass, 20-day adult    3 ovary, virgin 4-day female    8 ovary, mated 4-day female    5 testis, mated 4-day male  (66) accessory gland, mated 4-day male    7 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    27 central nervous system, larvae L3    8 central nervous system, pupae P8    8 head, virgin 1-day female    2 head, virgin 4-day female    4 head, virgin 20-day female    5 head, mated 1-day female    2 head, mated 4-day female    3 head, mated 20-day female    3 head, mated 1-day male    4 head, mated 4-day male    5 head, mated 20-day male    6 salivary gland, larvae L3 wandering    1 salivary gland, white prepupae    4 digestive system, larvae L3 wandering    4 digestive system, 1-day adult    2 digestive system, 4-day adult    2 digestive system, 20-day adult    2 fat body, larvae L3 wandering    0 fat body, white prepupae    6 fat body, pupae P8    16 carcass, larvae L3 wandering    5 carcass, 1-day adult    1 carcass, 4-day adult    2 carcass, 20-day adult    3 ovary, virgin 4-day female    8 ovary, mated 4-day female    5 testis, mated 4-day male    66 accessory gland, mated 4-day male    7 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    27 central nervous system, larvae L3    8 central nervous system, pupae P8    8 head, virgin 1-day female    2 head, virgin 4-day female    4 head, virgin 20-day female    5 head, mated 1-day female    2 head, mated 4-day female    3 head, mated 20-day female    3 head, mated 1-day male    4 head, mated 4-day male    5 head, mated 20-day male    6 salivary gland, larvae L3 wandering    1 salivary gland, white prepupae    4 digestive system, larvae L3 wandering    4 digestive system, 1-day adult    2 digestive system, 4-day adult    2 digestive system, 20-day adult    2 fat body, larvae L3 wandering    0 fat body, white prepupae    6 fat body, pupae P8    16 carcass, larvae L3 wandering    5 carcass, 1-day adult    1 carcass, 4-day adult    2 carcass, 20-day adult    3 ovary, virgin 4-day female    8 ovary, mated 4-day female    5 testis, mated 4-day male    66 accessory gland, mated 4-day male    7 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 moderately high expression to a trough of low expression. Peak expression observed within 00-12 hour embryonic stages, at stages throughout the pupal period, in adult male 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    14 embryo 02-04hr    6 embryo 04-06hr    18 embryo 06-08hr    27 embryo 08-10hr    21 embryo 10-12hr    16 embryo 12-14hr    9 embryo 14-16hr    6 embryo 16-18hr    4 embryo 18-20hr    4 embryo 20-22hr    3 embryo 22-24hr    4 larva L1    4 larva L2    2 larva L3 12hr old    1 larva L3 puffstage 1-2    5 larva L3 puffstage 3-6    8 larva L3 puffstage 7-9    10 white prepupae new    10 white prepupae 12hr    15 white prepupae 24hr    22 pupae 2d postWPP    21 pupae 3d postWPP    16 pupae 4d postWPP    12 adult male 01day    19 adult male 05day    29 adult male 30day    26 adult female 01day    7 adult female 05day    12 adult female 30day    13 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    14 embryo 02-04hr    6 embryo 04-06hr    18 embryo 06-08hr  (27) embryo 08-10hr    21 embryo 10-12hr    16 embryo 12-14hr    9 embryo 14-16hr    6 embryo 16-18hr    4 embryo 18-20hr    4 embryo 20-22hr    3 embryo 22-24hr    4 larva L1    4 larva L2    2 larva L3 12hr old    1 larva L3 puffstage 1-2    5 larva L3 puffstage 3-6    8 larva L3 puffstage 7-9    10 white prepupae new    10 white prepupae 12hr    15 white prepupae 24hr    22 pupae 2d postWPP    21 pupae 3d postWPP    16 pupae 4d postWPP    12 adult male 01day    19 adult male 05day  (29) adult male 30day  26 adult female 01day    7 adult female 05day    12 adult female 30day    13 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    14 embryo 02-04hr    6 embryo 04-06hr    18 embryo 06-08hr    27 embryo 08-10hr    21 embryo 10-12hr    16 embryo 12-14hr    9 embryo 14-16hr    6 embryo 16-18hr    4 embryo 18-20hr    4 embryo 20-22hr    3 embryo 22-24hr    4 larva L1    4 larva L2    2 larva L3 12hr old    1 larva L3 puffstage 1-2    5 larva L3 puffstage 3-6    8 larva L3 puffstage 7-9    10 white prepupae new    10 white prepupae 12hr    15 white prepupae 24hr    22 pupae 2d postWPP    21 pupae 3d postWPP    16 pupae 4d postWPP    12 adult male 01day    19 adult male 05day    29 adult male 30day    26 adult female 01day    7 adult female 05day    12 adult female 30day    13 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    14 embryo 02-04hr    6 embryo 04-06hr    18 embryo 06-08hr    27 embryo 08-10hr    21 embryo 10-12hr    16 embryo 12-14hr    9 embryo 14-16hr    6 embryo 16-18hr    4 embryo 18-20hr    4 embryo 20-22hr    3 embryo 22-24hr    4 larva L1    4 larva L2    2 larva L3 12hr old    1 larva L3 puffstage 1-2    5 larva L3 puffstage 3-6    8 larva L3 puffstage 7-9    10 white prepupae new    10 white prepupae 12hr    15 white prepupae 24hr    22 pupae 2d postWPP    21 pupae 3d postWPP    16 pupae 4d postWPP    12 adult male 01day    19 adult male 05day    29 adult male 30day    26 adult female 01day    7 adult female 05day    12 adult female 30day    13 Expression Level Scale  Extremely high  log, scaled to maximum expression level Developmental Stage   Expression Level embryo 00-02hr    14 embryo 02-04hr    6 embryo 04-06hr    18 embryo 06-08hr    27 embryo 08-10hr    21 embryo 10-12hr    16 embryo 12-14hr    9 embryo 14-16hr    6 embryo 16-18hr    4 embryo 18-20hr    4 embryo 20-22hr    3 embryo 22-24hr    4 larva L1    4 larva L2    2 larva L3 12hr old    1 larva L3 puffstage 1-2    5 larva L3 puffstage 3-6    8 larva L3 puffstage 7-9    10 white prepupae new    10 white prepupae 12hr    15 white prepupae 24hr    22 pupae 2d postWPP    21 pupae 3d postWPP    16 pupae 4d postWPP    12 adult male 01day    19 adult male 05day    29 adult male 30day    26 adult female 01day    7 adult female 05day    12 adult female 30day    13 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    14 embryo 02-04hr    6 embryo 04-06hr    18 embryo 06-08hr  27 embryo 08-10hr    21 embryo 10-12hr    16 embryo 12-14hr    9 embryo 14-16hr    6 embryo 16-18hr    4 embryo 18-20hr    4 embryo 20-22hr    3 embryo 22-24hr    4 larva L1    4 larva L2    2 larva L3 12hr old    1 larva L3 puffstage 1-2    5 larva L3 puffstage 3-6    8 larva L3 puffstage 7-9    10 white prepupae new    10 white prepupae 12hr    15 white prepupae 24hr    22 pupae 2d postWPP    21 pupae 3d postWPP    16 pupae 4d postWPP    12 adult male 01day    19 adult male 05day  29 adult male 30day  26 adult female 01day    7 adult female 05day    12 adult female 30day    13 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    14 embryo 02-04hr    6 embryo 04-06hr    18 embryo 06-08hr    27 embryo 08-10hr    21 embryo 10-12hr    16 embryo 12-14hr    9 embryo 14-16hr    6 embryo 16-18hr    4 embryo 18-20hr    4 embryo 20-22hr    3 embryo 22-24hr    4 larva L1    4 larva L2    2 larva L3 12hr old    1 larva L3 puffstage 1-2    5 larva L3 puffstage 3-6    8 larva L3 puffstage 7-9    10 white prepupae new    10 white prepupae 12hr    15 white prepupae 24hr    22 pupae 2d postWPP    21 pupae 3d postWPP    16 pupae 4d postWPP    12 adult male 01day    19 adult male 05day    29 adult male 30day    26 adult female 01day    7 adult female 05day    12 adult female 30day    13 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    14 embryo 02-04hr    6 embryo 04-06hr    18 embryo 06-08hr    27 embryo 08-10hr    21 embryo 10-12hr    16 embryo 12-14hr    9 embryo 14-16hr    6 embryo 16-18hr    4 embryo 18-20hr    4 embryo 20-22hr    3 embryo 22-24hr    4 larva L1    4 larva L2    2 larva L3 12hr old    1 larva L3 puffstage 1-2    5 larva L3 puffstage 3-6    8 larva L3 puffstage 7-9    10 white prepupae new    10 white prepupae 12hr    15 white prepupae 24hr    22 pupae 2d postWPP    21 pupae 3d postWPP    16 pupae 4d postWPP    12 adult male 01day    19 adult male 05day    29 adult male 30day    26 adult female 01day    7 adult female 05day    12 adult female 30day    13 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+    6 Schneider line 2 Sg4    4 embryonic 1182-4H    6 embryonic GM2    4 embryonic Kc167    9 embryonic S1    5 embryonic S3    4 leg disc CME L1    2 wing disc CME-W2    4 wing disc ML-DmD8    5 wing disc ML-DmD9    4 wing disc ML-DmD16-c3    4 wing disc ML-DmD21    8 wing disc ML-DmD32    4 haltere disc ML-DmD17-c3    6 eye-antennal disc ML-DmD11    4 antennal disc ML-DmD20-c5    4 mixed discs ML-DmD4-c1    3 CNS ML-DmBG1-c1    5 CNS ML-DmBG2-c2    4 tumorous blood cells mbn2    2 ovary fGS/OSS    5 ovary OSC    2 ovary OSS    2 Expression Level Scale  Very low   Low   Moderate  Linear, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+    6 Schneider line 2 Sg4    4 embryonic 1182-4H    6 embryonic GM2    4 embryonic Kc167    9 embryonic S1    5 embryonic S3    4 leg disc CME L1    2 wing disc CME-W2    4 wing disc ML-DmD8    5 wing disc ML-DmD9    4 wing disc ML-DmD16-c3    4 wing disc ML-DmD21    8 wing disc ML-DmD32    4 haltere disc ML-DmD17-c3    6 eye-antennal disc ML-DmD11    4 antennal disc ML-DmD20-c5    4 mixed discs ML-DmD4-c1    3 CNS ML-DmBG1-c1    5 CNS ML-DmBG2-c2    4 tumorous blood cells mbn2    2 ovary fGS/OSS    5 ovary OSC    2 ovary OSS    2 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    6 Schneider line 2 Sg4    4 embryonic 1182-4H    6 embryonic GM2    4 embryonic Kc167    9 embryonic S1    5 embryonic S3    4 leg disc CME L1    2 wing disc CME-W2    4 wing disc ML-DmD8    5 wing disc ML-DmD9    4 wing disc ML-DmD16-c3    4 wing disc ML-DmD21    8 wing disc ML-DmD32    4 haltere disc ML-DmD17-c3    6 eye-antennal disc ML-DmD11    4 antennal disc ML-DmD20-c5    4 mixed discs ML-DmD4-c1    3 CNS ML-DmBG1-c1    5 CNS ML-DmBG2-c2    4 tumorous blood cells mbn2    2 ovary fGS/OSS    5 ovary OSC    2 ovary OSS    2 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+    6 Schneider line 2 Sg4    4 embryonic 1182-4H    6 embryonic GM2    4 embryonic Kc167    9 embryonic S1    5 embryonic S3    4 leg disc CME L1    2 wing disc CME-W2    4 wing disc ML-DmD8    5 wing disc ML-DmD9    4 wing disc ML-DmD16-c3    4 wing disc ML-DmD21    8 wing disc ML-DmD32    4 haltere disc ML-DmD17-c3    6 eye-antennal disc ML-DmD11    4 antennal disc ML-DmD20-c5    4 mixed discs ML-DmD4-c1    3 CNS ML-DmBG1-c1    5 CNS ML-DmBG2-c2    4 tumorous blood cells mbn2    2 ovary fGS/OSS    5 ovary OSC    2 ovary OSS    2 Expression Level Scale  Extremely high  log, scaled to maximum expression level Cell Line   Expression Level Schneider line 2 S2R+    6 Schneider line 2 Sg4    4 embryonic 1182-4H    6 embryonic GM2    4 embryonic Kc167    9 embryonic S1    5 embryonic S3    4 leg disc CME L1    2 wing disc CME-W2    4 wing disc ML-DmD8    5 wing disc ML-DmD9    4 wing disc ML-DmD16-c3    4 wing disc ML-DmD21    8 wing disc ML-DmD32    4 haltere disc ML-DmD17-c3    6 eye-antennal disc ML-DmD11    4 antennal disc ML-DmD20-c5    4 mixed discs ML-DmD4-c1    3 CNS ML-DmBG1-c1    5 CNS ML-DmBG2-c2    4 tumorous blood cells mbn2    2 ovary fGS/OSS    5 ovary OSC    2 ovary OSS    2 Expression Level Scale  Very low   Low   Moderate  log, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+    6 Schneider line 2 Sg4    4 embryonic 1182-4H    6 embryonic GM2    4 embryonic Kc167    9 embryonic S1    5 embryonic S3    4 leg disc CME L1    2 wing disc CME-W2    4 wing disc ML-DmD8    5 wing disc ML-DmD9    4 wing disc ML-DmD16-c3    4 wing disc ML-DmD21    8 wing disc ML-DmD32    4 haltere disc ML-DmD17-c3    6 eye-antennal disc ML-DmD11    4 antennal disc ML-DmD20-c5    4 mixed discs ML-DmD4-c1    3 CNS ML-DmBG1-c1    5 CNS ML-DmBG2-c2    4 tumorous blood cells mbn2    2 ovary fGS/OSS    5 ovary OSC    2 ovary OSS    2 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    6 Schneider line 2 Sg4    4 embryonic 1182-4H    6 embryonic GM2    4 embryonic Kc167    9 embryonic S1    5 embryonic S3    4 leg disc CME L1    2 wing disc CME-W2    4 wing disc ML-DmD8    5 wing disc ML-DmD9    4 wing disc ML-DmD16-c3    4 wing disc ML-DmD21    8 wing disc ML-DmD32    4 haltere disc ML-DmD17-c3    6 eye-antennal disc ML-DmD11    4 antennal disc ML-DmD20-c5    4 mixed discs ML-DmD4-c1    3 CNS ML-DmBG1-c1    5 CNS ML-DmBG2-c2    4 tumorous blood cells mbn2    2 ovary fGS/OSS    5 ovary OSC    2 ovary OSS    2 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+    6 Schneider line 2 Sg4    4 embryonic 1182-4H    6 embryonic GM2    4 embryonic Kc167    9 embryonic S1    5 embryonic S3    4 leg disc CME L1    2 wing disc CME-W2    4 wing disc ML-DmD8    5 wing disc ML-DmD9    4 wing disc ML-DmD16-c3    4 wing disc ML-DmD21    8 wing disc ML-DmD32    4 haltere disc ML-DmD17-c3    6 eye-antennal disc ML-DmD11    4 antennal disc ML-DmD20-c5    4 mixed discs ML-DmD4-c1    3 CNS ML-DmBG1-c1    5 CNS ML-DmBG2-c2    4 tumorous blood cells mbn2    2 ovary fGS/OSS    5 ovary OSC    2 ovary OSS    2 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    3 cold shock, 4-day adult    3 heat shock, 4-day adult    6 Cadmium 50 mM 6 hrs, larvae L3    3 Cadmium 50 mM 12 hrs, larvae L3    5 Cadmium 50 mM 48 hrs, 4-day adult    5 Cadmium 100 mM 48 hrs, 4-day adult    7 Copper 0.5 mM 12 hrs, larvae L3    4 Copper 15 mM 48 hrs, 4-day adult    3 Zinc 5 mM 12 hrs, larvae L3    1 Zinc 4.5 mM 48 hrs, 4-day adult    7 Ethanol 2.5% 3 hrs, larvae L3    11 Ethanol 5% 3 hrs, larvae L3    3 Ethanol 10% 3 hrs, larvae L3    3 Caffeine 1.5 mg/ml 4 hrs, larvae L3    3 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    4 Caffeine 25 mg/ml 48 hrs, 4-day adult    2 Paraquat 5 mM 48 hrs, 4-day adult    9 Paraquat 10 mM 48 hrs, 4-day adult    8 Rotenone 2 μg 12 hrs, larvae L3    5 Rotenone 8 μg 12 hrs, larvae L3    3 Expression Level Scale  Very low   Low   Moderate  Linear, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    3 cold shock, 4-day adult    3 heat shock, 4-day adult    6 Cadmium 50 mM 6 hrs, larvae L3    3 Cadmium 50 mM 12 hrs, larvae L3    5 Cadmium 50 mM 48 hrs, 4-day adult    5 Cadmium 100 mM 48 hrs, 4-day adult    7 Copper 0.5 mM 12 hrs, larvae L3    4 Copper 15 mM 48 hrs, 4-day adult    3 Zinc 5 mM 12 hrs, larvae L3    1 Zinc 4.5 mM 48 hrs, 4-day adult    7 Ethanol 2.5% 3 hrs, larvae L3    11 Ethanol 5% 3 hrs, larvae L3    3 Ethanol 10% 3 hrs, larvae L3    3 Caffeine 1.5 mg/ml 4 hrs, larvae L3    3 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    4 Caffeine 25 mg/ml 48 hrs, 4-day adult    2 Paraquat 5 mM 48 hrs, 4-day adult    9 Paraquat 10 mM 48 hrs, 4-day adult    8 Rotenone 2 μg 12 hrs, larvae L3    5 Rotenone 8 μg 12 hrs, larvae L3    3 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    3 cold shock, 4-day adult    3 heat shock, 4-day adult    6 Cadmium 50 mM 6 hrs, larvae L3    3 Cadmium 50 mM 12 hrs, larvae L3    5 Cadmium 50 mM 48 hrs, 4-day adult    5 Cadmium 100 mM 48 hrs, 4-day adult    7 Copper 0.5 mM 12 hrs, larvae L3    4 Copper 15 mM 48 hrs, 4-day adult    3 Zinc 5 mM 12 hrs, larvae L3    1 Zinc 4.5 mM 48 hrs, 4-day adult    7 Ethanol 2.5% 3 hrs, larvae L3    11 Ethanol 5% 3 hrs, larvae L3    3 Ethanol 10% 3 hrs, larvae L3    3 Caffeine 1.5 mg/ml 4 hrs, larvae L3    3 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    4 Caffeine 25 mg/ml 48 hrs, 4-day adult    2 Paraquat 5 mM 48 hrs, 4-day adult    9 Paraquat 10 mM 48 hrs, 4-day adult    8 Rotenone 2 μg 12 hrs, larvae L3    5 Rotenone 8 μg 12 hrs, larvae L3    3 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    3 cold shock, 4-day adult    3 heat shock, 4-day adult    6 Cadmium 50 mM 6 hrs, larvae L3    3 Cadmium 50 mM 12 hrs, larvae L3    5 Cadmium 50 mM 48 hrs, 4-day adult    5 Cadmium 100 mM 48 hrs, 4-day adult    7 Copper 0.5 mM 12 hrs, larvae L3    4 Copper 15 mM 48 hrs, 4-day adult    3 Zinc 5 mM 12 hrs, larvae L3    1 Zinc 4.5 mM 48 hrs, 4-day adult    7 Ethanol 2.5% 3 hrs, larvae L3    11 Ethanol 5% 3 hrs, larvae L3    3 Ethanol 10% 3 hrs, larvae L3    3 Caffeine 1.5 mg/ml 4 hrs, larvae L3    3 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    4 Caffeine 25 mg/ml 48 hrs, 4-day adult    2 Paraquat 5 mM 48 hrs, 4-day adult    9 Paraquat 10 mM 48 hrs, 4-day adult    8 Rotenone 2 μg 12 hrs, larvae L3    5 Rotenone 8 μg 12 hrs, larvae L3    3 Expression Level Scale  Extremely high  log, scaled to maximum expression level Treatment   Expression Level extended cold, 4-day adult    3 cold shock, 4-day adult    3 heat shock, 4-day adult    6 Cadmium 50 mM 6 hrs, larvae L3    3 Cadmium 50 mM 12 hrs, larvae L3    5 Cadmium 50 mM 48 hrs, 4-day adult    5 Cadmium 100 mM 48 hrs, 4-day adult    7 Copper 0.5 mM 12 hrs, larvae L3    4 Copper 15 mM 48 hrs, 4-day adult    3 Zinc 5 mM 12 hrs, larvae L3    1 Zinc 4.5 mM 48 hrs, 4-day adult    7 Ethanol 2.5% 3 hrs, larvae L3    11 Ethanol 5% 3 hrs, larvae L3    3 Ethanol 10% 3 hrs, larvae L3    3 Caffeine 1.5 mg/ml 4 hrs, larvae L3    3 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    4 Caffeine 25 mg/ml 48 hrs, 4-day adult    2 Paraquat 5 mM 48 hrs, 4-day adult    9 Paraquat 10 mM 48 hrs, 4-day adult    8 Rotenone 2 μg 12 hrs, larvae L3    5 Rotenone 8 μg 12 hrs, larvae L3    3 Expression Level Scale  Very low   Low   Moderate  log, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    3 cold shock, 4-day adult    3 heat shock, 4-day adult    6 Cadmium 50 mM 6 hrs, larvae L3    3 Cadmium 50 mM 12 hrs, larvae L3    5 Cadmium 50 mM 48 hrs, 4-day adult    5 Cadmium 100 mM 48 hrs, 4-day adult    7 Copper 0.5 mM 12 hrs, larvae L3    4 Copper 15 mM 48 hrs, 4-day adult    3 Zinc 5 mM 12 hrs, larvae L3    1 Zinc 4.5 mM 48 hrs, 4-day adult    7 Ethanol 2.5% 3 hrs, larvae L3    11 Ethanol 5% 3 hrs, larvae L3    3 Ethanol 10% 3 hrs, larvae L3    3 Caffeine 1.5 mg/ml 4 hrs, larvae L3    3 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    4 Caffeine 25 mg/ml 48 hrs, 4-day adult    2 Paraquat 5 mM 48 hrs, 4-day adult    9 Paraquat 10 mM 48 hrs, 4-day adult    8 Rotenone 2 μg 12 hrs, larvae L3    5 Rotenone 8 μg 12 hrs, larvae L3    3 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    3 cold shock, 4-day adult    3 heat shock, 4-day adult    6 Cadmium 50 mM 6 hrs, larvae L3    3 Cadmium 50 mM 12 hrs, larvae L3    5 Cadmium 50 mM 48 hrs, 4-day adult    5 Cadmium 100 mM 48 hrs, 4-day adult    7 Copper 0.5 mM 12 hrs, larvae L3    4 Copper 15 mM 48 hrs, 4-day adult    3 Zinc 5 mM 12 hrs, larvae L3    1 Zinc 4.5 mM 48 hrs, 4-day adult    7 Ethanol 2.5% 3 hrs, larvae L3    11 Ethanol 5% 3 hrs, larvae L3    3 Ethanol 10% 3 hrs, larvae L3    3 Caffeine 1.5 mg/ml 4 hrs, larvae L3    3 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    4 Caffeine 25 mg/ml 48 hrs, 4-day adult    2 Paraquat 5 mM 48 hrs, 4-day adult    9 Paraquat 10 mM 48 hrs, 4-day adult    8 Rotenone 2 μg 12 hrs, larvae L3    5 Rotenone 8 μg 12 hrs, larvae L3    3 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    3 cold shock, 4-day adult    3 heat shock, 4-day adult    6 Cadmium 50 mM 6 hrs, larvae L3    3 Cadmium 50 mM 12 hrs, larvae L3    5 Cadmium 50 mM 48 hrs, 4-day adult    5 Cadmium 100 mM 48 hrs, 4-day adult    7 Copper 0.5 mM 12 hrs, larvae L3    4 Copper 15 mM 48 hrs, 4-day adult    3 Zinc 5 mM 12 hrs, larvae L3    1 Zinc 4.5 mM 48 hrs, 4-day adult    7 Ethanol 2.5% 3 hrs, larvae L3    11 Ethanol 5% 3 hrs, larvae L3    3 Ethanol 10% 3 hrs, larvae L3    3 Caffeine 1.5 mg/ml 4 hrs, larvae L3    3 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    4 Caffeine 25 mg/ml 48 hrs, 4-day adult    2 Paraquat 5 mM 48 hrs, 4-day adult    9 Paraquat 10 mM 48 hrs, 4-day adult    8 Rotenone 2 μg 12 hrs, larvae L3    5 Rotenone 8 μg 12 hrs, larvae L3    3 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_21
External Data & Images
Linkouts	BDGP expression data • GH22074 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0003302 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG4336-RA FlyExpress - Embryonic expression images (BDGP data) • Show all FlyExpress processed images for rux Stages(s) 1-3 Stages(s) 9-10 Stages(s) 11-12 Stages(s) 13-16
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele viable rux3 ruxe00579 ruxunspecified viable, with Scer\GAL4pnr-MD237 ruxGD1275 Sterility Allele fertile ruxe00579 male sterile rux1 rux4 rux8 rux9 Other Phenotypes Allele cytokinesis defective | recessive rux9 locomotor behavior defective ruxunspecified mitotic cell cycle defective ruxGMR.PT ruxhs.PT visible rux1 ruxGMR.PT visible | recessive rux2 rux3 rux4 rux8 rux9 wild-type rux+t6.0 Phenotype manifest in Allele cyst cell rux+t6.0 rux9 eye rux1 rux2 rux3 rux4 rux8 rux9 ruxGMR.PT eye disc rux8 mitotic cell cycle rux3 ruxGMR.PT ruxhs.PT Nebenkern rux9 onion stage spermatid rux+t6.0 rux9 photoreceptor cell rux3 photoreceptor cell R8 rux8 S phase | ectopic rux8
Classical Alleles ( 11 )
For All Classical Alleles Show
Allele of rux Class Mutagen Stocks Known lesion rux1 3 -- rux2 2 -- ruxe00579 piggyBac transposase 2 -- rux8 amorphic allele - genetic evidence, loss of function allele gamma ray 1 Yes rux4 loss of function allele gamma ray 1 Yes rux3 hypomorphic allele - genetic evidence ethyl methanesulfonate 0 Yes rux60d spontaneous 0 -- rux6 loss of function allele gamma ray 0 -- rux7 loss of function allele gamma ray 0 -- rux9 loss of function allele P-element activity 0 -- ruxunspecified 0 --
Alleles Carried on Transgenic Constructs ( 31 )
For All Alleles Carried on Transgenic Constructs Show
Allele of rux Class Mutagen Stocks Known lesion ruxGD1275 in vitro construct - RNAi in vitro construct - regulatory fusion 2 Yes ruxGL00530 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes ruxHMS00467 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes ruxKK109716 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes ruxScer\UAS.cTa in vitro construct - regulatory fusion 1 Yes rux+t6.0 in vitro construct - genomic fragment 0 Yes rux-2P.MtnA in vitro construct - amino acid replacement 0 Yes rux-4P.MtnA in vitro construct - amino acid replacement 0 Yes rux1-194.MtnA in vitro construct - regulatory fusion 0 Yes rux1-217.MtnA in vitro construct - regulatory fusion 0 Yes rux1-247.MtnA in vitro construct - regulatory fusion 0 Yes rux1-251.MtnA in vitro construct - regulatory fusion 0 Yes rux1-310.MtnA in vitro construct - regulatory fusion 0 Yes rux13-335.MtnA in vitro construct - regulatory fusion 0 Yes rux188-335.MtnA in vitro construct - regulatory fusion 0 Yes rux211-335.MtnA in vitro construct - regulatory fusion 0 Yes rux247-335.MtnA in vitro construct - regulatory fusion 0 Yes rux34-335.MtnA in vitro construct - regulatory fusion 0 Yes ruxGMR.PT in vitro construct - regulatory fusion 0 Yes ruxhs.PT in vitro construct - regulatory fusion 0 Yes ruxL31A.GMR in vitro construct - amino acid replacement 0 Yes ruxL31A.MtnA in vitro construct - amino acid replacement 0 Yes ruxMtnA.PA in vitro construct - regulatory fusion 0 Yes ruxNIG.4336R in vitro construct - RNAi in vitro construct - regulatory fusion 0 Yes ruxR196A.MtnA in vitro construct - amino acid replacement 0 Yes ruxR248A.MtnA in vitro construct - amino acid replacement 0 Yes ruxRAA.MtnA in vitro construct - regulatory fusion 0 Yes ruxT:Ecol\lacZ in vitro construct - genomic fragment in vitro construct - coding region fusion 0 Yes ruxT:Ivir\HA1 in vitro construct - coding region fusion 0 Yes ruxΔNLS.GMR in vitro construct - deletion 0 Yes ruxΔNLS.T:Ivir\HA1 in vitro construct - deletion 0 Yes
Aneuploid Aberrations
Disrupted in	Df(1)BSC654 (Christensen et al., 2008.12.28) Df(1)BSC724 (Christensen et al., 2008.12.28) Df(1)ct268-37   Df(1)N73 (Craymer and Roy, 1980) Df(1)rux-5 (Thomas et al., 1994) Df(1)sqh (Thomas, 1995.6.15) Dp(1;1)rux7 (Thomas, 1995.6.15)
Duplicated in	Dp(1;3)DC149 (Popodi et al., 2010-, Venken et al., 2010) Dp(1;Y)dx+1 (Florence, 1999.7.22) Dp(1;Y)dx+2 (Florence, 1999.7.22) Dp(1;Y)dx+3 (Florence, 1999.7.22) Dp(1;Y)dx+4 (Florence, 1999.7.22) Dp(1;Y)dx+5 (Florence, 1999.7.22) Dp(1;Y)dx+6 (Florence, 1999.7.22) Dp(1;Y)dx+7 (Florence, 1999.7.22)
Not disrupted in	Df(1)C149 (Craymer and Roy, 1980) Df(1)JC70 (Schalet, 1986) Df(1)Sp(rb) (Schalet, 1986)
Not duplicated in	Dp(1;2)w-ec (Schalet, 1986) Dp(1;3)sn13a1 (Schalet, 1986)
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data reporter construct P{rux-lacZ} No UAS construct P{GD1275} NA P{KK109716} NA P{NIG.4336R} NA P{TRiP.GL00530} NA P{TRiP.HMS00467} NA P{UAS-rux.T} NA heat-shock construct P{Hs-rux} NA characterization construct P{GMR-rux.A} NA P{GMR-rux.L31A} NA P{GMR-rux} NA P{GMR-ruxΔNLS} NA P{rux} NA
Insertions
	Type of insertions Name Expression data miscellaneous insertions PBac{RB}ruxe00579 NA insertion of enhancer trap P{lacW}rux9 No
Gene Ontology: Function, Process & Cellular Component ( 8 unique terms )
Terms Based on Experimental Evidence ( 3 terms )
Molecular Function ( 0 terms)
Biological Process
CV term Evidence References
mitotic cell cycle inferred from mutant phenotype (Foley and Sprenger, 2001) regulation of cell cycle inferred from mutant phenotype (Avedisov et al., 2000)
Cellular Component
CV term Evidence References
nucleus inferred from direct assay (Avedisov et al., 2000)
Terms Based on Predictions or Assertions ( 5 terms )
Molecular Function ( 0 terms)
Biological Process
CV term Evidence References
compound eye development non-traceable author statement (Swiss-Prot Project Members, 1996.6.1) eye-antennal disc morphogenesis non-traceable author statement (Baker, 2001) regulation of exit from mitosis traceable author statement (Lee and Orr-Weaver, 2003) regulation of meiosis non-traceable author statement (Swiss-Prot Project Members, 1996.6.1) traceable author statement (Fuller, 1998) regulation of mitosis non-traceable author statement (Swiss-Prot Project Members, 1996.6.1)
Cellular Component ( 0 terms)
Sequence Ontology: Class of Gene
	nuclear_gene   protein_coding_gene
Interactions & Pathways
Summary of Physical Interactions
protein-protein
Interacting group Assay References
rux - ATPsyn-γ anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) rux - Aats-lys anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) rux - Arf79F anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) rux - CG10126 experimental knowledge based, anti tag coimmunoprecipitation, peptide massfingerprinting (Guruharsha et al., 2011, Mintseris et al., 2009.11.23) rux - CG1129 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) rux - CG1371 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) rux - CG1416 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) rux - CG1516 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) rux - CG33303 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) rux - CG5854 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) rux - CG6984 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) rux - CG7033 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) rux - Cctγ anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) rux - Cks30A experimental knowledge based, anti tag coimmunoprecipitation, peptide massfingerprinting (Guruharsha et al., 2011, Mintseris et al., 2009.11.23) rux - Cks85A experimental knowledge based, anti tag coimmunoprecipitation, peptide massfingerprinting (Guruharsha et al., 2011, Mintseris et al., 2009.11.23) rux - Cp1 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) rux - CycA experimental knowledge based, anti tag coimmunoprecipitation, peptide massfingerprinting (Guruharsha et al., 2011, Mintseris et al., 2009.11.23) rux - CycB experimental knowledge based, anti tag coimmunoprecipitation, peptide massfingerprinting (Guruharsha et al., 2011, Mintseris et al., 2009.11.23) rux - CycB3 anti tag coimmunoprecipitation, peptide massfingerprinting, experimental knowledge based (Mintseris et al., 2009.11.23, Guruharsha et al., 2011) rux - Gp210 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) rux - LKR anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) rux - Mec2 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) rux - Rab2 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) rux - Rab5 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) rux - Ras85D anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) rux - RpLP0 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) rux - Sucb anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) rux - Tapδ anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) rux - Tcp-1ζ anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) rux - Tcp-1η anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) rux - cdc2 anti tag coimmunoprecipitation, peptide massfingerprinting, experimental knowledge based (Mintseris et al., 2009.11.23, Guruharsha et al., 2011) rux - dpa anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) rux - r 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 rux allele Gene References rux3 ast (Thomas et al., 1994) CycA (Thomas et al., 1994, Dong et al., 1997, Foley and Sprenger, 2001) ebi (Dong et al., 1999) Ras85D (Thomas et al., 1994) Rca1 (Dong et al., 1997) S (Thomas et al., 1994) S(rux)2C (Dong et al., 1997) stg (Thomas et al., 1994, Dong et al., 1997) swm (Dong et al., 1997) rux7 CycE (Secombe et al., 1998) rux8 CycA (Dong et al., 1997) CycE (Secombe et al., 1998) Rca1 (Dong et al., 1997) stg (Thomas et al., 1994) twe (Thomas et al., 1994) rux9 CycA (Gonczy et al., 1994) CycB (Gonczy et al., 1994) twe (Gonczy et al., 1994) rux+t6.0 CycE (Secombe et al., 1998) ruxhs.PT CycA (Foley et al., 1999, Foley and Sprenger, 2001) enc (Ohlmeyer and Schupbach, 2003) ruxunspecified CycA (Gonczy et al., 1994) CycE (Brumby et al., 2004) twe (Gonczy et al., 1994) unspecified ebi (Tsuda et al., 1997) os (Mukherjee et al., 2006)
External Data
Linkouts	BioGRID - A database of protein and genetic interactions • 58031 DPiM - DPiM, Drosophila Protein interaction Map • FBgn0003302 DroID - A comprehensive database of gene and protein interactions. • FBgn0003302 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 31535
Orthologs
OrthoDB Orthologs (12) - 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 EOG6575T9 Dipteran inclusive ortholog search No orthologs identified Insect inclusive ortholog search No orthologs identified Arthropod inclusive ortholog search No orthologs identified Metazoa inclusive ortholog search No orthologs identified
Orthologs in Drosophila Species (EOG6575T9)
Organism Common Name Gene AAA Syntenic Ortholog Multiple Dmel Genes in this Orthologous Group Drosophila melanogaster fruit fly  Dmel\rux     Drosophila simulans   Dsim\rux Y   Drosophila sechellia   Dsec\rux Y   Drosophila erecta   Dere\rux Y   Drosophila yakuba   Dyak\rux Y   Drosophila ananassae   Dana\GF22065 Y   Drosophila pseudoobscura pseudoobscura   Dpse\GA18118 Y   Drosophila persimilis   Dper\GL14959 Y   Drosophila willistoni   Dwil\GK19724 Y   Drosophila virilis   Dvir\GJ16032 Y   Drosophila mojavensis   Dmoj\GI16487 Y   Drosophila grimshawi   Dgri\GH17896 Y
Orthologs in non-Drosophila Dipterans (None identified)
No non-Drosophilid orthologies identified
Orthologs in non-Dipteran Insects (None identified)
No non-Dipteran orthologies identified
Orthologs in non-Insect Arthropods (None identified)
No non-Insect Arthropod orthologies identified
Orthologs in non-Arthropod Metazoa (None identified)
No non-Arthropod Metazoa orthologies identified
Human Orthologs (0)
Gene OMIM HGNC
AAA Orthologs (11) based on analysis using Dmel annotation version 4.3
Organism Gene Drosophila simulans Dsim\rux Drosophila sechellia Dsec\rux Drosophila erecta Dere\rux Drosophila yakuba Dyak\rux Drosophila ananassae Dana\GF22065 Drosophila pseudoobscura pseudoobscura Dpse\GA18118 Drosophila persimilis Dper\GL14959 Drosophila willistoni Dwil\GK19724 Drosophila virilis Dvir\GJ16032 Drosophila mojavensis Dmoj\GI16487 Drosophila grimshawi Dgri\GH17896
Stocks & Reagents
Stocks Listed in FlyBase ( 15 )
Bloomington	95 rux2 1506 rux1 9166 w*; P{UAS-rux.T}C1/SM6a 17867 w1118 PBac{RB}ruxe00579 9165 y1 cv1 rux4/FM7c
Harvard	- PBac{RB}ruxe00579
Kyoto	105731 rux2 106353 rux1 105728 rux1/FM6
VDRC	v104803 P{KK109716}VIE-260B v6991 w1118; P{GD1275}v6991 v6992 w1118; P{GD1275}v6992/TM3
	More stocks available...
Genomic Clones ( 2 )
	BACR07F10 BACR07F15 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 23 )
	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	GH22074
Other clones	DPiM_GH22074
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	LP22729
Other clones	bs74f11 RP004050814 RP004054211 RP004055210 RP004145346 RP004195966 RP004209550 RP004214456 RP004221307 RP004223408 RP004224418 RP004315992 RP004398734 RP004423946 RP004430020 RP004459204 RP004466050 RP004502868 RP004503596 RP004541120
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0003302 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 31535
Antibody Information
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of	Source for identity of: rux CG4336 (Zhao, 1999.11)
Source for database merge of
Additional comments
Other Comments
	Shows particularly robust cycling of transcription in adult heads, as assessed by expression analysis using high density oligonucleotide arrays with probe generated during three 12-point time course experiments over the course of 6 days. (Claridge-Chang et al., 2001) rux is involved in mitotic exit. (Foley and Sprenger, 2001) rux is a distinct and specialised cell cycle inhibitor for CycA dependant kinase activity. (Avedisov et al., 2000) rux is a cyclin dependent kinase inhibitor (CKI) specific for mitotic cyclin-cdk complexes. (Foley et al., 1999) The mechanism by which dpp mediates G1 arrest in the morphogenetic furrow does not require rux. (Horsfield et al., 1998) In vitro studies demonstrate rux binds CycE but does not inhibit CycE-Cdk activity directly. Overexpression studies suggest the ectopic rux converts the mitotic cycle into an endoreplication cycle by down-regulating CycA-associated kinase activity. (Thomas et al., 1997) rux acts genetically to negatively regulate CycA and stg. (Thomas et al., 1995) rux is a dose-dependent regulator of meiosis II during spermatogenesis. rux appears to act through CycA during premeiotic G2 to regulate meiosis II. (Gonczy et al., 1994) rux functions as a negative regulator of G1 progression in the developing eye. (Thomas et al., 1994) The rux mutant phenotype is due to a developmental defect: pattern formation defect. (Renfranz and Benzer, 1989)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_078498 NM_001258611 RefSeq (Proteins) • NP_511053 NP_001245540 DDBJ / EMBL / GenBank • AAA61580 AAF46113 AAM50191 AFH07254 AI402783 AW940845 AY119537 U19583 Entrez Gene - A searchable database of RefSeq genes. • 31535 UniProtKB/Swiss-Prot • P50445
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • Drosophila roughex (IPR009259) BDGP expression data - Patterns of gene expression in Drosophila embryogenesis • GH22074
Linkouts
	BioGRID - A database of protein and genetic interactions • 58031 DPiM - DPiM, Drosophila Protein interaction Map • FBgn0003302 DroID - A comprehensive database of gene and protein interactions. • FBgn0003302 DRSC - Results from RNAi screens. • FBgn0003302 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0003302 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG4336-RA FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0003302 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 31535 Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution • /newgene/roughex1.htm InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 31535 modMine - Data generated by the modENCODE project. • FBgn0003302
Synonyms & Secondary IDs ( 6 )
Reported As
Symbol Synonym	CG4336 (Ni et al., 2011.7.19, Keleman et al., 2009.8.5, Ni et al., 2010.12.1) rux (Mikhaylova et al., 2008, Llopart and Comeron, 2008, Mukherjee et al., 2006, Franklin-Dumont et al., 2007, Christensen et al., 2008.12.28, Christensen et al., 2008.12.28, Casso et al., 2008, Escudero and Freeman, 2007, Perea et al., 2009, Tanaka-Matakatsu et al., 2007, Popodi et al., 2010-, Japanese National Institute of Genetics, 2012.5.21, Venken et al., 2010) Rux (Gao and Thomas, 2004)
Name Synonym	roughex (Llopart and Comeron, 2008, Thomas, 2005, Mukherjee et al., 2006, Perea et al., 2009, Tanaka-Matakatsu et al., 2007) Rough-ex (Franklin-Dumont et al., 2007) Roughex (Franklin-Dumont et al., 2007, Escudero and Freeman, 2007)
Secondary FlyBase IDs
References ( 105 )
Generate a list of	All references relating to this gene ( 105 )
List References by type	Research paper  ( 47 ) Supplementary material  ( 5 ) Review  ( 17 ) Personal communication to FlyBase  ( 12 ) Abstract  ( 17 ) Stock list  ( 1 ) Curated genome annotation  ( 1 ) Protein sequence record  ( 1 ) Website  ( 1 ) Book  ( 2 )
Recent research papers ( 1 )
	Ruggiero et al., 2012, PLoS Genet. 8(11): e1003049 Mitosis in Neurons: Roughex and APC/C Maintain Cell Cycle Exit to Prevent Cytokinetic and Axonal Defects in Drosophila Photoreceptor Neurons. [FBrf0220185] Show all research papers ...
Recent reviews (0)
	All reviews listed in FlyBase were published before 2011 Show reviews ...