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Gene Dmel\fd59A

General Information
Symbol	Dmel\fd59A	Species	D. melanogaster
Name	forkhead domain 59A	Annotation symbol	CG3668
Feature type	protein_coding_gene	FlyBase ID	FBgn0004896
Gene Model Status	Current	Stock availability	2 publicly available
Also Known As	FD3
Genomic Location
Chromosome (arm)	2R	Recombination map
Cytogenetic map	59B4-59B4	Sequence location	2R:18,754,044..18,758,229 [+]
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 forkhead domain 59A is referred to in FlyBase by the symbol Dmel\fd59A (CG3668, FBgn0004896). It is a protein_coding_gene from Drosophila melanogaster. Based on sequence similarity, it is predicted to have molecular function: sequence-specific DNA binding transcription factor activity. Based on sequence similarity, it is predicted to be involved in the biological process: regulation of transcription from RNA polymerase II promoter. 3 alleles are reported. No phenotypic data is available. It has one annotated transcript and one annotated polypeptide. Protein features are: Transcription factor, fork head; Transcription factor, fork head, conserved site; Winged helix-turn-helix transcription repressor DNA-binding domain. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of low expression to a trough of extremely low expression. Peak expression observed within 06-18 hour embryonic stages, during early pupal stages. Summary of FlyAtlas Anatomical Expression Data: Expression at moderate levels in the following post-embryonic organs or tissues: larval/adult central nervous system. Comments on Affy2 ProbeSet: ProbeSet 1625779_at completely aligns to an exonic region of the only FlyBase-annotated transcript isoform of fd59A. Gene sequence location is 2R:18754044..18758229.
User Contributed Data
	Beta version, feedback welcome
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	Controlled Vocabulary Terms axon extension involved in axon guidance sympathetic nervous system development tissue development regulation of sequence-specific DNA binding transcription factor activity RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity double-stranded DNA binding negative regulation of transcription from RNA polymerase II promoter pattern specification process enteric nervous system development positive regulation of transcription from RNA polymerase II promoter transcription factor complex lateral line nerve glial cell development peripheral nervous system development transcription factor binding DNA binding, bending
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 59B4-59B4   Limits computationally determined from genome sequence between P{PZ}blw03972 and P{EP}EP627
Experimentally Determined Cytological Location
Cytogenetic map Notes References 59A-59A   (determined by in situ hybridisation)   (Hacker et al., 1992)
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\fd59A for information on other features To submit a correction to a gene model please use the Contact FlyBase form
Comments on Gene Model
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) fd59A-RA FBtr0071898  NM_079090   3866   456
Additional Transcript Data & Comments
Reported size (kB)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kDa) Length (aa) Theoretical pI RefSeq ID GenBank protein fd59A-PA   FBpp0071809   49.1   456   5.19     NP_523814   AAF46917
Additional Polypeptide Data & Comments
Reported size (kDa)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Transcription factor, fork head, conserved site (IPR018122) Transcription factor, fork head (IPR001766) Winged helix-turn-helix DNA-binding domain (IPR011991)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AE013599 AAF46917   AI531711   AI532522   AI532534   AW944271   AY084204 AAL89942   BT025198   M96442 AAA28534
UniProtKB/Swiss-Prot	Q02361
UniProtKB/TrEMBL
Mapped Features
Mapped Features have been reorganized, please see this article for details. Additional mapped features and mutations can be found on GBrowse or related reports. Type Symbol & Location Additional Notes References
External Data
Linkouts
Crossreferences
Expression Data
Transcript Expression
No Assay Recorded Stage Tissue/Position (including subcellular localization) Reference embryonic stage   ventral midline   (Hacker et al., 1992) embryonic brain   (Hacker et al., 1992) in situ Stage Tissue/Position (including subcellular localization) Reference embryonic stage   embryonic/larval thoracic sensillum | precursor   (Hacker et al., 1992) neuroblast   (Hacker et al., 1992) embryonic stage 9 -- 10   central brain primordium   (Fisher et al., 2012) embryonic stage 11 -- 12   central brain primordium   (Fisher et al., 2012) embryonic stage 13 -- 16   mushroom body primordium   (Fisher et al., 2012) Comment:reported as embryonic central brain mushroom body ventral nerve cord   (Fisher et al., 2012)
Additional Descriptive Data
	fd59A transcripts are first expressed in germ band extended embryos in small clusters of cells that are probably neuroblasts derived from the procephalic neurogenic region and in a subset of precursors to the ventral nervous system. Later, they accumulate in segmentally repeated rows of cells in the ventral nervous system, in a subset of midline cells, prominently in a pair of thoracic sensory organs, and in a subpattern of brain cells. The transcripts are at very low abundance. (Hacker et al., 1992)
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: larval/adult central nervous system. [download data (TSV)] Guide to FlyAtlas expression level colors   No expression (0 - 9.999)   Low expression (10 - 99.999)   Moderate expression (100 - 499.999)   High level expression (500 - 999.999)   Very high expression (>999.999) Linear, scaled to maximum expression level Tissue   Expression Level Larval Central Nervous System    179.8 Larval Midgut    3.5 Larval Hindgut    0.4 Larval Malpighian Tubules    0.9 Larval Fat Body    6.3 Larval Salivary Gland    1.8 Larval Trachea    2 Larval Carcass    3.85 Adult Head    38.2 Adult Eye    10.625 Adult Brain    186.8 Adult Thoracic-Abdominal Ganglion    15 Adult Crop    3.1 Adult Midgut    1.5 Adult Hindgut    2.4 Adult Malpighian Tubules    4.3 Adult Fat Body    2 Adult Salivary Gland    4.3 Adult Heart    2.625 Adult VirginFemale Spermatheca    0.9 Adult InseminatedFemale Spermatheca    3.5 Adult Ovary    0.8 Adult Testis    1.9 Adult Male Accessory Gland    2.2 Adult Carcass    4.1 Expression Level Scale  None   Low   Moderate  Linear, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    179.8 Larval Midgut    3.5 Larval Hindgut    0.4 Larval Malpighian Tubules    0.9 Larval Fat Body    6.3 Larval Salivary Gland    1.8 Larval Trachea    2 Larval Carcass    3.85 Adult Head    38.2 Adult Eye    10.625 Adult Brain    186.8 Adult Thoracic-Abdominal Ganglion    15 Adult Crop    3.1 Adult Midgut    1.5 Adult Hindgut    2.4 Adult Malpighian Tubules    4.3 Adult Fat Body    2 Adult Salivary Gland    4.3 Adult Heart    2.625 Adult VirginFemale Spermatheca    0.9 Adult InseminatedFemale Spermatheca    3.5 Adult Ovary    0.8 Adult Testis    1.9 Adult Male Accessory Gland    2.2 Adult Carcass    4.1 Expression Level Scale  None   Low   Moderate   High  Linear, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    179.8 Larval Midgut    3.5 Larval Hindgut    0.4 Larval Malpighian Tubules    0.9 Larval Fat Body    6.3 Larval Salivary Gland    1.8 Larval Trachea    2 Larval Carcass    3.85 Adult Head    38.2 Adult Eye    10.625 Adult Brain    186.8 Adult Thoracic-Abdominal Ganglion    15 Adult Crop    3.1 Adult Midgut    1.5 Adult Hindgut    2.4 Adult Malpighian Tubules    4.3 Adult Fat Body    2 Adult Salivary Gland    4.3 Adult Heart    2.625 Adult VirginFemale Spermatheca    0.9 Adult InseminatedFemale Spermatheca    3.5 Adult Ovary    0.8 Adult Testis    1.9 Adult Male Accessory Gland    2.2 Adult Carcass    4.1 Expression Level Scale  None   Low   Moderate   High   Very high  Linear, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    179.8 Larval Midgut    3.5 Larval Hindgut    0.4 Larval Malpighian Tubules    0.9 Larval Fat Body    6.3 Larval Salivary Gland    1.8 Larval Trachea    2 Larval Carcass    3.85 Adult Head    38.2 Adult Eye    10.625 Adult Brain    186.8 Adult Thoracic-Abdominal Ganglion    15 Adult Crop    3.1 Adult Midgut    1.5 Adult Hindgut    2.4 Adult Malpighian Tubules    4.3 Adult Fat Body    2 Adult Salivary Gland    4.3 Adult Heart    2.625 Adult VirginFemale Spermatheca    0.9 Adult InseminatedFemale Spermatheca    3.5 Adult Ovary    0.8 Adult Testis    1.9 Adult Male Accessory Gland    2.2 Adult Carcass    4.1 Expression Level Scale  Very high  log, scaled to maximum expression level Tissue   Expression Level Larval Central Nervous System    179.8 Larval Midgut    3.5 Larval Hindgut    0.4 Larval Malpighian Tubules    0.9 Larval Fat Body    6.3 Larval Salivary Gland    1.8 Larval Trachea    2 Larval Carcass    3.85 Adult Head    38.2 Adult Eye    10.625 Adult Brain    186.8 Adult Thoracic-Abdominal Ganglion    15 Adult Crop    3.1 Adult Midgut    1.5 Adult Hindgut    2.4 Adult Malpighian Tubules    4.3 Adult Fat Body    2 Adult Salivary Gland    4.3 Adult Heart    2.625 Adult VirginFemale Spermatheca    0.9 Adult InseminatedFemale Spermatheca    3.5 Adult Ovary    0.8 Adult Testis    1.9 Adult Male Accessory Gland    2.2 Adult Carcass    4.1 Expression Level Scale  None   Low   Moderate  log, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    179.8 Larval Midgut    3.5 Larval Hindgut    0.4 Larval Malpighian Tubules    0.9 Larval Fat Body    6.3 Larval Salivary Gland    1.8 Larval Trachea    2 Larval Carcass    3.85 Adult Head    38.2 Adult Eye    10.625 Adult Brain    186.8 Adult Thoracic-Abdominal Ganglion    15 Adult Crop    3.1 Adult Midgut    1.5 Adult Hindgut    2.4 Adult Malpighian Tubules    4.3 Adult Fat Body    2 Adult Salivary Gland    4.3 Adult Heart    2.625 Adult VirginFemale Spermatheca    0.9 Adult InseminatedFemale Spermatheca    3.5 Adult Ovary    0.8 Adult Testis    1.9 Adult Male Accessory Gland    2.2 Adult Carcass    4.1 Expression Level Scale  None   Low   Moderate   High  log, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    179.8 Larval Midgut    3.5 Larval Hindgut    0.4 Larval Malpighian Tubules    0.9 Larval Fat Body    6.3 Larval Salivary Gland    1.8 Larval Trachea    2 Larval Carcass    3.85 Adult Head    38.2 Adult Eye    10.625 Adult Brain    186.8 Adult Thoracic-Abdominal Ganglion    15 Adult Crop    3.1 Adult Midgut    1.5 Adult Hindgut    2.4 Adult Malpighian Tubules    4.3 Adult Fat Body    2 Adult Salivary Gland    4.3 Adult Heart    2.625 Adult VirginFemale Spermatheca    0.9 Adult InseminatedFemale Spermatheca    3.5 Adult Ovary    0.8 Adult Testis    1.9 Adult Male Accessory Gland    2.2 Adult Carcass    4.1 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    179.8 Larval Midgut    3.5 Larval Hindgut    0.4 Larval Malpighian Tubules    0.9 Larval Fat Body    6.3 Larval Salivary Gland    1.8 Larval Trachea    2 Larval Carcass    3.85 Adult Head    38.2 Adult Eye    10.625 Adult Brain    186.8 Adult Thoracic-Abdominal Ganglion    15 Adult Crop    3.1 Adult Midgut    1.5 Adult Hindgut    2.4 Adult Malpighian Tubules    4.3 Adult Fat Body    2 Adult Salivary Gland    4.3 Adult Heart    2.625 Adult VirginFemale Spermatheca    0.9 Adult InseminatedFemale Spermatheca    3.5 Adult Ovary    0.8 Adult Testis    1.9 Adult Male Accessory Gland    2.2 Adult Carcass    4.1 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    38.2   NA  Eye    no informative data   NA  Brain    186.8   179.8  Central Nervous System    NA   NA  Thoracic-Abdominal Ganglion    15   NA  Crop    3.1   3.5  Midgut    1.5   0.4  Hindgut    2.4   0.9  Malpighian Tubules    4.3   6.3  Fat Body    2   1.8  Salivary Gland    4.3   NA  Heart    2.625   2  Trachea    NA   NA  VirginFemale Spermatheca    0.9   NA  InseminatedFemale Spermatheca    3.5   NA  Ovary    0.8   NA  Testis    1.9   NA  Male Accessory Gland    2.2   3.85  Carcass    4.1 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    1 central nervous system, larvae L3    13 central nervous system, pupae P8    8 head, virgin 1-day female    4 head, virgin 4-day female    3 head, virgin 20-day female    2 head, mated 1-day female    2 head, mated 4-day female    3 head, mated 20-day female    1 head, mated 1-day male    5 head, mated 4-day male    5 head, mated 20-day male    4 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    0 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    0 fat body, pupae P8    4 carcass, larvae L3 wandering    2 carcass, 1-day adult    0 carcass, 4-day adult    0 carcass, 20-day adult    0 ovary, virgin 4-day female    0 ovary, mated 4-day female    0 testis, mated 4-day male    0 accessory gland, mated 4-day male    1 Expression Level Scale  Very low   Low   Moderate  Linear, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering    1 central nervous system, larvae L3    13 central nervous system, pupae P8    8 head, virgin 1-day female    4 head, virgin 4-day female    3 head, virgin 20-day female    2 head, mated 1-day female    2 head, mated 4-day female    3 head, mated 20-day female    1 head, mated 1-day male    5 head, mated 4-day male    5 head, mated 20-day male    4 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    0 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    0 fat body, pupae P8    4 carcass, larvae L3 wandering    2 carcass, 1-day adult    0 carcass, 4-day adult    0 carcass, 20-day adult    0 ovary, virgin 4-day female    0 ovary, mated 4-day female    0 testis, mated 4-day male    0 accessory gland, mated 4-day male    1 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    1 central nervous system, larvae L3    13 central nervous system, pupae P8    8 head, virgin 1-day female    4 head, virgin 4-day female    3 head, virgin 20-day female    2 head, mated 1-day female    2 head, mated 4-day female    3 head, mated 20-day female    1 head, mated 1-day male    5 head, mated 4-day male    5 head, mated 20-day male    4 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    0 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    0 fat body, pupae P8    4 carcass, larvae L3 wandering    2 carcass, 1-day adult    0 carcass, 4-day adult    0 carcass, 20-day adult    0 ovary, virgin 4-day female    0 ovary, mated 4-day female    0 testis, mated 4-day male    0 accessory gland, mated 4-day male    1 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    1 central nervous system, larvae L3    13 central nervous system, pupae P8    8 head, virgin 1-day female    4 head, virgin 4-day female    3 head, virgin 20-day female    2 head, mated 1-day female    2 head, mated 4-day female    3 head, mated 20-day female    1 head, mated 1-day male    5 head, mated 4-day male    5 head, mated 20-day male    4 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    0 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    0 fat body, pupae P8    4 carcass, larvae L3 wandering    2 carcass, 1-day adult    0 carcass, 4-day adult    0 carcass, 20-day adult    0 ovary, virgin 4-day female    0 ovary, mated 4-day female    0 testis, mated 4-day male    0 accessory gland, mated 4-day male    1 Expression Level Scale  Extremely high  log, scaled to maximum expression level Tissue   Expression Level imaginal disc, larvae L3 wandering    1 central nervous system, larvae L3    13 central nervous system, pupae P8    8 head, virgin 1-day female    4 head, virgin 4-day female    3 head, virgin 20-day female    2 head, mated 1-day female    2 head, mated 4-day female    3 head, mated 20-day female    1 head, mated 1-day male    5 head, mated 4-day male    5 head, mated 20-day male    4 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    0 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    0 fat body, pupae P8    4 carcass, larvae L3 wandering    2 carcass, 1-day adult    0 carcass, 4-day adult    0 carcass, 20-day adult    0 ovary, virgin 4-day female    0 ovary, mated 4-day female    0 testis, mated 4-day male    0 accessory gland, mated 4-day male    1 Expression Level Scale  Very low   Low   Moderate  log, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering    1 central nervous system, larvae L3    13 central nervous system, pupae P8    8 head, virgin 1-day female    4 head, virgin 4-day female    3 head, virgin 20-day female    2 head, mated 1-day female    2 head, mated 4-day female    3 head, mated 20-day female    1 head, mated 1-day male    5 head, mated 4-day male    5 head, mated 20-day male    4 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    0 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    0 fat body, pupae P8    4 carcass, larvae L3 wandering    2 carcass, 1-day adult    0 carcass, 4-day adult    0 carcass, 20-day adult    0 ovary, virgin 4-day female    0 ovary, mated 4-day female    0 testis, mated 4-day male    0 accessory gland, mated 4-day male    1 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    1 central nervous system, larvae L3    13 central nervous system, pupae P8    8 head, virgin 1-day female    4 head, virgin 4-day female    3 head, virgin 20-day female    2 head, mated 1-day female    2 head, mated 4-day female    3 head, mated 20-day female    1 head, mated 1-day male    5 head, mated 4-day male    5 head, mated 20-day male    4 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    0 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    0 fat body, pupae P8    4 carcass, larvae L3 wandering    2 carcass, 1-day adult    0 carcass, 4-day adult    0 carcass, 20-day adult    0 ovary, virgin 4-day female    0 ovary, mated 4-day female    0 testis, mated 4-day male    0 accessory gland, mated 4-day male    1 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    1 central nervous system, larvae L3    13 central nervous system, pupae P8    8 head, virgin 1-day female    4 head, virgin 4-day female    3 head, virgin 20-day female    2 head, mated 1-day female    2 head, mated 4-day female    3 head, mated 20-day female    1 head, mated 1-day male    5 head, mated 4-day male    5 head, mated 20-day male    4 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    0 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    0 fat body, pupae P8    4 carcass, larvae L3 wandering    2 carcass, 1-day adult    0 carcass, 4-day adult    0 carcass, 20-day adult    0 ovary, virgin 4-day female    0 ovary, mated 4-day female    0 testis, mated 4-day male    0 accessory gland, mated 4-day male    1 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 low expression to a trough of extremely low expression. Peak expression observed within 06-18 hour embryonic stages, during early pupal stages. [download data (TSV)] Guide to modENCODE expression level colors   No/Extremely low expression (0 - 0)   Very low expression (1 - 3)   Low expression (4 - 10)   Moderate expression (11 - 25)   Moderately high expression (26 - 50)   High expression (51 - 100)   Very high expression (101 - 1000)   Extremely high expression (>1000) Linear, scaled to maximum expression level Developmental Stage   Expression Level embryo 00-02hr    0 embryo 02-04hr    0 embryo 04-06hr    0 embryo 06-08hr    0 embryo 08-10hr    1 embryo 10-12hr    2 embryo 12-14hr    2 embryo 14-16hr    1 embryo 16-18hr    1 embryo 18-20hr    1 embryo 20-22hr    1 embryo 22-24hr    1 larva L1    1 larva L2    0 larva L3 12hr old    0 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    1 larva L3 puffstage 7-9    1 white prepupae new    1 white prepupae 12hr    2 white prepupae 24hr    1 pupae 2d postWPP    1 pupae 3d postWPP    1 pupae 4d postWPP    0 adult male 01day    0 adult male 05day    1 adult male 30day    0 adult female 01day    0 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    0 embryo 04-06hr    0 embryo 06-08hr    0 embryo 08-10hr    1 embryo 10-12hr    2 embryo 12-14hr    2 embryo 14-16hr    1 embryo 16-18hr    1 embryo 18-20hr    1 embryo 20-22hr    1 embryo 22-24hr    1 larva L1    1 larva L2    0 larva L3 12hr old    0 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    1 larva L3 puffstage 7-9    1 white prepupae new    1 white prepupae 12hr    2 white prepupae 24hr    1 pupae 2d postWPP    1 pupae 3d postWPP    1 pupae 4d postWPP    0 adult male 01day    0 adult male 05day    1 adult male 30day    0 adult female 01day    0 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    0 embryo 04-06hr    0 embryo 06-08hr    0 embryo 08-10hr    1 embryo 10-12hr    2 embryo 12-14hr    2 embryo 14-16hr    1 embryo 16-18hr    1 embryo 18-20hr    1 embryo 20-22hr    1 embryo 22-24hr    1 larva L1    1 larva L2    0 larva L3 12hr old    0 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    1 larva L3 puffstage 7-9    1 white prepupae new    1 white prepupae 12hr    2 white prepupae 24hr    1 pupae 2d postWPP    1 pupae 3d postWPP    1 pupae 4d postWPP    0 adult male 01day    0 adult male 05day    1 adult male 30day    0 adult female 01day    0 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    0 embryo 04-06hr    0 embryo 06-08hr    0 embryo 08-10hr    1 embryo 10-12hr    2 embryo 12-14hr    2 embryo 14-16hr    1 embryo 16-18hr    1 embryo 18-20hr    1 embryo 20-22hr    1 embryo 22-24hr    1 larva L1    1 larva L2    0 larva L3 12hr old    0 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    1 larva L3 puffstage 7-9    1 white prepupae new    1 white prepupae 12hr    2 white prepupae 24hr    1 pupae 2d postWPP    1 pupae 3d postWPP    1 pupae 4d postWPP    0 adult male 01day    0 adult male 05day    1 adult male 30day    0 adult female 01day    0 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    0 embryo 04-06hr    0 embryo 06-08hr    0 embryo 08-10hr    1 embryo 10-12hr    2 embryo 12-14hr    2 embryo 14-16hr    1 embryo 16-18hr    1 embryo 18-20hr    1 embryo 20-22hr    1 embryo 22-24hr    1 larva L1    1 larva L2    0 larva L3 12hr old    0 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    1 larva L3 puffstage 7-9    1 white prepupae new    1 white prepupae 12hr    2 white prepupae 24hr    1 pupae 2d postWPP    1 pupae 3d postWPP    1 pupae 4d postWPP    0 adult male 01day    0 adult male 05day    1 adult male 30day    0 adult female 01day    0 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    0 embryo 04-06hr    0 embryo 06-08hr    0 embryo 08-10hr    1 embryo 10-12hr    2 embryo 12-14hr    2 embryo 14-16hr    1 embryo 16-18hr    1 embryo 18-20hr    1 embryo 20-22hr    1 embryo 22-24hr    1 larva L1    1 larva L2    0 larva L3 12hr old    0 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    1 larva L3 puffstage 7-9    1 white prepupae new    1 white prepupae 12hr    2 white prepupae 24hr    1 pupae 2d postWPP    1 pupae 3d postWPP    1 pupae 4d postWPP    0 adult male 01day    0 adult male 05day    1 adult male 30day    0 adult female 01day    0 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    0 embryo 04-06hr    0 embryo 06-08hr    0 embryo 08-10hr    1 embryo 10-12hr    2 embryo 12-14hr    2 embryo 14-16hr    1 embryo 16-18hr    1 embryo 18-20hr    1 embryo 20-22hr    1 embryo 22-24hr    1 larva L1    1 larva L2    0 larva L3 12hr old    0 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    1 larva L3 puffstage 7-9    1 white prepupae new    1 white prepupae 12hr    2 white prepupae 24hr    1 pupae 2d postWPP    1 pupae 3d postWPP    1 pupae 4d postWPP    0 adult male 01day    0 adult male 05day    1 adult male 30day    0 adult female 01day    0 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    0 embryo 04-06hr    0 embryo 06-08hr    0 embryo 08-10hr    1 embryo 10-12hr    2 embryo 12-14hr    2 embryo 14-16hr    1 embryo 16-18hr    1 embryo 18-20hr    1 embryo 20-22hr    1 embryo 22-24hr    1 larva L1    1 larva L2    0 larva L3 12hr old    0 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    1 larva L3 puffstage 7-9    1 white prepupae new    1 white prepupae 12hr    2 white prepupae 24hr    1 pupae 2d postWPP    1 pupae 3d postWPP    1 pupae 4d postWPP    0 adult male 01day    0 adult male 05day    1 adult male 30day    0 adult female 01day    0 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    1 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    0 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    1 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    1 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    0 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    1 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    1 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    0 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    1 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    1 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    0 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    1 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    1 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    0 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    1 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    1 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    0 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    1 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    1 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    0 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    1 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    1 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    0 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    1 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    1 cold shock, 4-day adult    1 heat shock, 4-day adult    0 Cadmium 50 mM 6 hrs, larvae L3    0 Cadmium 50 mM 12 hrs, larvae L3    0 Cadmium 50 mM 48 hrs, 4-day adult    0 Cadmium 100 mM 48 hrs, 4-day adult    0 Copper 0.5 mM 12 hrs, larvae L3    0 Copper 15 mM 48 hrs, 4-day adult    0 Zinc 5 mM 12 hrs, larvae L3    0 Zinc 4.5 mM 48 hrs, 4-day adult    0 Ethanol 2.5% 3 hrs, larvae L3    0 Ethanol 5% 3 hrs, larvae L3    0 Ethanol 10% 3 hrs, larvae L3    0 Caffeine 1.5 mg/ml 4 hrs, larvae L3    0 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    1 Caffeine 25 mg/ml 48 hrs, 4-day adult    1 Paraquat 5 mM 48 hrs, 4-day adult    1 Paraquat 10 mM 48 hrs, 4-day adult    1 Rotenone 2 μg 12 hrs, larvae L3    0 Rotenone 8 μg 12 hrs, larvae L3    0 Expression Level Scale  Very low   Low   Moderate  Linear, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    1 cold shock, 4-day adult    1 heat shock, 4-day adult    0 Cadmium 50 mM 6 hrs, larvae L3    0 Cadmium 50 mM 12 hrs, larvae L3    0 Cadmium 50 mM 48 hrs, 4-day adult    0 Cadmium 100 mM 48 hrs, 4-day adult    0 Copper 0.5 mM 12 hrs, larvae L3    0 Copper 15 mM 48 hrs, 4-day adult    0 Zinc 5 mM 12 hrs, larvae L3    0 Zinc 4.5 mM 48 hrs, 4-day adult    0 Ethanol 2.5% 3 hrs, larvae L3    0 Ethanol 5% 3 hrs, larvae L3    0 Ethanol 10% 3 hrs, larvae L3    0 Caffeine 1.5 mg/ml 4 hrs, larvae L3    0 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    1 Caffeine 25 mg/ml 48 hrs, 4-day adult    1 Paraquat 5 mM 48 hrs, 4-day adult    1 Paraquat 10 mM 48 hrs, 4-day adult    1 Rotenone 2 μg 12 hrs, larvae L3    0 Rotenone 8 μg 12 hrs, larvae L3    0 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    1 cold shock, 4-day adult    1 heat shock, 4-day adult    0 Cadmium 50 mM 6 hrs, larvae L3    0 Cadmium 50 mM 12 hrs, larvae L3    0 Cadmium 50 mM 48 hrs, 4-day adult    0 Cadmium 100 mM 48 hrs, 4-day adult    0 Copper 0.5 mM 12 hrs, larvae L3    0 Copper 15 mM 48 hrs, 4-day adult    0 Zinc 5 mM 12 hrs, larvae L3    0 Zinc 4.5 mM 48 hrs, 4-day adult    0 Ethanol 2.5% 3 hrs, larvae L3    0 Ethanol 5% 3 hrs, larvae L3    0 Ethanol 10% 3 hrs, larvae L3    0 Caffeine 1.5 mg/ml 4 hrs, larvae L3    0 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    1 Caffeine 25 mg/ml 48 hrs, 4-day adult    1 Paraquat 5 mM 48 hrs, 4-day adult    1 Paraquat 10 mM 48 hrs, 4-day adult    1 Rotenone 2 μg 12 hrs, larvae L3    0 Rotenone 8 μg 12 hrs, larvae L3    0 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    1 cold shock, 4-day adult    1 heat shock, 4-day adult    0 Cadmium 50 mM 6 hrs, larvae L3    0 Cadmium 50 mM 12 hrs, larvae L3    0 Cadmium 50 mM 48 hrs, 4-day adult    0 Cadmium 100 mM 48 hrs, 4-day adult    0 Copper 0.5 mM 12 hrs, larvae L3    0 Copper 15 mM 48 hrs, 4-day adult    0 Zinc 5 mM 12 hrs, larvae L3    0 Zinc 4.5 mM 48 hrs, 4-day adult    0 Ethanol 2.5% 3 hrs, larvae L3    0 Ethanol 5% 3 hrs, larvae L3    0 Ethanol 10% 3 hrs, larvae L3    0 Caffeine 1.5 mg/ml 4 hrs, larvae L3    0 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    1 Caffeine 25 mg/ml 48 hrs, 4-day adult    1 Paraquat 5 mM 48 hrs, 4-day adult    1 Paraquat 10 mM 48 hrs, 4-day adult    1 Rotenone 2 μg 12 hrs, larvae L3    0 Rotenone 8 μg 12 hrs, larvae L3    0 Expression Level Scale  Extremely high  log, scaled to maximum expression level Treatment   Expression Level extended cold, 4-day adult    1 cold shock, 4-day adult    1 heat shock, 4-day adult    0 Cadmium 50 mM 6 hrs, larvae L3    0 Cadmium 50 mM 12 hrs, larvae L3    0 Cadmium 50 mM 48 hrs, 4-day adult    0 Cadmium 100 mM 48 hrs, 4-day adult    0 Copper 0.5 mM 12 hrs, larvae L3    0 Copper 15 mM 48 hrs, 4-day adult    0 Zinc 5 mM 12 hrs, larvae L3    0 Zinc 4.5 mM 48 hrs, 4-day adult    0 Ethanol 2.5% 3 hrs, larvae L3    0 Ethanol 5% 3 hrs, larvae L3    0 Ethanol 10% 3 hrs, larvae L3    0 Caffeine 1.5 mg/ml 4 hrs, larvae L3    0 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    1 Caffeine 25 mg/ml 48 hrs, 4-day adult    1 Paraquat 5 mM 48 hrs, 4-day adult    1 Paraquat 10 mM 48 hrs, 4-day adult    1 Rotenone 2 μg 12 hrs, larvae L3    0 Rotenone 8 μg 12 hrs, larvae L3    0 Expression Level Scale  Very low   Low   Moderate  log, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    1 cold shock, 4-day adult    1 heat shock, 4-day adult    0 Cadmium 50 mM 6 hrs, larvae L3    0 Cadmium 50 mM 12 hrs, larvae L3    0 Cadmium 50 mM 48 hrs, 4-day adult    0 Cadmium 100 mM 48 hrs, 4-day adult    0 Copper 0.5 mM 12 hrs, larvae L3    0 Copper 15 mM 48 hrs, 4-day adult    0 Zinc 5 mM 12 hrs, larvae L3    0 Zinc 4.5 mM 48 hrs, 4-day adult    0 Ethanol 2.5% 3 hrs, larvae L3    0 Ethanol 5% 3 hrs, larvae L3    0 Ethanol 10% 3 hrs, larvae L3    0 Caffeine 1.5 mg/ml 4 hrs, larvae L3    0 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    1 Caffeine 25 mg/ml 48 hrs, 4-day adult    1 Paraquat 5 mM 48 hrs, 4-day adult    1 Paraquat 10 mM 48 hrs, 4-day adult    1 Rotenone 2 μg 12 hrs, larvae L3    0 Rotenone 8 μg 12 hrs, larvae L3    0 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    1 cold shock, 4-day adult    1 heat shock, 4-day adult    0 Cadmium 50 mM 6 hrs, larvae L3    0 Cadmium 50 mM 12 hrs, larvae L3    0 Cadmium 50 mM 48 hrs, 4-day adult    0 Cadmium 100 mM 48 hrs, 4-day adult    0 Copper 0.5 mM 12 hrs, larvae L3    0 Copper 15 mM 48 hrs, 4-day adult    0 Zinc 5 mM 12 hrs, larvae L3    0 Zinc 4.5 mM 48 hrs, 4-day adult    0 Ethanol 2.5% 3 hrs, larvae L3    0 Ethanol 5% 3 hrs, larvae L3    0 Ethanol 10% 3 hrs, larvae L3    0 Caffeine 1.5 mg/ml 4 hrs, larvae L3    0 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    1 Caffeine 25 mg/ml 48 hrs, 4-day adult    1 Paraquat 5 mM 48 hrs, 4-day adult    1 Paraquat 10 mM 48 hrs, 4-day adult    1 Rotenone 2 μg 12 hrs, larvae L3    0 Rotenone 8 μg 12 hrs, larvae L3    0 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    1 cold shock, 4-day adult    1 heat shock, 4-day adult    0 Cadmium 50 mM 6 hrs, larvae L3    0 Cadmium 50 mM 12 hrs, larvae L3    0 Cadmium 50 mM 48 hrs, 4-day adult    0 Cadmium 100 mM 48 hrs, 4-day adult    0 Copper 0.5 mM 12 hrs, larvae L3    0 Copper 15 mM 48 hrs, 4-day adult    0 Zinc 5 mM 12 hrs, larvae L3    0 Zinc 4.5 mM 48 hrs, 4-day adult    0 Ethanol 2.5% 3 hrs, larvae L3    0 Ethanol 5% 3 hrs, larvae L3    0 Ethanol 10% 3 hrs, larvae L3    0 Caffeine 1.5 mg/ml 4 hrs, larvae L3    0 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    1 Caffeine 25 mg/ml 48 hrs, 4-day adult    1 Paraquat 5 mM 48 hrs, 4-day adult    1 Paraquat 10 mM 48 hrs, 4-day adult    1 Rotenone 2 μg 12 hrs, larvae L3    0 Rotenone 8 μg 12 hrs, larvae L3    0 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_11 mE1_20_mRNA_expression_cluster_07
External Data & Images
Linkouts	BDGP expression data • SD02951 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0004896 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG3668-RA
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele viable, with Scer\GAL4pnr-MD237 fd59AGD4343 Phenotype manifest in Allele
Classical Alleles ( 0 )
For All Classical Alleles Show
Allele of fd59A Class Mutagen Stocks Known lesion
Alleles Carried on Transgenic Constructs ( 3 )
For All Alleles Carried on Transgenic Constructs Show
Allele of fd59A Class Mutagen Stocks Known lesion fd59AGD4343 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes fd59AJF02228 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes fd59AKK108504 in vitro construct - RNAi in vitro construct - regulatory fusion 0 Yes
Aneuploid Aberrations
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{GD4343} NA P{KK108504} NA P{TRiP.JF02228} NA
Insertions
	Type of insertions Name Expression data
Gene Ontology: Function, Process & Cellular Component ( 20 unique terms )
Terms Based on Experimental Evidence ( 0 terms )
Terms Based on Predictions or Assertions ( 20 terms )
Molecular Function
CV term Evidence References
DNA binding, bending inferred from biological aspect of ancestor with PANTHER:PTN000215025 (assigned by RefGenome) (Gaudet et al., 2010) double-stranded DNA binding inferred from biological aspect of ancestor with PANTHER:PTN000215024 (assigned by RefGenome) (Gaudet et al., 2010) RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity inferred from biological aspect of ancestor with PANTHER:PTN000215024 (assigned by RefGenome) (Gaudet et al., 2010) sequence-specific DNA binding inferred from electronic annotation with InterPro:IPR001766, InterPro:IPR018122 (FlyBase Curators et al., 2004-) sequence-specific DNA binding transcription factor activity inferred from sequence or structural similarity with EMBL:AF223426 (FlyBase, 1992-) transcription factor binding inferred from biological aspect of ancestor with PANTHER:PTN000215024 (assigned by RefGenome) (Gaudet et al., 2010)
Biological Process
CV term Evidence References
axon extension involved in axon guidance inferred from biological aspect of ancestor with PANTHER:PTN000215899 (assigned by RefGenome) (Gaudet et al., 2010) embryo development inferred from biological aspect of ancestor with PANTHER:PTN000215025 (assigned by RefGenome) (Gaudet et al., 2010) non-traceable author statement (Swiss-Prot Project Members, 1993.7.1) enteric nervous system development inferred from biological aspect of ancestor with PANTHER:PTN000215899 (assigned by RefGenome) (Gaudet et al., 2010) lateral line nerve glial cell development inferred from biological aspect of ancestor with PANTHER:PTN000215899 (assigned by RefGenome) (Gaudet et al., 2010) negative regulation of transcription from RNA polymerase II promoter inferred from biological aspect of ancestor with PANTHER:PTN000215024 (assigned by RefGenome) (Gaudet et al., 2010) pattern specification process inferred from biological aspect of ancestor with PANTHER:PTN000215025 (assigned by RefGenome) (Gaudet et al., 2010) peripheral nervous system development inferred from biological aspect of ancestor with PANTHER:PTN000215899 (assigned by RefGenome) (Gaudet et al., 2010) positive regulation of transcription from RNA polymerase II promoter inferred from biological aspect of ancestor with PANTHER:PTN000215899 (assigned by RefGenome) (Gaudet et al., 2010) regulation of sequence-specific DNA binding transcription factor activity inferred from biological aspect of ancestor with PANTHER:PTN000215024 (assigned by RefGenome) (Gaudet et al., 2010) regulation of transcription from RNA polymerase II promoter inferred from sequence or structural similarity with mouse Hfhbf2 (FlyBase, 1992-) sympathetic nervous system development inferred from biological aspect of ancestor with PANTHER:PTN000215899 (assigned by RefGenome) (Gaudet et al., 2010) tissue development inferred from biological aspect of ancestor with PANTHER:PTN000215025 (assigned by RefGenome) (Gaudet et al., 2010)
Cellular Component
CV term Evidence References
nucleus inferred from sequence or structural similarity with EMBL:AF223426 (FlyBase, 1992-) non-traceable author statement (Swiss-Prot Project Members, 1993.7.1) transcription factor complex inferred from biological aspect of ancestor with PANTHER:PTN000215024 (assigned by RefGenome) (Gaudet et al., 2010)
Sequence Ontology: Class of Gene
	nuclear_gene   protein_coding_gene
Interactions & Pathways
Summary of Physical Interactions
protein-protein
Interacting group Assay References
fd59A - ACC anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - Aats-asn anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - CG15220 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - CG15784 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - CG16940 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - CG17187 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - CG34132 experimental knowledge based, anti tag coimmunoprecipitation, peptide massfingerprinting (Guruharsha et al., 2011, Mintseris et al., 2009.11.23) fd59A - CG4169 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - CG5214 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - CG5525 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - CG7033 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - CG8036 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - CG8230 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - CG9281 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - Cdc5 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - Chc anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - CkIIα anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - Ect4 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - Elongin-B anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - Eno anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - FK506-bp2 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - Gnf1 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - Hsp60C anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - Hsp70Aa anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - Idh anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - Nlp anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - Ns1 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - Nsun2 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - Nurf-38 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - PHGPx anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - Pdi anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - Pp2A-29B anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - PpV anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - Prosβ6 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - Rab5 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - Ranbp9 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - Rpt1 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - Rpt6 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - Tim8 experimental knowledge based, anti tag coimmunoprecipitation, peptide massfingerprinting (Guruharsha et al., 2011, Mintseris et al., 2009.11.23) fd59A - Vha55 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - cathD anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - dream anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - hyd anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - isoQC anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - kst anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - l(1)G0156 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - l(1)G0320 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - l(2)tid anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - mt:CoII anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - mts anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - porin anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - prod anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - tws anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - wal anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) fd59A - α-Spec 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 fd59A allele Gene References
External Data
Linkouts	BioGRID - A database of protein and genetic interactions • 63243 DPiM - DPiM, Drosophila Protein interaction Map • FBgn0004896 DroID - A comprehensive database of gene and protein interactions. • FBgn0004896 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 37631
Orthologs
OrthoDB Orthologs (124) - 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 EOG6GQQR1 Dipteran inclusive ortholog search EOG66HGKD Insect inclusive ortholog search EOG64F56J Arthropod inclusive ortholog search EOG6N8PN5 Metazoa inclusive ortholog search EOG62C93P
Orthologs in Drosophila Species (EOG6GQQR1)
Organism Common Name Gene AAA Syntenic Ortholog Multiple Dmel Genes in this Orthologous Group Drosophila melanogaster fruit fly  Dmel\fd59A     Drosophila simulans   Dsim\GD11717 Y   Drosophila sechellia   Dsec\GM15965 Y   Drosophila erecta   Dere\GG22808 Y   Drosophila yakuba   Dyak\GE14241 Y   Drosophila ananassae   Dana\GF13549 Y   Drosophila pseudoobscura pseudoobscura   Dpse\GA17601 Y   Drosophila persimilis   Dper\GL10130 Y   Drosophila willistoni   Dwil\GK20787 Y   Drosophila virilis   Dvir\GJ22399 Y   Drosophila mojavensis   Dmoj\GI20546 Y   Drosophila grimshawi   Dgri\GH21797 Y
Orthologs in non-Drosophila Dipterans (EOG66HGKD)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Aedes aegypti Yellow fever mosquito  Aaeg\AAEL014284   Anopheles gambiae Malaria mosquito  Agam\AGAP008155   Culex quinquefasciatus Southern house mosquito  Cqui\CPIJ802331
Orthologs in non-Dipteran Insects (EOG64F56J)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Apis mellifera Western honey bee  Amel\GB42758   Nasonia vitripennis Parasitic wasp  Nvit\Nasvi2EG013184   Acromyrmex echinatior Panamanian leafcutter ant  Aech\AECH14943   Atta cephalotes Leafcutter ant  Acep\ACEP17910   Camponotus floridanus Florida carpenter ant  Cflo\CFLO17885   Harpegnathos saltator Jerdons jumping ant  Hsal\HSAL13163   Linepithema humile Argentine ant  Lhum\LH23251   Pogonomyrmex barbatus Red harvester ant  Pbar\PB17881   Solenopsis invicta Red fire ant  Sinv\SINV17261   Bombyx mori Silkmoth  Bmor\BGIBMGA004141   Pediculus humanus Human body louse  Phum\PHUM518310   Tribolium castaneum Red flour beetle  Tcas\TC015957
Orthologs in non-Insect Arthropods (EOG6N8PN5)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Daphnia pulex Water flea  Dpux\JGI_V11_28765   Ixodes scapularis Deer tick  Isca\ISCW015937
Orthologs in non-Arthropod Metazoa (EOG62C93P)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Caenorhabditis elegans Nematode  Cele\unc-130 Y Caenorhabditis elegans Nematode  Cele\fkh-6 Y Caenorhabditis elegans Nematode  Cele\pha-4 Y Caenorhabditis elegans Nematode  Cele\lin-31 Y Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_027648gn Y Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_024139gn Y Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_004551gn Y Strongylocentrotus purpuratus Purple sea urchin  Spur\FoxA Y Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_023894gn Y Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_015719gn Y Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_014418gn Y Danio rerio Zebrafish  Drer\foxd2 Y Danio rerio Zebrafish  Drer\foxi3b Y Danio rerio Zebrafish  Drer\foxc1a Y Danio rerio Zebrafish  Drer\foxe3 Y Danio rerio Zebrafish  Drer\foxa Y Danio rerio Zebrafish  Drer\foxa3 Y Danio rerio Zebrafish  Drer\si:dkey-162f21.4 Y Danio rerio Zebrafish  Drer\foxb1.1 Y Danio rerio Zebrafish  Drer\foxa1 Y Danio rerio Zebrafish  Drer\foxa Y Danio rerio Zebrafish  Drer\foxe1 Y Danio rerio Zebrafish  Drer\foxc1b Y Danio rerio Zebrafish  Drer\foxb1.2 Y Danio rerio Zebrafish  Drer\ENSDARG00000079699 Y Danio rerio Zebrafish  Drer\foxd5 Y Danio rerio Zebrafish  Drer\foxd3 Y Danio rerio Zebrafish  Drer\foxi2 Y Danio rerio Zebrafish  Drer\foxb1.2 Y Danio rerio Zebrafish  Drer\foxl1 Y Danio rerio Zebrafish  Drer\foxi3a Y Danio rerio Zebrafish  Drer\foxi1 Y Danio rerio Zebrafish  Drer\CH211-195C22.2 Y Danio rerio Zebrafish  Drer\foxa2 Y Xenopus tropicalis Western clawed frog  Xtro\foxi4.1 Y Xenopus tropicalis Western clawed frog  Xtro\foxc1 Y Xenopus tropicalis Western clawed frog  Xtro\foxe1 Y Xenopus tropicalis Western clawed frog  Xtro\foxc2 Y Xenopus tropicalis Western clawed frog  Xtro\foxd3 Y Xenopus tropicalis Western clawed frog  Xtro\foxe3 Y Xenopus tropicalis Western clawed frog  Xtro\foxd1 Y Xenopus tropicalis Western clawed frog  Xtro\foxa1 Y Xenopus tropicalis Western clawed frog  Xtro\foxl1 Y Xenopus tropicalis Western clawed frog  Xtro\foxb1 Y Xenopus tropicalis Western clawed frog  Xtro\foxa2 Y Xenopus tropicalis Western clawed frog  Xtro\foxa4 Y Xenopus tropicalis Western clawed frog  Xtro\foxd4l1.2 Y Xenopus tropicalis Western clawed frog  Xtro\foxi1e Y Xenopus tropicalis Western clawed frog  Xtro\foxi1 Y Xenopus tropicalis Western clawed frog  Xtro\foxd4l1.1 Y Xenopus tropicalis Western clawed frog  Xtro\foxd2 Y Gallus gallus Domestic chicken  Ggal\FOXS1 Y Gallus gallus Domestic chicken  Ggal\ENSGALG00000012644 Y Gallus gallus Domestic chicken  Ggal\FOXI1 Y Gallus gallus Domestic chicken  Ggal\FOXE1 Y Gallus gallus Domestic chicken  Ggal\FOXI2 Y Gallus gallus Domestic chicken  Ggal\ENSGALG00000018733 Y Gallus gallus Domestic chicken  Ggal\FOXL1 Y Mus musculus House mouse  Mmus\Foxi3 Y Mus musculus House mouse  Mmus\Foxi1 Y Mus musculus House mouse  Mmus\Foxb2 Y Mus musculus House mouse  Mmus\Foxa3 Y Mus musculus House mouse  Mmus\Foxa1 Y Mus musculus House mouse  Mmus\Foxi2 Y Mus musculus House mouse  Mmus\Foxd4 Y Mus musculus House mouse  Mmus\Foxb1 Y Mus musculus House mouse  Mmus\Foxc2 Y Mus musculus House mouse  Mmus\Foxs1 Y Mus musculus House mouse  Mmus\Foxe3 Y Rattus norvegicus Norway rat  Rnor\Foxi1 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000032137 Y Rattus norvegicus Norway rat  Rnor\Foxd4 Y Rattus norvegicus Norway rat  Rnor\Foxs1 Y Rattus norvegicus Norway rat  Rnor\Foxe3 Y Rattus norvegicus Norway rat  Rnor\Foxa1 Y Rattus norvegicus Norway rat  Rnor\Foxa3 Y Rattus norvegicus Norway rat  Rnor\Foxi3 Y Rattus norvegicus Norway rat  Rnor\Foxi2 Y Rattus norvegicus Norway rat  Rnor\Foxb1 Y Homo sapiens Human  Hsap\FOXI1 Y Homo sapiens Human  Hsap\FOXE3 Y Homo sapiens Human  Hsap\FOXB1 Y Homo sapiens Human  Hsap\FOXD4L6 Y Homo sapiens Human  Hsap\FOXD4L2 Y Homo sapiens Human  Hsap\FOXA3 Y Homo sapiens Human  Hsap\FOXS1 Y Homo sapiens Human  Hsap\FOXD4L4 Y Homo sapiens Human  Hsap\FOXL1 Y Homo sapiens Human  Hsap\FOXD4L5 Y Homo sapiens Human  Hsap\FOXI2 Y Homo sapiens Human  Hsap\FOXD4L3 Y Homo sapiens Human  Hsap\FOXD4L1 Y Homo sapiens Human  Hsap\FOXC2 Y Homo sapiens Human  Hsap\FOXD4 Y Homo sapiens Human  Hsap\FOXB2 Y
Human Orthologs (16)
Gene OMIM HGNC Hsap\FOXI1     Hsap\FOXE3     Hsap\FOXB1     Hsap\FOXD4L6     Hsap\FOXD4L2     Hsap\FOXA3     Hsap\FOXS1     Hsap\FOXD4L4     Hsap\FOXL1     Hsap\FOXD4L5     Hsap\FOXI2     Hsap\FOXD4L3     Hsap\FOXD4L1     Hsap\FOXC2     Hsap\FOXD4     Hsap\FOXB2
AAA Orthologs (11) based on analysis using Dmel annotation version 4.3
Organism Gene Drosophila simulans Dsim\GD11717 Drosophila sechellia Dsec\GM15965 Drosophila erecta Dere\GG22808 Drosophila yakuba Dyak\GE14241 Drosophila ananassae Dana\GF13549 Drosophila pseudoobscura pseudoobscura Dpse\GA17601 Drosophila persimilis Dper\GL10130 Drosophila willistoni Dwil\GK20787 Drosophila virilis Dvir\GJ22399 Drosophila mojavensis Dmoj\GI20546 Drosophila grimshawi Dgri\GH21797
Stocks & Reagents
Stocks Listed in FlyBase ( 2 )
Bloomington	31937 y1 v1; P{TRiP.JF02228}attP2
VDRC	v37637 w1118; P{GD4343}v37637
Genomic Clones ( 1 )
	BACR09K23 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 5 )
	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	SD02951
Other clones	DPiM_FI01123 FI01123
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	SD04073
Other clones	SD04060
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0004896 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 37631
Antibody Information
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of
Source for database merge of
Additional comments
Other Comments
	Co-crystal structure of the HNF-3/fork head DNA-recognition motif resembles histone H5. (Clark et al., 1993) One of seven genes identified on basis of sequence similarity to the 110 amino acid forkhead domain that is conserved in the rodent hepatocyte enriched nuclear transcription factor. (Hacker et al., 1992)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_079090 RefSeq (Proteins) • NP_523814 DDBJ / EMBL / GenBank • AAA28534 AAF46917 AAL89942 AI531711 AW944271 AY084204 M96442 Entrez Gene - A searchable database of RefSeq genes. • 37631 UniProtKB/Swiss-Prot • Q02361
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • Transcription factor, fork head, conserved site (IPR018122) Transcription factor, fork head (IPR001766) Winged helix-turn-helix DNA-binding domain (IPR011991) BDGP expression data - Patterns of gene expression in Drosophila embryogenesis • SD02951
Linkouts
	BioGRID - A database of protein and genetic interactions • 63243 DPiM - DPiM, Drosophila Protein interaction Map • FBgn0004896 DroID - A comprehensive database of gene and protein interactions. • FBgn0004896 DRSC - Results from RNAi screens. • FBgn0004896 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0004896 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG3668-RA FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0004896 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 37631 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 37631 modMine - Data generated by the modENCODE project. • FBgn0004896
Synonyms & Secondary IDs ( 6 )
Reported As
Symbol Synonym	CG3668 (Perkins et al., 2009, Keleman et al., 2009.8.5) Dmfd3 (Mazet et al., 2003) FD3 (Haecker, 1992.9.29, Kaufmann and Knoechel, 1996, Hacker et al., 1992, Mazet et al., 2006) fd3   fd59A (Wheeler et al., 2006, Lee and Frasch, 2004, Kwong et al., 2008, Wang et al., 2004)
Name Synonym	forkhead domain 59A (Wheeler et al., 2006)
Secondary FlyBase IDs
References ( 30 )
Generate a list of	All references relating to this gene ( 30 )
List References by type	Research paper  ( 9 ) Supplementary material  ( 6 ) Review  ( 1 ) Personal communication to FlyBase  ( 6 ) FlyBase analysis  ( 1 ) DNA/RNA sequence record  ( 1 ) Protein sequence record  ( 1 ) Website  ( 2 ) Curated genome annotation  ( 2 )
Recent research papers ( 1 )
	Henry et al., 2012, Nucleic Acids Res. 40(19): 9691--9704 Cell type-specific genomics of Drosophila neurons. [FBrf0219710] Show all research papers ...
Recent reviews (0)
	All reviews listed in FlyBase were published before 2011 Show reviews ...