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Gene Dmel\Optix

General Information
Symbol	Dmel\Optix	Species	D. melanogaster
Name	Optix	Annotation symbol	CG18455
Feature type	protein_coding_gene	FlyBase ID	FBgn0025360
Gene Model Status	Current	Stock availability	7 publicly available
Also Known As	opt, D-Six3, Six3
Genomic Location
Chromosome (arm)	2R	Recombination map
Cytogenetic map	44A3-44A3	Sequence location	2R:3,918,788..3,930,034 [+]
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 Optix is referred to in FlyBase by the symbol Dmel\Optix (CG18455, FBgn0025360). It is a protein_coding_gene from Drosophila melanogaster. There is experimental evidence that it has the molecular function: sequence-specific DNA binding. There is experimental evidence that it is involved in the biological process: compound eye photoreceptor cell differentiation; compound eye development; compound eye morphogenesis. 9 alleles are reported. The phenotypes of these alleles are annotated with: eye; antenna; ommatidium. It has 3 annotated transcripts and 3 annotated polypeptides. Protein features are: Homeodomain; Homeodomain-like. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderate expression to a trough of very low expression. Peak expression observed at stages throughout embryogenesis, during late larval stages, at stages throughout the pupal period, in adult male stages. Summary of FlyAtlas Anatomical Expression Data: Expression at moderate levels in the following post-embryonic organs or tissues: adult head, adult eye, larval central nervous system, adult testis. Comments on Affy2 ProbeSet: ProbeSet 1640296_a_at completely aligns to an exonic region common to each of the 2 FlyBase-annotated transcript isoforms of Optix. Gene sequence location is 2R:3918788..3930034.
User Contributed Data
	Beta version, feedback welcome
External Summaries
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 44A3-44A3   Limits computationally determined from genome sequence between P{lacW}CSN4k08018&P{lacW}l(2)k08504k08504 and P{lacW}Vps28k16503
Experimentally Determined Cytological Location
Cytogenetic map Notes References 44A-44A   (determined by in situ hybridisation)   (Seimiya and Gehring, 2000) 43F-44A   (determined by in situ hybridisation)   (Toy et al., 1998)
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\Optix for information on other features To submit a correction to a gene model please use the Contact FlyBase form
Comments on Gene Model
	gene_with_stop_codon_read_through ; SO:0000697 Stop-codon suppression (UGA) postulated; FBrf0216884 Gene model reviewed during 5.44 Gene model reviewed during 5.49
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) Optix-RA FBtr0088865  NM_079956   2358   487 Optix-RB FBtr0088866  NM_165584   1470   259 Optix-RC FBtr0329885  NM_001273864   2668   492
Additional Transcript Data & Comments
Reported size (kB)	1.500 (longest cDNA) (Seo et al., 1999)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kDa) Length (aa) Theoretical pI RefSeq ID GenBank protein Optix-PA   FBpp0087941   52.4   487   9.13     NP_524695   AAF59147 Optix-PB   FBpp0087942   26.5   259   6.88     NP_724640   AAM68882 Optix-PC   FBpp0302920   53.0   492   9.26     NP_001260793   AGB93326
Additional Polypeptide Data & Comments
Reported size (kDa)	292 (aa) (Seo et al., 1999)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Homeodomain (IPR001356) Homeodomain-like (IPR009057)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AA246601   AE013599 AAF59147   AE013599 AAM68882   AF050132 AAC33852   AF099184 AAD39863   AE013599 AGB93326   AI064431   AI403058   AW941591   AX201695   AY061077 AAL28625   BF486983   BG632186   BI617461   BT003802   CZ467390   CZ487294   CZ489330   CZ489331   EC239767   EL872950   EL872951   GH941191   GH941377   GH979917
UniProtKB/Swiss-Prot	Q95RW8
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 regulatory region FBsf0000436399 2R:3,925,547..3,926,981 evidence=Reporter construct (in vivo) (Ostrin et al., 2006, Halfon, 2012.6.19)
External Data
Linkouts
Crossreferences
Expression Data
Transcript Expression
in situ Stage Tissue/Position (including subcellular localization) Reference embryonic stage   embryonic maxillary segment   (Seo et al., 1999) embryonic/larval labial organ   (Seo et al., 1999) gonad   (Seo et al., 1999) frontal ganglion   (Seo et al., 1999) dorsal pouch   (Seo et al., 1999) clypeo-labral disc   (Seo et al., 1999) embryonic labial segment   (Seo et al., 1999) labral segment   (Seo et al., 1999) procephalic neurogenic region   (Seo et al., 1999) head sensillum   (Seo et al., 1999) embryonic stomatogastric nervous system   (Seo et al., 1999) terminal organ   (Seo et al., 1999) embryonic supraesophageal neuromere   (Seo et al., 1999) embryonic/larval labral segment sense organ   (Seo et al., 1999) embryonic stage 4 -- 6   central brain anlage in statu nascendi   (Fisher et al., 2012) clypeo-labral anlage in statu nascendi   (Fisher et al., 2012) foregut anlage in statu nascendi   (Fisher et al., 2012) visual anlage in statu nascendi   (Fisher et al., 2012) Comment:reported as procephalic ectoderm anlage in statu nascendi antennal anlage in statu nascendi   (Fisher et al., 2012) Comment:reported as procephalic ectoderm anlage in statu nascendi dorsal head epidermis anlage in statu nascendi   (Fisher et al., 2012) Comment:reported as procephalic ectoderm anlage in statu nascendi embryonic stage 5   organism | 80-90% egg length   (Toy et al., 1998) Comment:85-93% egg length embryonic stage 5 -- 6   organism | anterior   (Seimiya and Gehring, 2000) Comment:anterior ring embryonic stage 6   organism | anterior & dorsal   (Toy et al., 1998) embryonic stage 7 -- 8   antennal anlage   (Fisher et al., 2012) Comment:reported as procephalic ectoderm anlage central brain anlage   (Fisher et al., 2012) Comment:reported as procephalic ectoderm anlage dorsal head epidermis anlage   (Fisher et al., 2012) Comment:reported as procephalic ectoderm anlage visual anlage   (Fisher et al., 2012) Comment:reported as procephalic ectoderm anlage clypeo-labral anlage   (Fisher et al., 2012) foregut anlage   (Fisher et al., 2012) embryonic stage 9 -- 10   antennal primordium   (Fisher et al., 2012) Comment:reported as procephalic ectoderm primordium central brain primordium   (Fisher et al., 2012) Comment:reported as procephalic ectoderm primordium visual primordium   (Fisher et al., 2012) Comment:reported as procephalic ectoderm primordium dorsal head epidermis primordium   (Fisher et al., 2012) Comment:reported as procephalic ectoderm primordium lateral head epidermis primordium   (Fisher et al., 2012) Comment:reported as procephalic ectoderm primordium ventral head epidermis primordium   (Fisher et al., 2012) Comment:reported as procephalic ectoderm primordium clypeo-labral primordium   (Fisher et al., 2012) foregut primordium   (Fisher et al., 2012) embryonic stage 9 -- 11   embryonic labral segment   (Seimiya and Gehring, 2000) embryonic stage 11 -- 12   central brain primordium   (Fisher et al., 2012) clypeo-labral primordium   (Fisher et al., 2012) labral sensory complex primordium   (Fisher et al., 2012) pars intercerebralis primordium   (Fisher et al., 2012) embryonic stage 12   ectoderm | dorsal   (Toy et al., 1998) supraesophageal ganglion | presumptive   (Toy et al., 1998) stomodeum   (Toy et al., 1998) embryonic stage 12 -- 13   labral segment   (Toy et al., 1998) embryonic stage 13 -- 16   dorsal head epidermis   (Fisher et al., 2012) embryonic brain   (Fisher et al., 2012) embryonic central brain pars intercerebralis   (Fisher et al., 2012) embryonic epipharynx   (Fisher et al., 2012) embryonic foregut   (Fisher et al., 2012) embryonic head epidermis   (Fisher et al., 2012) embryonic head sensory system   (Fisher et al., 2012) labral segment   (Fisher et al., 2012) labral sensory complex   (Fisher et al., 2012) embryonic stage 14   procephalic neurogenic region   (Seimiya and Gehring, 2000) third instar larval stage   eye-antennal disc   (Seo et al., 1999) late third instar larval stage   eye disc anterior to the morphogenetic furrow   (Seimiya and Gehring, 2000) Comment:also expressed in the vertex antennal disc | medial   (Seimiya and Gehring, 2000) wing pouch | restricted   (Seimiya and Gehring, 2000) haltere disc | restricted   (Seimiya and Gehring, 2000)
Additional Descriptive Data
	Optix transcripts are first detected at embryonic stage 5 in a band at 85-93% egg length. By stage 6, the expression has shifted to the dorsal-anterior region of the embryo. At stage 12, expression is observed in the clypeolabrum, the stomodeum, and in ectoderm dorsal to the future supraesophageal ganglion. The dorsal ectoderm has two bilateral sites of expression that might correspond to the eye-antennal disc primordia. (Toy et al., 1998) Optix transcripts are first detected in cellular blastoderm embryos in the anterior region in a sharply defined anterior stripe at 85-95% egg length. From gastrulation on, very dynamic expression is observed in a pattern that is generally symmetric about the dorsal midline. Some regions of expression include the labral segment and the procephalic neurogenic region. During germ band retraction, expression is seen in the cylpeo-labral region, in the supraoesophageal ganglion, and ventrally in the labial and maxillary segments. Dynamic expression continues after the germ band retracts. Some areas of expression include part of the pharynx, the supraoesophageal ganglion, the head sensilla, the frontal ganglion, and the frontal connective of the stomatogastric nervous system. (Seo et al., 1999) Blastoderm expression is anterior to that of so. (Seimiya and Gehring, 2000)
Marker for
Subcellular Localization
CV Term
Polypeptide Expression
Additional Descriptive Data
Marker for
Subcellular Localization (GO Cellular Component)
CV term Evidence References
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 moderate levels in the following post-embryonic organs or tissues: adult head, adult eye, larval central nervous system, adult testis. [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    176.2 Larval Midgut    2.2 Larval Hindgut    0.8 Larval Malpighian Tubules    0.9 Larval Fat Body    31.8 Larval Salivary Gland    1.1 Larval Trachea    8.825 Larval Carcass    1.775 Adult Head    112.3 Adult Eye    210.3 Adult Brain    91.4 Adult Thoracic-Abdominal Ganglion    2.5 Adult Crop    2.5 Adult Midgut    0.6 Adult Hindgut    2.2 Adult Malpighian Tubules    2.9 Adult Fat Body    1.5 Adult Salivary Gland    1.7 Adult Heart    3.675 Adult VirginFemale Spermatheca    1.1 Adult InseminatedFemale Spermatheca    0.9 Adult Ovary    0.9 Adult Testis    460.9 Adult Male Accessory Gland    1.7 Adult Carcass    1.8 Expression Level Scale  None   Low   Moderate   High  Linear, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    176.2 Larval Midgut    2.2 Larval Hindgut    0.8 Larval Malpighian Tubules    0.9 Larval Fat Body    31.8 Larval Salivary Gland    1.1 Larval Trachea    8.825 Larval Carcass    1.775 Adult Head    112.3 Adult Eye    210.3 Adult Brain    91.4 Adult Thoracic-Abdominal Ganglion    2.5 Adult Crop    2.5 Adult Midgut    0.6 Adult Hindgut    2.2 Adult Malpighian Tubules    2.9 Adult Fat Body    1.5 Adult Salivary Gland    1.7 Adult Heart    3.675 Adult VirginFemale Spermatheca    1.1 Adult InseminatedFemale Spermatheca    0.9 Adult Ovary    0.9 Adult Testis    460.9 Adult Male Accessory Gland    1.7 Adult Carcass    1.8 Expression Level Scale  None   Low   Moderate   High  Linear, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    176.2 Larval Midgut    2.2 Larval Hindgut    0.8 Larval Malpighian Tubules    0.9 Larval Fat Body    31.8 Larval Salivary Gland    1.1 Larval Trachea    8.825 Larval Carcass    1.775 Adult Head    112.3 Adult Eye    210.3 Adult Brain    91.4 Adult Thoracic-Abdominal Ganglion    2.5 Adult Crop    2.5 Adult Midgut    0.6 Adult Hindgut    2.2 Adult Malpighian Tubules    2.9 Adult Fat Body    1.5 Adult Salivary Gland    1.7 Adult Heart    3.675 Adult VirginFemale Spermatheca    1.1 Adult InseminatedFemale Spermatheca    0.9 Adult Ovary    0.9 Adult Testis    460.9 Adult Male Accessory Gland    1.7 Adult Carcass    1.8 Expression Level Scale  None   Low   Moderate   High   Very high  Linear, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    176.2 Larval Midgut    2.2 Larval Hindgut    0.8 Larval Malpighian Tubules    0.9 Larval Fat Body    31.8 Larval Salivary Gland    1.1 Larval Trachea    8.825 Larval Carcass    1.775 Adult Head    112.3 Adult Eye    210.3 Adult Brain    91.4 Adult Thoracic-Abdominal Ganglion    2.5 Adult Crop    2.5 Adult Midgut    0.6 Adult Hindgut    2.2 Adult Malpighian Tubules    2.9 Adult Fat Body    1.5 Adult Salivary Gland    1.7 Adult Heart    3.675 Adult VirginFemale Spermatheca    1.1 Adult InseminatedFemale Spermatheca    0.9 Adult Ovary    0.9 Adult Testis    460.9 Adult Male Accessory Gland    1.7 Adult Carcass    1.8 Expression Level Scale  Very high  log, scaled to maximum expression level Tissue   Expression Level Larval Central Nervous System    176.2 Larval Midgut    2.2 Larval Hindgut    0.8 Larval Malpighian Tubules    0.9 Larval Fat Body    31.8 Larval Salivary Gland    1.1 Larval Trachea    8.825 Larval Carcass    1.775 Adult Head    112.3 Adult Eye    210.3 Adult Brain    91.4 Adult Thoracic-Abdominal Ganglion    2.5 Adult Crop    2.5 Adult Midgut    0.6 Adult Hindgut    2.2 Adult Malpighian Tubules    2.9 Adult Fat Body    1.5 Adult Salivary Gland    1.7 Adult Heart    3.675 Adult VirginFemale Spermatheca    1.1 Adult InseminatedFemale Spermatheca    0.9 Adult Ovary    0.9 Adult Testis    460.9 Adult Male Accessory Gland    1.7 Adult Carcass    1.8 Expression Level Scale  None   Low   Moderate   High  log, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    176.2 Larval Midgut    2.2 Larval Hindgut    0.8 Larval Malpighian Tubules    0.9 Larval Fat Body    31.8 Larval Salivary Gland    1.1 Larval Trachea    8.825 Larval Carcass    1.775 Adult Head    112.3 Adult Eye    210.3 Adult Brain    91.4 Adult Thoracic-Abdominal Ganglion    2.5 Adult Crop    2.5 Adult Midgut    0.6 Adult Hindgut    2.2 Adult Malpighian Tubules    2.9 Adult Fat Body    1.5 Adult Salivary Gland    1.7 Adult Heart    3.675 Adult VirginFemale Spermatheca    1.1 Adult InseminatedFemale Spermatheca    0.9 Adult Ovary    0.9 Adult Testis    460.9 Adult Male Accessory Gland    1.7 Adult Carcass    1.8 Expression Level Scale  None   Low   Moderate   High  log, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    176.2 Larval Midgut    2.2 Larval Hindgut    0.8 Larval Malpighian Tubules    0.9 Larval Fat Body    31.8 Larval Salivary Gland    1.1 Larval Trachea    8.825 Larval Carcass    1.775 Adult Head    112.3 Adult Eye    210.3 Adult Brain    91.4 Adult Thoracic-Abdominal Ganglion    2.5 Adult Crop    2.5 Adult Midgut    0.6 Adult Hindgut    2.2 Adult Malpighian Tubules    2.9 Adult Fat Body    1.5 Adult Salivary Gland    1.7 Adult Heart    3.675 Adult VirginFemale Spermatheca    1.1 Adult InseminatedFemale Spermatheca    0.9 Adult Ovary    0.9 Adult Testis    460.9 Adult Male Accessory Gland    1.7 Adult Carcass    1.8 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    176.2 Larval Midgut    2.2 Larval Hindgut    0.8 Larval Malpighian Tubules    0.9 Larval Fat Body    31.8 Larval Salivary Gland    1.1 Larval Trachea    8.825 Larval Carcass    1.775 Adult Head    112.3 Adult Eye    210.3 Adult Brain    91.4 Adult Thoracic-Abdominal Ganglion    2.5 Adult Crop    2.5 Adult Midgut    0.6 Adult Hindgut    2.2 Adult Malpighian Tubules    2.9 Adult Fat Body    1.5 Adult Salivary Gland    1.7 Adult Heart    3.675 Adult VirginFemale Spermatheca    1.1 Adult InseminatedFemale Spermatheca    0.9 Adult Ovary    0.9 Adult Testis    460.9 Adult Male Accessory Gland    1.7 Adult Carcass    1.8 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    112.3   NA  Eye    210.3   NA  Brain    91.4   176.2  Central Nervous System    NA   NA  Thoracic-Abdominal Ganglion    2.5   NA  Crop    2.5   2.2  Midgut    0.6   0.8  Hindgut    2.2   0.9  Malpighian Tubules    2.9   no informative data  Fat Body    1.5   1.1  Salivary Gland    1.7   NA  Heart    3.675   8.825  Trachea    NA   NA  VirginFemale Spermatheca    1.1   NA  InseminatedFemale Spermatheca    0.9   NA  Ovary    0.9   NA  Testis    460.9   NA  Male Accessory Gland    1.7   1.775  Carcass    1.8 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    29 central nervous system, larvae L3    15 central nervous system, pupae P8    11 head, virgin 1-day female    8 head, virgin 4-day female    9 head, virgin 20-day female    8 head, mated 1-day female    9 head, mated 4-day female    7 head, mated 20-day female    8 head, mated 1-day male    14 head, mated 4-day male    12 head, mated 20-day male    12 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    1 digestive system, larvae L3 wandering    0 digestive system, 1-day adult    0 digestive system, 4-day adult    0 digestive system, 20-day adult    0 fat body, larvae L3 wandering    0 fat body, white prepupae    4 fat body, pupae P8    2 carcass, larvae L3 wandering    5 carcass, 1-day adult    0 carcass, 4-day adult    0 carcass, 20-day adult    1 ovary, virgin 4-day female    0 ovary, mated 4-day female    0 testis, mated 4-day male    40 accessory gland, mated 4-day male    5 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering  (29) central nervous system, larvae L3    15 central nervous system, pupae P8    11 head, virgin 1-day female    8 head, virgin 4-day female    9 head, virgin 20-day female    8 head, mated 1-day female    9 head, mated 4-day female    7 head, mated 20-day female    8 head, mated 1-day male    14 head, mated 4-day male    12 head, mated 20-day male    12 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    1 digestive system, larvae L3 wandering    0 digestive system, 1-day adult    0 digestive system, 4-day adult    0 digestive system, 20-day adult    0 fat body, larvae L3 wandering    0 fat body, white prepupae    4 fat body, pupae P8    2 carcass, larvae L3 wandering    5 carcass, 1-day adult    0 carcass, 4-day adult    0 carcass, 20-day adult    1 ovary, virgin 4-day female    0 ovary, mated 4-day female    0 testis, mated 4-day male  (40) accessory gland, mated 4-day male    5 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    29 central nervous system, larvae L3    15 central nervous system, pupae P8    11 head, virgin 1-day female    8 head, virgin 4-day female    9 head, virgin 20-day female    8 head, mated 1-day female    9 head, mated 4-day female    7 head, mated 20-day female    8 head, mated 1-day male    14 head, mated 4-day male    12 head, mated 20-day male    12 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    1 digestive system, larvae L3 wandering    0 digestive system, 1-day adult    0 digestive system, 4-day adult    0 digestive system, 20-day adult    0 fat body, larvae L3 wandering    0 fat body, white prepupae    4 fat body, pupae P8    2 carcass, larvae L3 wandering    5 carcass, 1-day adult    0 carcass, 4-day adult    0 carcass, 20-day adult    1 ovary, virgin 4-day female    0 ovary, mated 4-day female    0 testis, mated 4-day male    40 accessory gland, mated 4-day male    5 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    29 central nervous system, larvae L3    15 central nervous system, pupae P8    11 head, virgin 1-day female    8 head, virgin 4-day female    9 head, virgin 20-day female    8 head, mated 1-day female    9 head, mated 4-day female    7 head, mated 20-day female    8 head, mated 1-day male    14 head, mated 4-day male    12 head, mated 20-day male    12 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    1 digestive system, larvae L3 wandering    0 digestive system, 1-day adult    0 digestive system, 4-day adult    0 digestive system, 20-day adult    0 fat body, larvae L3 wandering    0 fat body, white prepupae    4 fat body, pupae P8    2 carcass, larvae L3 wandering    5 carcass, 1-day adult    0 carcass, 4-day adult    0 carcass, 20-day adult    1 ovary, virgin 4-day female    0 ovary, mated 4-day female    0 testis, mated 4-day male    40 accessory gland, mated 4-day male    5 Expression Level Scale  Extremely high  log, scaled to maximum expression level Tissue   Expression Level imaginal disc, larvae L3 wandering    29 central nervous system, larvae L3    15 central nervous system, pupae P8    11 head, virgin 1-day female    8 head, virgin 4-day female    9 head, virgin 20-day female    8 head, mated 1-day female    9 head, mated 4-day female    7 head, mated 20-day female    8 head, mated 1-day male    14 head, mated 4-day male    12 head, mated 20-day male    12 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    1 digestive system, larvae L3 wandering    0 digestive system, 1-day adult    0 digestive system, 4-day adult    0 digestive system, 20-day adult    0 fat body, larvae L3 wandering    0 fat body, white prepupae    4 fat body, pupae P8    2 carcass, larvae L3 wandering    5 carcass, 1-day adult    0 carcass, 4-day adult    0 carcass, 20-day adult    1 ovary, virgin 4-day female    0 ovary, mated 4-day female    0 testis, mated 4-day male    40 accessory gland, mated 4-day male    5 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  log, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering  29 central nervous system, larvae L3    15 central nervous system, pupae P8    11 head, virgin 1-day female    8 head, virgin 4-day female    9 head, virgin 20-day female    8 head, mated 1-day female    9 head, mated 4-day female    7 head, mated 20-day female    8 head, mated 1-day male    14 head, mated 4-day male    12 head, mated 20-day male    12 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    1 digestive system, larvae L3 wandering    0 digestive system, 1-day adult    0 digestive system, 4-day adult    0 digestive system, 20-day adult    0 fat body, larvae L3 wandering    0 fat body, white prepupae    4 fat body, pupae P8    2 carcass, larvae L3 wandering    5 carcass, 1-day adult    0 carcass, 4-day adult    0 carcass, 20-day adult    1 ovary, virgin 4-day female    0 ovary, mated 4-day female    0 testis, mated 4-day male  (40) accessory gland, mated 4-day male    5 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    29 central nervous system, larvae L3    15 central nervous system, pupae P8    11 head, virgin 1-day female    8 head, virgin 4-day female    9 head, virgin 20-day female    8 head, mated 1-day female    9 head, mated 4-day female    7 head, mated 20-day female    8 head, mated 1-day male    14 head, mated 4-day male    12 head, mated 20-day male    12 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    1 digestive system, larvae L3 wandering    0 digestive system, 1-day adult    0 digestive system, 4-day adult    0 digestive system, 20-day adult    0 fat body, larvae L3 wandering    0 fat body, white prepupae    4 fat body, pupae P8    2 carcass, larvae L3 wandering    5 carcass, 1-day adult    0 carcass, 4-day adult    0 carcass, 20-day adult    1 ovary, virgin 4-day female    0 ovary, mated 4-day female    0 testis, mated 4-day male    40 accessory gland, mated 4-day male    5 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    29 central nervous system, larvae L3    15 central nervous system, pupae P8    11 head, virgin 1-day female    8 head, virgin 4-day female    9 head, virgin 20-day female    8 head, mated 1-day female    9 head, mated 4-day female    7 head, mated 20-day female    8 head, mated 1-day male    14 head, mated 4-day male    12 head, mated 20-day male    12 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    1 digestive system, larvae L3 wandering    0 digestive system, 1-day adult    0 digestive system, 4-day adult    0 digestive system, 20-day adult    0 fat body, larvae L3 wandering    0 fat body, white prepupae    4 fat body, pupae P8    2 carcass, larvae L3 wandering    5 carcass, 1-day adult    0 carcass, 4-day adult    0 carcass, 20-day adult    1 ovary, virgin 4-day female    0 ovary, mated 4-day female    0 testis, mated 4-day male    40 accessory gland, mated 4-day male    5 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 moderate expression to a trough of very low expression. Peak expression observed at stages throughout embryogenesis, during late larval 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    0 embryo 02-04hr    7 embryo 04-06hr    15 embryo 06-08hr    17 embryo 08-10hr    14 embryo 10-12hr    11 embryo 12-14hr    9 embryo 14-16hr    8 embryo 16-18hr    7 embryo 18-20hr    8 embryo 20-22hr    4 embryo 22-24hr    4 larva L1    3 larva L2    1 larva L3 12hr old    1 larva L3 puffstage 1-2    2 larva L3 puffstage 3-6    4 larva L3 puffstage 7-9    5 white prepupae new    5 white prepupae 12hr    7 white prepupae 24hr    10 pupae 2d postWPP    8 pupae 3d postWPP    5 pupae 4d postWPP    5 adult male 01day    8 adult male 05day    11 adult male 30day    9 adult female 01day    1 adult female 05day    0 adult female 30day    0 Expression Level Scale  Very low   Low   Moderate  Linear, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    0 embryo 02-04hr    7 embryo 04-06hr    15 embryo 06-08hr    17 embryo 08-10hr    14 embryo 10-12hr    11 embryo 12-14hr    9 embryo 14-16hr    8 embryo 16-18hr    7 embryo 18-20hr    8 embryo 20-22hr    4 embryo 22-24hr    4 larva L1    3 larva L2    1 larva L3 12hr old    1 larva L3 puffstage 1-2    2 larva L3 puffstage 3-6    4 larva L3 puffstage 7-9    5 white prepupae new    5 white prepupae 12hr    7 white prepupae 24hr    10 pupae 2d postWPP    8 pupae 3d postWPP    5 pupae 4d postWPP    5 adult male 01day    8 adult male 05day    11 adult male 30day    9 adult female 01day    1 adult female 05day    0 adult female 30day    0 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    0 embryo 02-04hr    7 embryo 04-06hr    15 embryo 06-08hr    17 embryo 08-10hr    14 embryo 10-12hr    11 embryo 12-14hr    9 embryo 14-16hr    8 embryo 16-18hr    7 embryo 18-20hr    8 embryo 20-22hr    4 embryo 22-24hr    4 larva L1    3 larva L2    1 larva L3 12hr old    1 larva L3 puffstage 1-2    2 larva L3 puffstage 3-6    4 larva L3 puffstage 7-9    5 white prepupae new    5 white prepupae 12hr    7 white prepupae 24hr    10 pupae 2d postWPP    8 pupae 3d postWPP    5 pupae 4d postWPP    5 adult male 01day    8 adult male 05day    11 adult male 30day    9 adult female 01day    1 adult female 05day    0 adult female 30day    0 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    0 embryo 02-04hr    7 embryo 04-06hr    15 embryo 06-08hr    17 embryo 08-10hr    14 embryo 10-12hr    11 embryo 12-14hr    9 embryo 14-16hr    8 embryo 16-18hr    7 embryo 18-20hr    8 embryo 20-22hr    4 embryo 22-24hr    4 larva L1    3 larva L2    1 larva L3 12hr old    1 larva L3 puffstage 1-2    2 larva L3 puffstage 3-6    4 larva L3 puffstage 7-9    5 white prepupae new    5 white prepupae 12hr    7 white prepupae 24hr    10 pupae 2d postWPP    8 pupae 3d postWPP    5 pupae 4d postWPP    5 adult male 01day    8 adult male 05day    11 adult male 30day    9 adult female 01day    1 adult female 05day    0 adult female 30day    0 Expression Level Scale  Extremely high  log, scaled to maximum expression level Developmental Stage   Expression Level embryo 00-02hr    0 embryo 02-04hr    7 embryo 04-06hr    15 embryo 06-08hr    17 embryo 08-10hr    14 embryo 10-12hr    11 embryo 12-14hr    9 embryo 14-16hr    8 embryo 16-18hr    7 embryo 18-20hr    8 embryo 20-22hr    4 embryo 22-24hr    4 larva L1    3 larva L2    1 larva L3 12hr old    1 larva L3 puffstage 1-2    2 larva L3 puffstage 3-6    4 larva L3 puffstage 7-9    5 white prepupae new    5 white prepupae 12hr    7 white prepupae 24hr    10 pupae 2d postWPP    8 pupae 3d postWPP    5 pupae 4d postWPP    5 adult male 01day    8 adult male 05day    11 adult male 30day    9 adult female 01day    1 adult female 05day    0 adult female 30day    0 Expression Level Scale  Very low   Low   Moderate  log, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    0 embryo 02-04hr    7 embryo 04-06hr    15 embryo 06-08hr    17 embryo 08-10hr    14 embryo 10-12hr    11 embryo 12-14hr    9 embryo 14-16hr    8 embryo 16-18hr    7 embryo 18-20hr    8 embryo 20-22hr    4 embryo 22-24hr    4 larva L1    3 larva L2    1 larva L3 12hr old    1 larva L3 puffstage 1-2    2 larva L3 puffstage 3-6    4 larva L3 puffstage 7-9    5 white prepupae new    5 white prepupae 12hr    7 white prepupae 24hr    10 pupae 2d postWPP    8 pupae 3d postWPP    5 pupae 4d postWPP    5 adult male 01day    8 adult male 05day    11 adult male 30day    9 adult female 01day    1 adult female 05day    0 adult female 30day    0 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    0 embryo 02-04hr    7 embryo 04-06hr    15 embryo 06-08hr    17 embryo 08-10hr    14 embryo 10-12hr    11 embryo 12-14hr    9 embryo 14-16hr    8 embryo 16-18hr    7 embryo 18-20hr    8 embryo 20-22hr    4 embryo 22-24hr    4 larva L1    3 larva L2    1 larva L3 12hr old    1 larva L3 puffstage 1-2    2 larva L3 puffstage 3-6    4 larva L3 puffstage 7-9    5 white prepupae new    5 white prepupae 12hr    7 white prepupae 24hr    10 pupae 2d postWPP    8 pupae 3d postWPP    5 pupae 4d postWPP    5 adult male 01day    8 adult male 05day    11 adult male 30day    9 adult female 01day    1 adult female 05day    0 adult female 30day    0 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    0 embryo 02-04hr    7 embryo 04-06hr    15 embryo 06-08hr    17 embryo 08-10hr    14 embryo 10-12hr    11 embryo 12-14hr    9 embryo 14-16hr    8 embryo 16-18hr    7 embryo 18-20hr    8 embryo 20-22hr    4 embryo 22-24hr    4 larva L1    3 larva L2    1 larva L3 12hr old    1 larva L3 puffstage 1-2    2 larva L3 puffstage 3-6    4 larva L3 puffstage 7-9    5 white prepupae new    5 white prepupae 12hr    7 white prepupae 24hr    10 pupae 2d postWPP    8 pupae 3d postWPP    5 pupae 4d postWPP    5 adult male 01day    8 adult male 05day    11 adult male 30day    9 adult female 01day    1 adult female 05day    0 adult female 30day    0 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+    0 Schneider line 2 Sg4    0 embryonic 1182-4H    0 embryonic GM2    0 embryonic Kc167    0 embryonic S1    0 embryonic S3    0 leg disc CME L1    0 wing disc CME-W2    0 wing disc ML-DmD8    0 wing disc ML-DmD9    0 wing disc ML-DmD16-c3    0 wing disc ML-DmD21    3 wing disc ML-DmD32    0 haltere disc ML-DmD17-c3    0 eye-antennal disc ML-DmD11    0 antennal disc ML-DmD20-c5    0 mixed discs ML-DmD4-c1    0 CNS ML-DmBG1-c1    0 CNS ML-DmBG2-c2    0 tumorous blood cells mbn2    0 ovary fGS/OSS    0 ovary OSC    0 ovary OSS    0 Expression Level Scale  Very low   Low   Moderate  Linear, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+    0 Schneider line 2 Sg4    0 embryonic 1182-4H    0 embryonic GM2    0 embryonic Kc167    0 embryonic S1    0 embryonic S3    0 leg disc CME L1    0 wing disc CME-W2    0 wing disc ML-DmD8    0 wing disc ML-DmD9    0 wing disc ML-DmD16-c3    0 wing disc ML-DmD21    3 wing disc ML-DmD32    0 haltere disc ML-DmD17-c3    0 eye-antennal disc ML-DmD11    0 antennal disc ML-DmD20-c5    0 mixed discs ML-DmD4-c1    0 CNS ML-DmBG1-c1    0 CNS ML-DmBG2-c2    0 tumorous blood cells mbn2    0 ovary fGS/OSS    0 ovary OSC    0 ovary OSS    0 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    0 Schneider line 2 Sg4    0 embryonic 1182-4H    0 embryonic GM2    0 embryonic Kc167    0 embryonic S1    0 embryonic S3    0 leg disc CME L1    0 wing disc CME-W2    0 wing disc ML-DmD8    0 wing disc ML-DmD9    0 wing disc ML-DmD16-c3    0 wing disc ML-DmD21    3 wing disc ML-DmD32    0 haltere disc ML-DmD17-c3    0 eye-antennal disc ML-DmD11    0 antennal disc ML-DmD20-c5    0 mixed discs ML-DmD4-c1    0 CNS ML-DmBG1-c1    0 CNS ML-DmBG2-c2    0 tumorous blood cells mbn2    0 ovary fGS/OSS    0 ovary OSC    0 ovary OSS    0 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+    0 Schneider line 2 Sg4    0 embryonic 1182-4H    0 embryonic GM2    0 embryonic Kc167    0 embryonic S1    0 embryonic S3    0 leg disc CME L1    0 wing disc CME-W2    0 wing disc ML-DmD8    0 wing disc ML-DmD9    0 wing disc ML-DmD16-c3    0 wing disc ML-DmD21    3 wing disc ML-DmD32    0 haltere disc ML-DmD17-c3    0 eye-antennal disc ML-DmD11    0 antennal disc ML-DmD20-c5    0 mixed discs ML-DmD4-c1    0 CNS ML-DmBG1-c1    0 CNS ML-DmBG2-c2    0 tumorous blood cells mbn2    0 ovary fGS/OSS    0 ovary OSC    0 ovary OSS    0 Expression Level Scale  Extremely high  log, scaled to maximum expression level Cell Line   Expression Level Schneider line 2 S2R+    0 Schneider line 2 Sg4    0 embryonic 1182-4H    0 embryonic GM2    0 embryonic Kc167    0 embryonic S1    0 embryonic S3    0 leg disc CME L1    0 wing disc CME-W2    0 wing disc ML-DmD8    0 wing disc ML-DmD9    0 wing disc ML-DmD16-c3    0 wing disc ML-DmD21    3 wing disc ML-DmD32    0 haltere disc ML-DmD17-c3    0 eye-antennal disc ML-DmD11    0 antennal disc ML-DmD20-c5    0 mixed discs ML-DmD4-c1    0 CNS ML-DmBG1-c1    0 CNS ML-DmBG2-c2    0 tumorous blood cells mbn2    0 ovary fGS/OSS    0 ovary OSC    0 ovary OSS    0 Expression Level Scale  Very low   Low   Moderate  log, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+    0 Schneider line 2 Sg4    0 embryonic 1182-4H    0 embryonic GM2    0 embryonic Kc167    0 embryonic S1    0 embryonic S3    0 leg disc CME L1    0 wing disc CME-W2    0 wing disc ML-DmD8    0 wing disc ML-DmD9    0 wing disc ML-DmD16-c3    0 wing disc ML-DmD21    3 wing disc ML-DmD32    0 haltere disc ML-DmD17-c3    0 eye-antennal disc ML-DmD11    0 antennal disc ML-DmD20-c5    0 mixed discs ML-DmD4-c1    0 CNS ML-DmBG1-c1    0 CNS ML-DmBG2-c2    0 tumorous blood cells mbn2    0 ovary fGS/OSS    0 ovary OSC    0 ovary OSS    0 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    0 Schneider line 2 Sg4    0 embryonic 1182-4H    0 embryonic GM2    0 embryonic Kc167    0 embryonic S1    0 embryonic S3    0 leg disc CME L1    0 wing disc CME-W2    0 wing disc ML-DmD8    0 wing disc ML-DmD9    0 wing disc ML-DmD16-c3    0 wing disc ML-DmD21    3 wing disc ML-DmD32    0 haltere disc ML-DmD17-c3    0 eye-antennal disc ML-DmD11    0 antennal disc ML-DmD20-c5    0 mixed discs ML-DmD4-c1    0 CNS ML-DmBG1-c1    0 CNS ML-DmBG2-c2    0 tumorous blood cells mbn2    0 ovary fGS/OSS    0 ovary OSC    0 ovary OSS    0 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+    0 Schneider line 2 Sg4    0 embryonic 1182-4H    0 embryonic GM2    0 embryonic Kc167    0 embryonic S1    0 embryonic S3    0 leg disc CME L1    0 wing disc CME-W2    0 wing disc ML-DmD8    0 wing disc ML-DmD9    0 wing disc ML-DmD16-c3    0 wing disc ML-DmD21    3 wing disc ML-DmD32    0 haltere disc ML-DmD17-c3    0 eye-antennal disc ML-DmD11    0 antennal disc ML-DmD20-c5    0 mixed discs ML-DmD4-c1    0 CNS ML-DmBG1-c1    0 CNS ML-DmBG2-c2    0 tumorous blood cells mbn2    0 ovary fGS/OSS    0 ovary OSC    0 ovary OSS    0 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    2 Cadmium 50 mM 6 hrs, larvae L3    2 Cadmium 50 mM 12 hrs, larvae L3    2 Cadmium 50 mM 48 hrs, 4-day adult    2 Cadmium 100 mM 48 hrs, 4-day adult    3 Copper 0.5 mM 12 hrs, larvae L3    3 Copper 15 mM 48 hrs, 4-day adult    3 Zinc 5 mM 12 hrs, larvae L3    2 Zinc 4.5 mM 48 hrs, 4-day adult    5 Ethanol 2.5% 3 hrs, larvae L3    3 Ethanol 5% 3 hrs, larvae L3    1 Ethanol 10% 3 hrs, larvae L3    2 Caffeine 1.5 mg/ml 4 hrs, larvae L3    2 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    2 Caffeine 25 mg/ml 48 hrs, 4-day adult    2 Paraquat 5 mM 48 hrs, 4-day adult    4 Paraquat 10 mM 48 hrs, 4-day adult    5 Rotenone 2 μg 12 hrs, larvae L3    2 Rotenone 8 μg 12 hrs, larvae L3    2 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    2 Cadmium 50 mM 6 hrs, larvae L3    2 Cadmium 50 mM 12 hrs, larvae L3    2 Cadmium 50 mM 48 hrs, 4-day adult    2 Cadmium 100 mM 48 hrs, 4-day adult    3 Copper 0.5 mM 12 hrs, larvae L3    3 Copper 15 mM 48 hrs, 4-day adult    3 Zinc 5 mM 12 hrs, larvae L3    2 Zinc 4.5 mM 48 hrs, 4-day adult    5 Ethanol 2.5% 3 hrs, larvae L3    3 Ethanol 5% 3 hrs, larvae L3    1 Ethanol 10% 3 hrs, larvae L3    2 Caffeine 1.5 mg/ml 4 hrs, larvae L3    2 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    2 Caffeine 25 mg/ml 48 hrs, 4-day adult    2 Paraquat 5 mM 48 hrs, 4-day adult    4 Paraquat 10 mM 48 hrs, 4-day adult    5 Rotenone 2 μg 12 hrs, larvae L3    2 Rotenone 8 μg 12 hrs, larvae L3    2 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    2 Cadmium 50 mM 6 hrs, larvae L3    2 Cadmium 50 mM 12 hrs, larvae L3    2 Cadmium 50 mM 48 hrs, 4-day adult    2 Cadmium 100 mM 48 hrs, 4-day adult    3 Copper 0.5 mM 12 hrs, larvae L3    3 Copper 15 mM 48 hrs, 4-day adult    3 Zinc 5 mM 12 hrs, larvae L3    2 Zinc 4.5 mM 48 hrs, 4-day adult    5 Ethanol 2.5% 3 hrs, larvae L3    3 Ethanol 5% 3 hrs, larvae L3    1 Ethanol 10% 3 hrs, larvae L3    2 Caffeine 1.5 mg/ml 4 hrs, larvae L3    2 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    2 Caffeine 25 mg/ml 48 hrs, 4-day adult    2 Paraquat 5 mM 48 hrs, 4-day adult    4 Paraquat 10 mM 48 hrs, 4-day adult    5 Rotenone 2 μg 12 hrs, larvae L3    2 Rotenone 8 μg 12 hrs, larvae L3    2 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    2 Cadmium 50 mM 6 hrs, larvae L3    2 Cadmium 50 mM 12 hrs, larvae L3    2 Cadmium 50 mM 48 hrs, 4-day adult    2 Cadmium 100 mM 48 hrs, 4-day adult    3 Copper 0.5 mM 12 hrs, larvae L3    3 Copper 15 mM 48 hrs, 4-day adult    3 Zinc 5 mM 12 hrs, larvae L3    2 Zinc 4.5 mM 48 hrs, 4-day adult    5 Ethanol 2.5% 3 hrs, larvae L3    3 Ethanol 5% 3 hrs, larvae L3    1 Ethanol 10% 3 hrs, larvae L3    2 Caffeine 1.5 mg/ml 4 hrs, larvae L3    2 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    2 Caffeine 25 mg/ml 48 hrs, 4-day adult    2 Paraquat 5 mM 48 hrs, 4-day adult    4 Paraquat 10 mM 48 hrs, 4-day adult    5 Rotenone 2 μg 12 hrs, larvae L3    2 Rotenone 8 μg 12 hrs, larvae L3    2 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    2 Cadmium 50 mM 6 hrs, larvae L3    2 Cadmium 50 mM 12 hrs, larvae L3    2 Cadmium 50 mM 48 hrs, 4-day adult    2 Cadmium 100 mM 48 hrs, 4-day adult    3 Copper 0.5 mM 12 hrs, larvae L3    3 Copper 15 mM 48 hrs, 4-day adult    3 Zinc 5 mM 12 hrs, larvae L3    2 Zinc 4.5 mM 48 hrs, 4-day adult    5 Ethanol 2.5% 3 hrs, larvae L3    3 Ethanol 5% 3 hrs, larvae L3    1 Ethanol 10% 3 hrs, larvae L3    2 Caffeine 1.5 mg/ml 4 hrs, larvae L3    2 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    2 Caffeine 25 mg/ml 48 hrs, 4-day adult    2 Paraquat 5 mM 48 hrs, 4-day adult    4 Paraquat 10 mM 48 hrs, 4-day adult    5 Rotenone 2 μg 12 hrs, larvae L3    2 Rotenone 8 μg 12 hrs, larvae L3    2 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    2 Cadmium 50 mM 6 hrs, larvae L3    2 Cadmium 50 mM 12 hrs, larvae L3    2 Cadmium 50 mM 48 hrs, 4-day adult    2 Cadmium 100 mM 48 hrs, 4-day adult    3 Copper 0.5 mM 12 hrs, larvae L3    3 Copper 15 mM 48 hrs, 4-day adult    3 Zinc 5 mM 12 hrs, larvae L3    2 Zinc 4.5 mM 48 hrs, 4-day adult    5 Ethanol 2.5% 3 hrs, larvae L3    3 Ethanol 5% 3 hrs, larvae L3    1 Ethanol 10% 3 hrs, larvae L3    2 Caffeine 1.5 mg/ml 4 hrs, larvae L3    2 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    2 Caffeine 25 mg/ml 48 hrs, 4-day adult    2 Paraquat 5 mM 48 hrs, 4-day adult    4 Paraquat 10 mM 48 hrs, 4-day adult    5 Rotenone 2 μg 12 hrs, larvae L3    2 Rotenone 8 μg 12 hrs, larvae L3    2 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    2 Cadmium 50 mM 6 hrs, larvae L3    2 Cadmium 50 mM 12 hrs, larvae L3    2 Cadmium 50 mM 48 hrs, 4-day adult    2 Cadmium 100 mM 48 hrs, 4-day adult    3 Copper 0.5 mM 12 hrs, larvae L3    3 Copper 15 mM 48 hrs, 4-day adult    3 Zinc 5 mM 12 hrs, larvae L3    2 Zinc 4.5 mM 48 hrs, 4-day adult    5 Ethanol 2.5% 3 hrs, larvae L3    3 Ethanol 5% 3 hrs, larvae L3    1 Ethanol 10% 3 hrs, larvae L3    2 Caffeine 1.5 mg/ml 4 hrs, larvae L3    2 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    2 Caffeine 25 mg/ml 48 hrs, 4-day adult    2 Paraquat 5 mM 48 hrs, 4-day adult    4 Paraquat 10 mM 48 hrs, 4-day adult    5 Rotenone 2 μg 12 hrs, larvae L3    2 Rotenone 8 μg 12 hrs, larvae L3    2 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    2 Cadmium 50 mM 6 hrs, larvae L3    2 Cadmium 50 mM 12 hrs, larvae L3    2 Cadmium 50 mM 48 hrs, 4-day adult    2 Cadmium 100 mM 48 hrs, 4-day adult    3 Copper 0.5 mM 12 hrs, larvae L3    3 Copper 15 mM 48 hrs, 4-day adult    3 Zinc 5 mM 12 hrs, larvae L3    2 Zinc 4.5 mM 48 hrs, 4-day adult    5 Ethanol 2.5% 3 hrs, larvae L3    3 Ethanol 5% 3 hrs, larvae L3    1 Ethanol 10% 3 hrs, larvae L3    2 Caffeine 1.5 mg/ml 4 hrs, larvae L3    2 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    2 Caffeine 25 mg/ml 48 hrs, 4-day adult    2 Paraquat 5 mM 48 hrs, 4-day adult    4 Paraquat 10 mM 48 hrs, 4-day adult    5 Rotenone 2 μg 12 hrs, larvae L3    2 Rotenone 8 μg 12 hrs, larvae L3    2 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  Heatmap Treatment   Expression Level extended cold, 4-day adult     cold shock, 4-day adult     heat shock, 4-day adult     Cadmium 50 mM 6 hrs, larvae L3     Cadmium 50 mM 12 hrs, larvae L3     Cadmium 50 mM 48 hrs, 4-day adult     Cadmium 100 mM 48 hrs, 4-day adult     Copper 0.5 mM 12 hrs, larvae L3     Copper 15 mM 48 hrs, 4-day adult     Zinc 5 mM 12 hrs, larvae L3     Zinc 4.5 mM 48 hrs, 4-day adult     Ethanol 2.5% 3 hrs, larvae L3     Ethanol 5% 3 hrs, larvae L3     Ethanol 10% 3 hrs, larvae L3     Caffeine 1.5 mg/ml 4 hrs, larvae L3     Caffeine 2.5 mg/ml 48 hrs, 4-day adult     Caffeine 25 mg/ml 48 hrs, 4-day adult     Paraquat 5 mM 48 hrs, 4-day adult     Paraquat 10 mM 48 hrs, 4-day adult     Rotenone 2 μg 12 hrs, larvae L3     Rotenone 8 μg 12 hrs, larvae L3
Expression Clusters
	A cluster of genes with similar mRNA expression dynamics across development. (The modENCODE Consortium, 2010, Graveley et al., 2011) mE2_34_mRNA_expression_cluster_24 mE1_20_mRNA_expression_cluster_05
External Data & Images
Linkouts	BDGP expression data • LD05472 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0025360 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG18455-RA FlyExpress - Embryonic expression images (BDGP data) • Show all FlyExpress processed images for Optix Stages(s) 4-6 Stages(s) 7-8 Stages(s) 9-10 Stages(s) 11-12 Stages(s) 13-16
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele lethal | embryonic stage, with Scer\GAL4upd-E132 OptixScer\UAS.cSa Other Phenotypes Allele visible, with Scer\GAL4dpp.blk1 OptixScer\UAS.cSa Phenotype manifest in Allele adult head | anterior | medial, with Scer\GAL4dpp.blk1 OptixScer\UAS.cSa antenna, with Scer\GAL4dpp.blk1 OptixScer\UAS.cSa eye, with Scer\GAL4dpp.blk1 OptixScer\UAS.cSa eye, with Scer\GAL4GMR.PF OptixD-G.Scer\UAS OptixScer\UAS.cKb eye | ectopic, with Scer\GAL4dpp.blk1 OptixScer\UAS.cSa eye disc & neuron, with Scer\GAL4ey.PH OptixScer\UAS.cKb interocellar bristle | ectopic, with Scer\GAL4dpp.blk1 OptixScer\UAS.cSa ocellus | ectopic, with Scer\GAL4dpp.blk1 OptixScer\UAS.cSa ommatidium, with Scer\GAL4GMR.PF OptixD-G.Scer\UAS OptixScer\UAS.cKb
Classical Alleles ( 3 )
For All Classical Alleles Show
Allele of Optix Class Mutagen Stocks Known lesion Optixc01718 piggyBac transposase 2 -- Optixf04738 piggyBac transposase 1 -- Optixf06630 piggyBac transposase 1 --
Alleles Carried on Transgenic Constructs ( 6 )
For All Alleles Carried on Transgenic Constructs Show
Allele of Optix Class Mutagen Stocks Known lesion OptixScer\UAS.cSa in vitro construct - regulatory fusion 2 Yes OptixJF02199 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes OptixD-G.Scer\UAS in vitro construct - amino acid replacement 0 Yes OptixGD4476 in vitro construct - RNAi in vitro construct - regulatory fusion 0 Yes OptixNIG.18455R in vitro construct - RNAi in vitro construct - regulatory fusion 0 Yes OptixScer\UAS.cKb in vitro construct - regulatory fusion 0 Yes
Aneuploid Aberrations
Disrupted in	Df(2R)Exel6055 (Ryder, 2004.4.26)
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{GD4476} NA P{NIG.18455R} NA P{TRiP.JF02199} NA P{UAS-Optix.D-G} NA P{UAS-Optix.K} NA P{UAS-Optix.S} NA
Insertions
	Type of insertions Name Expression data miscellaneous insertions PBac{PB}Optixc01718 NA PBac{WH}Optixf04738 NA PBac{WH}Optixf06630 NA
Gene Ontology: Function, Process & Cellular Component ( 8 unique terms )
Terms Based on Experimental Evidence ( 4 terms )
Molecular Function
CV term Evidence References
sequence-specific DNA binding inferred from direct assay (Noyes et al., 2008)
Biological Process
CV term Evidence References
compound eye development inferred from expression pattern (Toy et al., 1998) compound eye morphogenesis inferred from mutant phenotype (Kenyon et al., 2005) compound eye photoreceptor cell differentiation inferred from mutant phenotype (Kenyon et al., 2005)
Cellular Component ( 0 terms)
Terms Based on Predictions or Assertions ( 5 terms )
Molecular Function
CV term Evidence References
DNA binding inferred from sequence or structural similarity with UniProtKB:O95343 (assigned by UniProtKB) (Swiss-Prot Project Members, 2002.6.15) sequence-specific DNA binding transcription factor activity inferred from electronic annotation with InterPro:IPR001356 (FlyBase Curators et al., 2004-) non-traceable author statement (Seo, 1998.10.17)
Biological Process
CV term Evidence References
compound eye development non-traceable author statement (Seo et al., 1999) regulation of transcription, DNA-dependent inferred from electronic annotation with InterPro:IPR001356, InterPro:IPR012287 (FlyBase Curators et al., 2004-) non-traceable author statement (Seo, 1998.10.17)
Cellular Component
CV term Evidence References
nucleus inferred from sequence or structural similarity with UniProtKB:O95343 (assigned by UniProtKB) (Swiss-Prot Project Members, 2002.6.15) non-traceable author statement (Seo, 1998.10.17)
Sequence Ontology: Class of Gene
	gene_with_stop_codon_read_through (Jungreis et al., 2011) nuclear_gene   protein_coding_gene
Interactions & Pathways
Summary of Physical Interactions
protein-protein
Interacting group Assay References
Optix - AP-1μ anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - Arf79F anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - Atx2 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - Bap55 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - CG11266 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - CG13472 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - CG1785 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - CG2972 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - CG32344 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - CG4364 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - CG4611 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - CG6701 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - CG6937 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - CG7920 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - CG8478 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - Dbp73D anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - Dp1 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - Droj2 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - EfTuM anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - Gale anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - Imp anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - Ip259 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - Jra anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - Map205 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - Ns1 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - Nurf-38 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - OstStt3 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - REG anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - Rab39 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - Rcd5 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - Srp54 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - Srp68 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - Srp72 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - Tom20 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - Vps4 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - Zn72D anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - eIF-2β anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - flw anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - how anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - me31B anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - mod(mdg4) anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - msn anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - nop5 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Optix - tws 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 Optix allele Gene References OptixScer\UAS.cSa ey (Seimiya and Gehring, 2000)
External Data
Linkouts	BioGRID - A database of protein and genetic interactions • 68835 DPiM - DPiM, Drosophila Protein interaction Map • FBgn0025360 DroID - A comprehensive database of gene and protein interactions. • FBgn0025360 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 44108
Orthologs
OrthoDB Orthologs (98) - 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 EOG602XC1 Dipteran inclusive ortholog search EOG6DZ23T Insect inclusive ortholog search EOG6MW72T Arthropod inclusive ortholog search EOG6V15GF Metazoa inclusive ortholog search EOG6CK79J
Orthologs in Drosophila Species (EOG602XC1)
Organism Common Name Gene AAA Syntenic Ortholog Multiple Dmel Genes in this Orthologous Group Drosophila melanogaster fruit fly  Dmel\Optix     Drosophila simulans   Dsim\GD10533     Drosophila sechellia   Dsec\GM21001 Y   Drosophila erecta   Dere\GG23326 Y   Drosophila yakuba   Dyak\GE19170 Y   Drosophila ananassae   Dana\GF13656 Y   Drosophila pseudoobscura pseudoobscura   Dpse\GA14941 Y   Drosophila persimilis   Dper\GL11483 Y   Drosophila willistoni   Dwil\GK23166 Y   Drosophila virilis   Dvir\GJ22125 Y   Drosophila mojavensis   Dmoj\GI19347 Y   Drosophila grimshawi   Dgri\GH21899 Y
Orthologs in non-Drosophila Dipterans (EOG6DZ23T)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Aedes aegypti Yellow fever mosquito  Aaeg\AAEL000414   Anopheles gambiae Malaria mosquito  Agam\AGAP003871   Culex quinquefasciatus Southern house mosquito  Cqui\CPIJ018547
Orthologs in non-Dipteran Insects (EOG6MW72T)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Apis mellifera Western honey bee  Amel\GB55286 Y Apis mellifera Western honey bee  Amel\GB49751 Y Apis mellifera Western honey bee  Amel\GB42027 Y Nasonia vitripennis Parasitic wasp  Nvit\Nasvi2EG005169 Y Nasonia vitripennis Parasitic wasp  Nvit\Nasvi2EG004372 Y Nasonia vitripennis Parasitic wasp  Nvit\Nasvi2EG002986 Y Acromyrmex echinatior Panamanian leafcutter ant  Aech\AECH13271 Y Acromyrmex echinatior Panamanian leafcutter ant  Aech\AECH11076 Y Acromyrmex echinatior Panamanian leafcutter ant  Aech\AECH19217 Y Atta cephalotes Leafcutter ant  Acep\ACEP25518 Y Atta cephalotes Leafcutter ant  Acep\ACEP26590 Y Atta cephalotes Leafcutter ant  Acep\ACEP19966 Y Camponotus floridanus Florida carpenter ant  Cflo\CFLO20390 Y Camponotus floridanus Florida carpenter ant  Cflo\CFLO14959 Y Camponotus floridanus Florida carpenter ant  Cflo\CFLO21773 Y Harpegnathos saltator Jerdons jumping ant  Hsal\HSAL15779 Y Harpegnathos saltator Jerdons jumping ant  Hsal\HSAL17242 Y Harpegnathos saltator Jerdons jumping ant  Hsal\HSAL16643 Y Linepithema humile Argentine ant  Lhum\LH20891 Y Linepithema humile Argentine ant  Lhum\LH17942 Y Linepithema humile Argentine ant  Lhum\LH12334 Y Pogonomyrmex barbatus Red harvester ant  Pbar\PB23345 Y Pogonomyrmex barbatus Red harvester ant  Pbar\PB23222 Y Pogonomyrmex barbatus Red harvester ant  Pbar\PB25940 Y Solenopsis invicta Red fire ant  Sinv\SINV15566 Y Solenopsis invicta Red fire ant  Sinv\SINV23383 Y Solenopsis invicta Red fire ant  Sinv\SINV23469 Y Acyrthosiphon pisum Pea aphid  Apim\ACYPI000853 Y Acyrthosiphon pisum Pea aphid  Apim\ACYPI010082 Y Acyrthosiphon pisum Pea aphid  Apim\ACYPI001400 Y Bombyx mori Silkmoth  Bmor\BGIBMGA011285 Y Bombyx mori Silkmoth  Bmor\BGIBMGA000091 Y Pediculus humanus Human body louse  Phum\PHUM363270 Y Pediculus humanus Human body louse  Phum\PHUM515180 Y Pediculus humanus Human body louse  Phum\PHUM338410 Y Tribolium castaneum Red flour beetle  Tcas\So Y Tribolium castaneum Red flour beetle  Tcas\six4 Y Tribolium castaneum Red flour beetle  Tcas\Optix Y
Orthologs in non-Insect Arthropods (EOG6V15GF)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Daphnia pulex Water flea  Dpux\JGI_V11_107399 Y Daphnia pulex Water flea  Dpux\JGI_V11_14338 Y Daphnia pulex Water flea  Dpux\TLR3 Y Ixodes scapularis Deer tick  Isca\ISCW023235 Y Ixodes scapularis Deer tick  Isca\ISCW007609 Y
Orthologs in non-Arthropod Metazoa (EOG6CK79J)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Caenorhabditis elegans Nematode  Cele\ceh-32 Y Caenorhabditis elegans Nematode  Cele\ceh-33 Y Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_017380gn Y Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_017379gn Y Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_018908gn Y Danio rerio Zebrafish  Drer\six6a Y Danio rerio Zebrafish  Drer\six4b Y Danio rerio Zebrafish  Drer\six7 Y Danio rerio Zebrafish  Drer\six1b Y Danio rerio Zebrafish  Drer\six6b Y Danio rerio Zebrafish  Drer\six3b Y Danio rerio Zebrafish  Drer\six2b Y Danio rerio Zebrafish  Drer\six1a Y Danio rerio Zebrafish  Drer\six2a Y Danio rerio Zebrafish  Drer\six3a Y Danio rerio Zebrafish  Drer\six4.3 Y Danio rerio Zebrafish  Drer\six9 Y Xenopus tropicalis Western clawed frog  Xtro\six6 Y Xenopus tropicalis Western clawed frog  Xtro\six1 Y Xenopus tropicalis Western clawed frog  Xtro\six4 Y Xenopus tropicalis Western clawed frog  Xtro\six3 Y Xenopus tropicalis Western clawed frog  Xtro\six2 Y Gallus gallus Domestic chicken  Ggal\SIX6 Y Gallus gallus Domestic chicken  Ggal\Gga.334 Y Mus musculus House mouse  Mmus\Six1 Y Mus musculus House mouse  Mmus\Six3 Y Mus musculus House mouse  Mmus\Six3 Y Mus musculus House mouse  Mmus\Six6 Y Mus musculus House mouse  Mmus\ENSMUSG00000034460 Y Mus musculus House mouse  Mmus\Six2 Y Rattus norvegicus Norway rat  Rnor\Six4 Y Rattus norvegicus Norway rat  Rnor\Six6 Y Rattus norvegicus Norway rat  Rnor\Six3 Y Rattus norvegicus Norway rat  Rnor\Six2 Y Rattus norvegicus Norway rat  Rnor\Six1 Y Homo sapiens Human  Hsap\SIX4 Y Homo sapiens Human  Hsap\SIX3 Y Homo sapiens Human  Hsap\SIX2 Y Homo sapiens Human  Hsap\SIX6 Y Homo sapiens Human  Hsap\SIX1 Y
Human Orthologs (5)
Gene OMIM HGNC Hsap\SIX4     Hsap\SIX3     Hsap\SIX2     Hsap\SIX6     Hsap\SIX1
AAA Orthologs (10) based on analysis using Dmel annotation version 4.3
Organism Gene Drosophila sechellia Dsec\GM21001 Drosophila erecta Dere\GG23326 Drosophila yakuba Dyak\GE19170 Drosophila ananassae Dana\GF13656 Drosophila pseudoobscura pseudoobscura Dpse\GA14941 Drosophila persimilis Dper\GL11483 Drosophila willistoni Dwil\GK23166 Drosophila virilis Dvir\GJ22125 Drosophila mojavensis Dmoj\GI19347 Drosophila grimshawi Dgri\GH21899
Stocks & Reagents
Stocks Listed in FlyBase ( 7 )
Bloomington	26806 y1 w*; P{UAS-Optix.S}1 26807 y1 w*; P{UAS-Optix.S}4/CyO 31910 y1 v1; P{TRiP.JF02199}attP2 10716 w1118; PBac{PB}Optixc01718/CyO
Harvard	- PBac{PB}Optixc01718 - PBac{WH}Optixf04738 - PBac{WH}Optixf06630
Genomic Clones ( 1 )
	BACR38O04 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 11 )
	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	AT21608 LD05472
Other clones	DPiM_LD05472
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	GH22421 RH47807
Other clones	277123 GH04859 IP04780 RP004247305 RP004268486 RP004269527
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0025360 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 44108
Antibody Information
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of
Source for database merge of	Source for merge of: Optix anon-WO0153538.79 (FlyBase, 1996-) Source for merge of: Optix CG18455 (Misra, 2000.4.6) Source for merge of: Optix Six3 (FlyBase, 1996-)
Additional comments	Source for merge of Optix anon-WO0153538.79 was sequence comparison (date:051113). (FlyBase, 1996-) Source for merge of Optix Six3 was sequence comparison (date:000202). (FlyBase, 1996-)
Other Comments
	Optix induces expression of dac. (Anderson et al., 2006) One of 42 Drosophila genes identified as being most likely to reveal molecular and cellular mechanisms of nervous system development or plasticity relevant to human Mental Retardation disorders. (Inlow and Restifo, 2004) Optix functions during eye development. (Seimiya and Gehring, 2000) Overexpression of Optix is sufficient to induce properly formed eye structures in the antennal disc. (Seimiya and Gehring, 2000)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_079956 NM_165584 NM_001273864 RefSeq (Proteins) • NP_524695 NP_724640 NP_001260793 DDBJ / EMBL / GenBank • AA246601 AAC33852 AAD39863 AAF59147 AAF59147.3 AAL28625 AAM68882 AAM68882.1 AF050132 AF099184 AGB93326 AW941591 AX201695 AY061077 BF486983 CZ467390 CZ487294 CZ489330 CZ489331 Entrez Gene - A searchable database of RefSeq genes. • 44108 UniProtKB/Swiss-Prot • Q95RW8
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • Homeodomain (IPR001356) Homeodomain-like (IPR009057) BDGP expression data - Patterns of gene expression in Drosophila embryogenesis • LD05472
Linkouts
	BioGRID - A database of protein and genetic interactions • 68835 DPiM - DPiM, Drosophila Protein interaction Map • FBgn0025360 DroID - A comprehensive database of gene and protein interactions. • FBgn0025360 DRSC - Results from RNAi screens. • FBgn0025360 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0025360 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG18455-RA FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0025360 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 44108 Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution • /hjmuller/optix1.htm InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 44108 modMine - Data generated by the modENCODE project. • FBgn0025360 REDfly - A database of transcriptional regulatory elements. • FBgn0025360
Synonyms & Secondary IDs ( 11 )
Reported As
Symbol Synonym	anon-WO0153538.79   CG18455 (Gisselbrecht, 2000.3.30, Whitfield, 2000.5.10, Datta et al., 2011, Perkins et al., 2009, Seinen et al., 2010) D-Six3 (Kawakami et al., 2000, Seo et al., 1999) Dsix3 (Seimiya and Gehring, 2000) opt (Baker, 2001, Singh et al., 2006) optix (Kumar and Weasner, 2005, Pichaud and Desplan, 2002, Mitashov and Koussulakos, 2001, Plaza et al., 2001, Hodin, 2000, Seimiya and Gehring, 2000, Treisman, 1999, Seimiya and Gehring, 1999, Seimiya and Gehring, 1999, Toy et al., 1998, Kumar and Luhur, 2007, Kumar and Salzer, 2007, Kumar and Datta, 2007, Kumar and Weasner, 2007, Kumar and Henderson, 2007, Fernald, 2006, Anderson et al., 2006, Friedrich, 2006, Weasner and Kumar, 2009, Henderson and Kumar, 2008, Anderson and Kumar, 2008, Coiffier et al., 2008, Salzer and Kumar, 2010) Optix (Reiter et al., 2007, Aerts et al., 2007, Li et al., 2008, Datta et al., 2011, Jungreis et al., 2011, Noyes et al., 2008, Fang et al., 2009, Ostrin et al., 2006, Fernández-Ayala et al., 2010, Cherbas et al., 2011, Japanese National Institute of Genetics, 2012.5.21, Anderson et al., 2012, Nfonsam et al., 2012) OPTIX (Weasner and Kumar, 2008) opx (Fic et al., 2007) Six3 (Seo, 1998.10.17, ) six3 (Steinmetz et al., 2010)
Name Synonym	Optix (Fic et al., 2007, Ostrin et al., 2006, Aerts et al., 2010) optix (Weasner and Kumar, 2009, Wang et al., 2007, Steinmetz et al., 2010, Weasner et al., 2007, Salzer et al., 2010)
Secondary FlyBase IDs
	FBgn0027365 FBgn0033251 FBgn0045871
References ( 80 )
Generate a list of	All references relating to this gene ( 80 )
List References by type	Research paper  ( 33 ) Supplementary material  ( 4 ) Review  ( 9 ) Personal communication to FlyBase  ( 12 ) Abstract  ( 15 ) FlyBase analysis  ( 2 ) DNA/RNA sequence record  ( 1 ) Stock list  ( 1 ) Protein sequence record  ( 1 ) Website  ( 1 ) Patent  ( 1 )
Recent research papers ( 5 )
	Anderson et al., 2012, Development 139(5): 991--1000 Dual transcriptional activities of SIX proteins define their roles in normal and ectopic eye development. [FBrf0217457] Nfonsam et al., 2012, PLoS ONE 7(8): e44583 Analysis of the Transcriptomes Downstream of Eyeless and the Hedgehog, Decapentaplegic and Notch Signaling Pathways in Drosophila melanogaster. [FBrf0219414] Sorge et al., 2012, EMBO J. 31(15): 3323--3333 The cis-regulatory code of Hox function in Drosophila. [FBrf0219096] Cherbas et al., 2011, Genome Res. 21(2): 301--314 The transcriptional diversity of 25 Drosophila cell lines. [FBrf0213077] Datta et al., 2011, Evol. Dev. 13(1): 58--71 Differential selection within the Drosophila retinal determination network and evidence for functional divergence between paralog pairs. [FBrf0212714] Show all research papers ...
Recent reviews (0)
	All reviews listed in FlyBase were published before 2011 Show reviews ...