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Gene Dmel\Hnf4

General Information
Symbol	Dmel\Hnf4	Species	D. melanogaster
Name	Hepatocyte nuclear factor 4	Annotation symbol	CG9310
Feature type	protein_coding_gene	FlyBase ID	FBgn0004914
Gene Model Status	Current	Stock availability	19 publicly available
Also Known As	dHNF4, HNF-4, HNF-4(D), NR2A4, dHNF-4
Genomic Location
Chromosome (arm)	2L	Recombination map	2-
Cytogenetic map	29E4-29E4	Sequence location	2L:8,687,226..8,709,611 [-]
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 Hepatocyte nuclear factor 4 is referred to in FlyBase by the symbol Dmel\Hnf4 (CG9310, FBgn0004914). 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; ligand-activated sequence-specific DNA binding RNA polymerase II transcription factor activity. There is experimental evidence that it is involved in the biological process: lipid catabolic process; lipid oxidation. 27 alleles are reported. No phenotypic data is available. It has 4 annotated transcripts and 4 annotated polypeptides. Protein features are: Nuclear hormone receptor, ligand-binding; Nuclear hormone receptor, ligand-binding, core; Retinoid X receptor/HNF4; Steroid hormone receptor; Zinc finger, NHR/GATA-type; Zinc finger, nuclear hormone receptor-type. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of low expression. Peak expression observed within 00-06 and 18-24 hour embryonic stages, in stages of adults of both sexes. Summary of FlyAtlas Anatomical Expression Data: Nearly all larval and adult organs/tissues expressed at moderate or high levels. Expression at high levels in the following post-embryonic organs or tissues: adult crop, adult hindgut, adult heart, adult fat body, inseminated spermatheca, adult carcass. Expression at moderate levels in the following post-embryonic organs or tissues: adult head, adult eye, larval/adult midgut, larval hindgut, larval/adult Malpighian tubules, larval fat body, larval/adult salivary gland, larval trachea, adult female reproductive system, adult male accessory gland, larval carcass. Comments on Affy2 ProbeSet: ProbeSet 1640922_a_at completely aligns to an exonic region common to each of the 4 FlyBase-annotated transcript isoforms of Hnf4. Gene sequence location is 2L:8687226..8709611.
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 29E4-29E4   Limits computationally determined from genome sequence between P{lacW}l(2)k04003k04003 and P{PZ}tai01351
Experimentally Determined Cytological Location
Cytogenetic map Notes References 29E-29E     (Zhong, 1996.9.13) 29E-29E   (determined by in situ hybridisation)   (Zhong, 1992) 29E-29E   (determined by in situ hybridisation)   (Zhong et al., 1993)
Experimentally Determined Recombination Data
Location	2- (Zhong, 1996.9.13)
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\Hnf4 for information on other features To submit a correction to a gene model please use the Contact FlyBase form
Comments on Gene Model
	Gene model reviewed during 5.48
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) Hnf4-RA FBtr0079747  NM_057539   3554   704 Hnf4-RB FBtr0079748  NM_164833   2739   732 Hnf4-RD FBtr0112846  NM_001103656   2995   708 Hnf4-RE FBtr0336633  NM_164834   3876   704
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 Hnf4-PA   FBpp0079349   76.4   704   6.64     NP_476887   AAF52702 Hnf4-PB   FBpp0079350   79.0   732   7.94     NP_723413   AAN10680 Hnf4-PD   FBpp0111759   76.7   708   6.54     NP_001097126   ABV53653 Hnf4-PE   FBpp0307616   76.4   704   6.64     NP_723414   AAF52703
Additional Polypeptide Data & Comments
Reported size (kDa)	666 (aa) (Zhong et al., 1993)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Nuclear hormone receptor, ligand-binding, core (IPR000536) Zinc finger, nuclear hormone receptor-type (IPR001628) Steroid hormone receptor (IPR001723) Nuclear hormone receptor, ligand-binding (IPR008946) Zinc finger, NHR/GATA-type (IPR013088) Retinoid X receptor/HNF4 (IPR000003)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AA804033   AE014134 AAF52702   AE014134 AAF52703   AE014134 AAN10680   AE014134 ABV53653   AC008331   AI239231   AI542035   AQ073595   BF491758   BI167261   BI168690   BI169822   BI215801   BI367448   BI368193   BI564101   BI576943   BI585399   BI587583   BI588062   BI588323   BT001800 AAN71555   BT003533 AAO39537   BT029586   BT088848   CL528241   CO153404   CO177775   CO186313   CO186464   CO189213   CO268662   CO284556   CO288022   CO290957   CO299467   CO310758   CO316392   CO328259   CZ466469   CZ467646   CZ470849   CZ470850   CZ480074   CZ482480   CZ482481   CZ482932   CZ485897   CZ485898   CZ488941   CZ488942   DN153818   DN154460   EC057061   EC057159   EC069360   EC070428   EC199714   EC202113   EC204002   EC207143   EC219803   EC231443   EC235489   EC241490   EC242770   EC256615   EC267280   EL885443   EL885444   EL885673   EL885788   EL885789   EV575398   EV582334   GH758338   GH760095   GH771351   GH778495   GH804930   GH822007   GH846643   GH873662   GH894057   GH900461   GH915810   GH917593   GH923288   GH935987   U70874 AAB09592
UniProtKB/Swiss-Prot	P49866
UniProtKB/TrEMBL	Q8IPF2 Q9VLI7 A8DYX8 Q8IGG2
Mapped Features
Mapped Features have been reorganized, please see this article for details. Additional mapped features and mutations can be found on GBrowse or related reports. Type Symbol & Location Additional Notes References
External Data
Linkouts
Crossreferences
Expression Data
Transcript Expression
in situ Stage Tissue/Position (including subcellular localization) Reference embryonic stage 1 -- 2     (Zhong et al., 1993) embryonic stage 1 -- 3   organism | ubiquitous   (Fisher et al., 2012) Comment:maternally deposited embryonic stage 4 -- 6   organism | intense & ubiquitous   • cytoplasm | basal (Fisher et al., 2012) Comment:apically cleared organism | ubiquitous   (Fisher et al., 2012) embryonic stage 7 -- 8   organism | faint & ubiquitous   (Fisher et al., 2012) organism | ubiquitous   (Fisher et al., 2012) embryonic stage 9 -- 10   organism | ubiquitous   (Fisher et al., 2012) embryonic stage 11   anterior midgut primordium   (Zhong et al., 1993) posterior midgut primordium   (Zhong et al., 1993) embryonic stage 11 -- 12   anterior midgut primordium   (Fisher et al., 2012) foregut primordium   (Fisher et al., 2012) hindgut proper primordium   (Fisher et al., 2012) organism | ubiquitous   (Fisher et al., 2012) posterior midgut primordium   (Fisher et al., 2012) embryonic stage 13 -- 16   embryonic foregut   (Fisher et al., 2012) embryonic hindgut   (Fisher et al., 2012) embryonic/larval midgut   (Fisher et al., 2012) embryonic/larval oenocyte   (Fisher et al., 2012) organism | ubiquitous   (Fisher et al., 2012) embryonic stage 14 -- 15   Malpighian tubule   (Zhong et al., 1993) embryonic/larval salivary gland   (Zhong et al., 1993) embryonic/larval fat body   (Zhong et al., 1993) northern blot Stage Tissue/Position (including subcellular localization) Reference embryonic stage     (Zhong et al., 1993)
Additional Descriptive Data
Marker for
Subcellular Localization
CV Term
Polypeptide Expression
Additional Descriptive Data
Marker for
Subcellular Localization (GO Cellular Component)
CV term Evidence References
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools
Reference	See Gelbart and Emmert, 2010.10.13 for analysis details and data files for all genes.
FlyAtlas Anatomy Microarray
FlyAtlas Anatomical Expression Data (FlyAtlas-RNA.adult) (FlyAtlas-RNA.larva)    Styles Linear Logarithmic Heatmap Back-to-back    Scales gene max expression Moderate expression bin max High level expression bin max Very high expression bin max Summary of FlyAtlas Anatomical Expression Data: Nearly all larval and adult organs/tissues expressed at moderate or high levels. Expression at high levels in the following post-embryonic organs or tissues: adult crop, adult hindgut, adult heart, adult fat body, inseminated spermatheca, adult carcass. Expression at moderate levels in the following post-embryonic organs or tissues: adult head, adult eye, larval/adult midgut, larval hindgut, larval/adult Malpighian tubules, larval fat body, larval/adult salivary gland, larval trachea, adult female reproductive system, adult male accessory gland, larval carcass. [download data (TSV)] Guide to FlyAtlas expression level colors   No expression (0 - 9.999)   Low expression (10 - 99.999)   Moderate expression (100 - 499.999)   High level expression (500 - 999.999)   Very high expression (>999.999) Linear, scaled to maximum expression level Tissue   Expression Level Larval Central Nervous System    60.4 Larval Midgut    277.2 Larval Hindgut    231.8 Larval Malpighian Tubules    214.8 Larval Fat Body    238.7 Larval Salivary Gland    259.1 Larval Trachea    208.2 Larval Carcass    235.9 Adult Head    337.3 Adult Eye    193.525 Adult Brain    85.1 Adult Thoracic-Abdominal Ganglion    97.6 Adult Crop    870.6 Adult Midgut    276.7 Adult Hindgut    528.9 Adult Malpighian Tubules    367.8 Adult Fat Body    1101 Adult Salivary Gland    189.5 Adult Heart    897.45 Adult VirginFemale Spermatheca    488.3 Adult InseminatedFemale Spermatheca    535 Adult Ovary    308.8 Adult Testis    46.6 Adult Male Accessory Gland    223.9 Adult Carcass    831.8 Expression Level Scale  None   Low   Moderate   High   Very high  Linear, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    60.4 Larval Midgut    277.2 Larval Hindgut    231.8 Larval Malpighian Tubules    214.8 Larval Fat Body    238.7 Larval Salivary Gland    259.1 Larval Trachea    208.2 Larval Carcass    235.9 Adult Head    337.3 Adult Eye    193.525 Adult Brain    85.1 Adult Thoracic-Abdominal Ganglion    97.6 Adult Crop  (870.6) Adult Midgut    276.7 Adult Hindgut  528.9 Adult Malpighian Tubules    367.8 Adult Fat Body  (1101) Adult Salivary Gland    189.5 Adult Heart  (897.45) Adult VirginFemale Spermatheca    488.3 Adult InseminatedFemale Spermatheca  535 Adult Ovary    308.8 Adult Testis    46.6 Adult Male Accessory Gland    223.9 Adult Carcass  (831.8) Expression Level Scale  None   Low   Moderate   High  Linear, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    60.4 Larval Midgut    277.2 Larval Hindgut    231.8 Larval Malpighian Tubules    214.8 Larval Fat Body    238.7 Larval Salivary Gland    259.1 Larval Trachea    208.2 Larval Carcass    235.9 Adult Head    337.3 Adult Eye    193.525 Adult Brain    85.1 Adult Thoracic-Abdominal Ganglion    97.6 Adult Crop    870.6 Adult Midgut    276.7 Adult Hindgut    528.9 Adult Malpighian Tubules    367.8 Adult Fat Body  (1101) Adult Salivary Gland    189.5 Adult Heart    897.45 Adult VirginFemale Spermatheca    488.3 Adult InseminatedFemale Spermatheca    535 Adult Ovary    308.8 Adult Testis    46.6 Adult Male Accessory Gland    223.9 Adult Carcass    831.8 Expression Level Scale  None   Low   Moderate   High   Very high  Linear, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    60.4 Larval Midgut    277.2 Larval Hindgut    231.8 Larval Malpighian Tubules    214.8 Larval Fat Body    238.7 Larval Salivary Gland    259.1 Larval Trachea    208.2 Larval Carcass    235.9 Adult Head    337.3 Adult Eye    193.525 Adult Brain    85.1 Adult Thoracic-Abdominal Ganglion    97.6 Adult Crop    870.6 Adult Midgut    276.7 Adult Hindgut    528.9 Adult Malpighian Tubules    367.8 Adult Fat Body    1101 Adult Salivary Gland    189.5 Adult Heart    897.45 Adult VirginFemale Spermatheca    488.3 Adult InseminatedFemale Spermatheca    535 Adult Ovary    308.8 Adult Testis    46.6 Adult Male Accessory Gland    223.9 Adult Carcass    831.8 Expression Level Scale  Very high  log, scaled to maximum expression level Tissue   Expression Level Larval Central Nervous System    60.4 Larval Midgut    277.2 Larval Hindgut    231.8 Larval Malpighian Tubules    214.8 Larval Fat Body    238.7 Larval Salivary Gland    259.1 Larval Trachea    208.2 Larval Carcass    235.9 Adult Head    337.3 Adult Eye    193.525 Adult Brain    85.1 Adult Thoracic-Abdominal Ganglion    97.6 Adult Crop    870.6 Adult Midgut    276.7 Adult Hindgut    528.9 Adult Malpighian Tubules    367.8 Adult Fat Body    1101 Adult Salivary Gland    189.5 Adult Heart    897.45 Adult VirginFemale Spermatheca    488.3 Adult InseminatedFemale Spermatheca    535 Adult Ovary    308.8 Adult Testis    46.6 Adult Male Accessory Gland    223.9 Adult Carcass    831.8 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    60.4 Larval Midgut    277.2 Larval Hindgut    231.8 Larval Malpighian Tubules    214.8 Larval Fat Body    238.7 Larval Salivary Gland    259.1 Larval Trachea    208.2 Larval Carcass    235.9 Adult Head    337.3 Adult Eye    193.525 Adult Brain    85.1 Adult Thoracic-Abdominal Ganglion    97.6 Adult Crop  (870.6) Adult Midgut    276.7 Adult Hindgut  528.9 Adult Malpighian Tubules    367.8 Adult Fat Body  (1101) Adult Salivary Gland    189.5 Adult Heart  (897.45) Adult VirginFemale Spermatheca    488.3 Adult InseminatedFemale Spermatheca  535 Adult Ovary    308.8 Adult Testis    46.6 Adult Male Accessory Gland    223.9 Adult Carcass  (831.8) Expression Level Scale  None   Low   Moderate   High  log, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    60.4 Larval Midgut    277.2 Larval Hindgut    231.8 Larval Malpighian Tubules    214.8 Larval Fat Body    238.7 Larval Salivary Gland    259.1 Larval Trachea    208.2 Larval Carcass    235.9 Adult Head    337.3 Adult Eye    193.525 Adult Brain    85.1 Adult Thoracic-Abdominal Ganglion    97.6 Adult Crop    870.6 Adult Midgut    276.7 Adult Hindgut    528.9 Adult Malpighian Tubules    367.8 Adult Fat Body  1101 Adult Salivary Gland    189.5 Adult Heart    897.45 Adult VirginFemale Spermatheca    488.3 Adult InseminatedFemale Spermatheca    535 Adult Ovary    308.8 Adult Testis    46.6 Adult Male Accessory Gland    223.9 Adult Carcass    831.8 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    60.4 Larval Midgut    277.2 Larval Hindgut    231.8 Larval Malpighian Tubules    214.8 Larval Fat Body    238.7 Larval Salivary Gland    259.1 Larval Trachea    208.2 Larval Carcass    235.9 Adult Head    337.3 Adult Eye    193.525 Adult Brain    85.1 Adult Thoracic-Abdominal Ganglion    97.6 Adult Crop    870.6 Adult Midgut    276.7 Adult Hindgut    528.9 Adult Malpighian Tubules    367.8 Adult Fat Body    1101 Adult Salivary Gland    189.5 Adult Heart    897.45 Adult VirginFemale Spermatheca    488.3 Adult InseminatedFemale Spermatheca    535 Adult Ovary    308.8 Adult Testis    46.6 Adult Male Accessory Gland    223.9 Adult Carcass    831.8 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    337.3   NA  Eye    193.525   NA  Brain    85.1   60.4  Central Nervous System    NA   NA  Thoracic-Abdominal Ganglion    97.6   NA  Crop    870.6   277.2  Midgut    276.7   231.8  Hindgut    528.9   214.8  Malpighian Tubules    367.8   238.7  Fat Body    1101   259.1  Salivary Gland    189.5   NA  Heart    897.45   208.2  Trachea    NA   NA  VirginFemale Spermatheca    488.3   NA  InseminatedFemale Spermatheca    535   NA  Ovary    308.8   NA  Testis    46.6   NA  Male Accessory Gland    223.9   235.9  Carcass    831.8 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    9 central nervous system, larvae L3    4 central nervous system, pupae P8    5 head, virgin 1-day female    16 head, virgin 4-day female    17 head, virgin 20-day female    17 head, mated 1-day female    15 head, mated 4-day female    20 head, mated 20-day female    16 head, mated 1-day male    18 head, mated 4-day male    24 head, mated 20-day male    25 salivary gland, larvae L3 wandering    4 salivary gland, white prepupae    18 digestive system, larvae L3 wandering    14 digestive system, 1-day adult    16 digestive system, 4-day adult    22 digestive system, 20-day adult    20 fat body, larvae L3 wandering    16 fat body, white prepupae    11 fat body, pupae P8    14 carcass, larvae L3 wandering    10 carcass, 1-day adult    24 carcass, 4-day adult    27 carcass, 20-day adult    27 ovary, virgin 4-day female    24 ovary, mated 4-day female    25 testis, mated 4-day male    3 accessory gland, mated 4-day male    4 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering    9 central nervous system, larvae L3    4 central nervous system, pupae P8    5 head, virgin 1-day female    16 head, virgin 4-day female    17 head, virgin 20-day female    17 head, mated 1-day female    15 head, mated 4-day female    20 head, mated 20-day female    16 head, mated 1-day male    18 head, mated 4-day male    24 head, mated 20-day male    25 salivary gland, larvae L3 wandering    4 salivary gland, white prepupae    18 digestive system, larvae L3 wandering    14 digestive system, 1-day adult    16 digestive system, 4-day adult    22 digestive system, 20-day adult    20 fat body, larvae L3 wandering    16 fat body, white prepupae    11 fat body, pupae P8    14 carcass, larvae L3 wandering    10 carcass, 1-day adult    24 carcass, 4-day adult  (27) carcass, 20-day adult  (27) ovary, virgin 4-day female    24 ovary, mated 4-day female    25 testis, mated 4-day male    3 accessory gland, mated 4-day male    4 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    9 central nervous system, larvae L3    4 central nervous system, pupae P8    5 head, virgin 1-day female    16 head, virgin 4-day female    17 head, virgin 20-day female    17 head, mated 1-day female    15 head, mated 4-day female    20 head, mated 20-day female    16 head, mated 1-day male    18 head, mated 4-day male    24 head, mated 20-day male    25 salivary gland, larvae L3 wandering    4 salivary gland, white prepupae    18 digestive system, larvae L3 wandering    14 digestive system, 1-day adult    16 digestive system, 4-day adult    22 digestive system, 20-day adult    20 fat body, larvae L3 wandering    16 fat body, white prepupae    11 fat body, pupae P8    14 carcass, larvae L3 wandering    10 carcass, 1-day adult    24 carcass, 4-day adult    27 carcass, 20-day adult    27 ovary, virgin 4-day female    24 ovary, mated 4-day female    25 testis, mated 4-day male    3 accessory gland, mated 4-day male    4 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    9 central nervous system, larvae L3    4 central nervous system, pupae P8    5 head, virgin 1-day female    16 head, virgin 4-day female    17 head, virgin 20-day female    17 head, mated 1-day female    15 head, mated 4-day female    20 head, mated 20-day female    16 head, mated 1-day male    18 head, mated 4-day male    24 head, mated 20-day male    25 salivary gland, larvae L3 wandering    4 salivary gland, white prepupae    18 digestive system, larvae L3 wandering    14 digestive system, 1-day adult    16 digestive system, 4-day adult    22 digestive system, 20-day adult    20 fat body, larvae L3 wandering    16 fat body, white prepupae    11 fat body, pupae P8    14 carcass, larvae L3 wandering    10 carcass, 1-day adult    24 carcass, 4-day adult    27 carcass, 20-day adult    27 ovary, virgin 4-day female    24 ovary, mated 4-day female    25 testis, mated 4-day male    3 accessory gland, mated 4-day male    4 Expression Level Scale  Extremely high  log, scaled to maximum expression level Tissue   Expression Level imaginal disc, larvae L3 wandering    9 central nervous system, larvae L3    4 central nervous system, pupae P8    5 head, virgin 1-day female    16 head, virgin 4-day female    17 head, virgin 20-day female    17 head, mated 1-day female    15 head, mated 4-day female    20 head, mated 20-day female    16 head, mated 1-day male    18 head, mated 4-day male    24 head, mated 20-day male    25 salivary gland, larvae L3 wandering    4 salivary gland, white prepupae    18 digestive system, larvae L3 wandering    14 digestive system, 1-day adult    16 digestive system, 4-day adult    22 digestive system, 20-day adult    20 fat body, larvae L3 wandering    16 fat body, white prepupae    11 fat body, pupae P8    14 carcass, larvae L3 wandering    10 carcass, 1-day adult    24 carcass, 4-day adult    27 carcass, 20-day adult    27 ovary, virgin 4-day female    24 ovary, mated 4-day female    25 testis, mated 4-day male    3 accessory gland, mated 4-day male    4 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering    9 central nervous system, larvae L3    4 central nervous system, pupae P8    5 head, virgin 1-day female    16 head, virgin 4-day female    17 head, virgin 20-day female    17 head, mated 1-day female    15 head, mated 4-day female    20 head, mated 20-day female    16 head, mated 1-day male    18 head, mated 4-day male    24 head, mated 20-day male    25 salivary gland, larvae L3 wandering    4 salivary gland, white prepupae    18 digestive system, larvae L3 wandering    14 digestive system, 1-day adult    16 digestive system, 4-day adult    22 digestive system, 20-day adult    20 fat body, larvae L3 wandering    16 fat body, white prepupae    11 fat body, pupae P8    14 carcass, larvae L3 wandering    10 carcass, 1-day adult    24 carcass, 4-day adult  27 carcass, 20-day adult  27 ovary, virgin 4-day female    24 ovary, mated 4-day female    25 testis, mated 4-day male    3 accessory gland, mated 4-day male    4 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    9 central nervous system, larvae L3    4 central nervous system, pupae P8    5 head, virgin 1-day female    16 head, virgin 4-day female    17 head, virgin 20-day female    17 head, mated 1-day female    15 head, mated 4-day female    20 head, mated 20-day female    16 head, mated 1-day male    18 head, mated 4-day male    24 head, mated 20-day male    25 salivary gland, larvae L3 wandering    4 salivary gland, white prepupae    18 digestive system, larvae L3 wandering    14 digestive system, 1-day adult    16 digestive system, 4-day adult    22 digestive system, 20-day adult    20 fat body, larvae L3 wandering    16 fat body, white prepupae    11 fat body, pupae P8    14 carcass, larvae L3 wandering    10 carcass, 1-day adult    24 carcass, 4-day adult    27 carcass, 20-day adult    27 ovary, virgin 4-day female    24 ovary, mated 4-day female    25 testis, mated 4-day male    3 accessory gland, mated 4-day male    4 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    9 central nervous system, larvae L3    4 central nervous system, pupae P8    5 head, virgin 1-day female    16 head, virgin 4-day female    17 head, virgin 20-day female    17 head, mated 1-day female    15 head, mated 4-day female    20 head, mated 20-day female    16 head, mated 1-day male    18 head, mated 4-day male    24 head, mated 20-day male    25 salivary gland, larvae L3 wandering    4 salivary gland, white prepupae    18 digestive system, larvae L3 wandering    14 digestive system, 1-day adult    16 digestive system, 4-day adult    22 digestive system, 20-day adult    20 fat body, larvae L3 wandering    16 fat body, white prepupae    11 fat body, pupae P8    14 carcass, larvae L3 wandering    10 carcass, 1-day adult    24 carcass, 4-day adult    27 carcass, 20-day adult    27 ovary, virgin 4-day female    24 ovary, mated 4-day female    25 testis, mated 4-day male    3 accessory gland, mated 4-day male    4 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  Heatmap Tissue   Expression Level imaginal disc, larvae L3 wandering     central nervous system, larvae L3     central nervous system, pupae P8     head, virgin 1-day female     head, virgin 4-day female     head, virgin 20-day female     head, mated 1-day female     head, mated 4-day female     head, mated 20-day female     head, mated 1-day male     head, mated 4-day male     head, mated 20-day male     salivary gland, larvae L3 wandering     salivary gland, white prepupae     digestive system, larvae L3 wandering     digestive system, 1-day adult     digestive system, 4-day adult     digestive system, 20-day adult     fat body, larvae L3 wandering     fat body, white prepupae     fat body, pupae P8     carcass, larvae L3 wandering     carcass, 1-day adult     carcass, 4-day adult     carcass, 20-day adult     ovary, virgin 4-day female     ovary, mated 4-day female     testis, mated 4-day male     accessory gland, mated 4-day male
modENCODE Development RNA-Seq
modENCODE Temporal Expression Data (modENCODE_mRNA-Seq_U)    Styles Linear Logarithmic Heatmap    Scales gene max expression Moderate expression bin max High expression bin max Extremely high expression bin max Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of low expression. Peak expression observed within 00-06 and 18-24 hour embryonic stages, in stages of adults of both sexes. [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    25 embryo 02-04hr    2 embryo 04-06hr    1 embryo 06-08hr    3 embryo 08-10hr    3 embryo 10-12hr    12 embryo 12-14hr    11 embryo 14-16hr    11 embryo 16-18hr    9 embryo 18-20hr    9 embryo 20-22hr    17 embryo 22-24hr    14 larva L1    10 larva L2    9 larva L3 12hr old    11 larva L3 puffstage 1-2    10 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    11 white prepupae new    13 white prepupae 12hr    16 white prepupae 24hr    16 pupae 2d postWPP    13 pupae 3d postWPP    14 pupae 4d postWPP    11 adult male 01day    18 adult male 05day    22 adult male 30day    20 adult female 01day    20 adult female 05day    19 adult female 30day    20 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    25 embryo 02-04hr    2 embryo 04-06hr    1 embryo 06-08hr    3 embryo 08-10hr    3 embryo 10-12hr    12 embryo 12-14hr    11 embryo 14-16hr    11 embryo 16-18hr    9 embryo 18-20hr    9 embryo 20-22hr    17 embryo 22-24hr    14 larva L1    10 larva L2    9 larva L3 12hr old    11 larva L3 puffstage 1-2    10 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    11 white prepupae new    13 white prepupae 12hr    16 white prepupae 24hr    16 pupae 2d postWPP    13 pupae 3d postWPP    14 pupae 4d postWPP    11 adult male 01day    18 adult male 05day    22 adult male 30day    20 adult female 01day    20 adult female 05day    19 adult female 30day    20 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    25 embryo 02-04hr    2 embryo 04-06hr    1 embryo 06-08hr    3 embryo 08-10hr    3 embryo 10-12hr    12 embryo 12-14hr    11 embryo 14-16hr    11 embryo 16-18hr    9 embryo 18-20hr    9 embryo 20-22hr    17 embryo 22-24hr    14 larva L1    10 larva L2    9 larva L3 12hr old    11 larva L3 puffstage 1-2    10 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    11 white prepupae new    13 white prepupae 12hr    16 white prepupae 24hr    16 pupae 2d postWPP    13 pupae 3d postWPP    14 pupae 4d postWPP    11 adult male 01day    18 adult male 05day    22 adult male 30day    20 adult female 01day    20 adult female 05day    19 adult female 30day    20 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    25 embryo 02-04hr    2 embryo 04-06hr    1 embryo 06-08hr    3 embryo 08-10hr    3 embryo 10-12hr    12 embryo 12-14hr    11 embryo 14-16hr    11 embryo 16-18hr    9 embryo 18-20hr    9 embryo 20-22hr    17 embryo 22-24hr    14 larva L1    10 larva L2    9 larva L3 12hr old    11 larva L3 puffstage 1-2    10 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    11 white prepupae new    13 white prepupae 12hr    16 white prepupae 24hr    16 pupae 2d postWPP    13 pupae 3d postWPP    14 pupae 4d postWPP    11 adult male 01day    18 adult male 05day    22 adult male 30day    20 adult female 01day    20 adult female 05day    19 adult female 30day    20 Expression Level Scale  Extremely high  log, scaled to maximum expression level Developmental Stage   Expression Level embryo 00-02hr    25 embryo 02-04hr    2 embryo 04-06hr    1 embryo 06-08hr    3 embryo 08-10hr    3 embryo 10-12hr    12 embryo 12-14hr    11 embryo 14-16hr    11 embryo 16-18hr    9 embryo 18-20hr    9 embryo 20-22hr    17 embryo 22-24hr    14 larva L1    10 larva L2    9 larva L3 12hr old    11 larva L3 puffstage 1-2    10 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    11 white prepupae new    13 white prepupae 12hr    16 white prepupae 24hr    16 pupae 2d postWPP    13 pupae 3d postWPP    14 pupae 4d postWPP    11 adult male 01day    18 adult male 05day    22 adult male 30day    20 adult female 01day    20 adult female 05day    19 adult female 30day    20 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    25 embryo 02-04hr    2 embryo 04-06hr    1 embryo 06-08hr    3 embryo 08-10hr    3 embryo 10-12hr    12 embryo 12-14hr    11 embryo 14-16hr    11 embryo 16-18hr    9 embryo 18-20hr    9 embryo 20-22hr    17 embryo 22-24hr    14 larva L1    10 larva L2    9 larva L3 12hr old    11 larva L3 puffstage 1-2    10 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    11 white prepupae new    13 white prepupae 12hr    16 white prepupae 24hr    16 pupae 2d postWPP    13 pupae 3d postWPP    14 pupae 4d postWPP    11 adult male 01day    18 adult male 05day    22 adult male 30day    20 adult female 01day    20 adult female 05day    19 adult female 30day    20 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    25 embryo 02-04hr    2 embryo 04-06hr    1 embryo 06-08hr    3 embryo 08-10hr    3 embryo 10-12hr    12 embryo 12-14hr    11 embryo 14-16hr    11 embryo 16-18hr    9 embryo 18-20hr    9 embryo 20-22hr    17 embryo 22-24hr    14 larva L1    10 larva L2    9 larva L3 12hr old    11 larva L3 puffstage 1-2    10 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    11 white prepupae new    13 white prepupae 12hr    16 white prepupae 24hr    16 pupae 2d postWPP    13 pupae 3d postWPP    14 pupae 4d postWPP    11 adult male 01day    18 adult male 05day    22 adult male 30day    20 adult female 01day    20 adult female 05day    19 adult female 30day    20 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    25 embryo 02-04hr    2 embryo 04-06hr    1 embryo 06-08hr    3 embryo 08-10hr    3 embryo 10-12hr    12 embryo 12-14hr    11 embryo 14-16hr    11 embryo 16-18hr    9 embryo 18-20hr    9 embryo 20-22hr    17 embryo 22-24hr    14 larva L1    10 larva L2    9 larva L3 12hr old    11 larva L3 puffstage 1-2    10 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    11 white prepupae new    13 white prepupae 12hr    16 white prepupae 24hr    16 pupae 2d postWPP    13 pupae 3d postWPP    14 pupae 4d postWPP    11 adult male 01day    18 adult male 05day    22 adult male 30day    20 adult female 01day    20 adult female 05day    19 adult female 30day    20 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+    31 Schneider line 2 Sg4    21 embryonic 1182-4H    23 embryonic GM2    57 embryonic Kc167    11 embryonic S1    11 embryonic S3    34 leg disc CME L1    25 wing disc CME-W2    7 wing disc ML-DmD8    34 wing disc ML-DmD9    21 wing disc ML-DmD16-c3    26 wing disc ML-DmD21    17 wing disc ML-DmD32    12 haltere disc ML-DmD17-c3    10 eye-antennal disc ML-DmD11    12 antennal disc ML-DmD20-c5    10 mixed discs ML-DmD4-c1    45 CNS ML-DmBG1-c1    15 CNS ML-DmBG2-c2    11 tumorous blood cells mbn2    27 ovary fGS/OSS    5 ovary OSC    6 ovary OSS    7 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  Linear, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+  (31) Schneider line 2 Sg4    21 embryonic 1182-4H    23 embryonic GM2  (57) embryonic Kc167    11 embryonic S1    11 embryonic S3  (34) leg disc CME L1    25 wing disc CME-W2    7 wing disc ML-DmD8  (34) wing disc ML-DmD9    21 wing disc ML-DmD16-c3  26 wing disc ML-DmD21    17 wing disc ML-DmD32    12 haltere disc ML-DmD17-c3    10 eye-antennal disc ML-DmD11    12 antennal disc ML-DmD20-c5    10 mixed discs ML-DmD4-c1  (45) CNS ML-DmBG1-c1    15 CNS ML-DmBG2-c2    11 tumorous blood cells mbn2  (27) ovary fGS/OSS    5 ovary OSC    6 ovary OSS    7 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    31 Schneider line 2 Sg4    21 embryonic 1182-4H    23 embryonic GM2    57 embryonic Kc167    11 embryonic S1    11 embryonic S3    34 leg disc CME L1    25 wing disc CME-W2    7 wing disc ML-DmD8    34 wing disc ML-DmD9    21 wing disc ML-DmD16-c3    26 wing disc ML-DmD21    17 wing disc ML-DmD32    12 haltere disc ML-DmD17-c3    10 eye-antennal disc ML-DmD11    12 antennal disc ML-DmD20-c5    10 mixed discs ML-DmD4-c1    45 CNS ML-DmBG1-c1    15 CNS ML-DmBG2-c2    11 tumorous blood cells mbn2    27 ovary fGS/OSS    5 ovary OSC    6 ovary OSS    7 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+    31 Schneider line 2 Sg4    21 embryonic 1182-4H    23 embryonic GM2    57 embryonic Kc167    11 embryonic S1    11 embryonic S3    34 leg disc CME L1    25 wing disc CME-W2    7 wing disc ML-DmD8    34 wing disc ML-DmD9    21 wing disc ML-DmD16-c3    26 wing disc ML-DmD21    17 wing disc ML-DmD32    12 haltere disc ML-DmD17-c3    10 eye-antennal disc ML-DmD11    12 antennal disc ML-DmD20-c5    10 mixed discs ML-DmD4-c1    45 CNS ML-DmBG1-c1    15 CNS ML-DmBG2-c2    11 tumorous blood cells mbn2    27 ovary fGS/OSS    5 ovary OSC    6 ovary OSS    7 Expression Level Scale  Extremely high  log, scaled to maximum expression level Cell Line   Expression Level Schneider line 2 S2R+    31 Schneider line 2 Sg4    21 embryonic 1182-4H    23 embryonic GM2    57 embryonic Kc167    11 embryonic S1    11 embryonic S3    34 leg disc CME L1    25 wing disc CME-W2    7 wing disc ML-DmD8    34 wing disc ML-DmD9    21 wing disc ML-DmD16-c3    26 wing disc ML-DmD21    17 wing disc ML-DmD32    12 haltere disc ML-DmD17-c3    10 eye-antennal disc ML-DmD11    12 antennal disc ML-DmD20-c5    10 mixed discs ML-DmD4-c1    45 CNS ML-DmBG1-c1    15 CNS ML-DmBG2-c2    11 tumorous blood cells mbn2    27 ovary fGS/OSS    5 ovary OSC    6 ovary OSS    7 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  log, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+  31 Schneider line 2 Sg4    21 embryonic 1182-4H    23 embryonic GM2  (57) embryonic Kc167    11 embryonic S1    11 embryonic S3  (34) leg disc CME L1    25 wing disc CME-W2    7 wing disc ML-DmD8  (34) wing disc ML-DmD9    21 wing disc ML-DmD16-c3  26 wing disc ML-DmD21    17 wing disc ML-DmD32    12 haltere disc ML-DmD17-c3    10 eye-antennal disc ML-DmD11    12 antennal disc ML-DmD20-c5    10 mixed discs ML-DmD4-c1  (45) CNS ML-DmBG1-c1    15 CNS ML-DmBG2-c2    11 tumorous blood cells mbn2  27 ovary fGS/OSS    5 ovary OSC    6 ovary OSS    7 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    31 Schneider line 2 Sg4    21 embryonic 1182-4H    23 embryonic GM2    57 embryonic Kc167    11 embryonic S1    11 embryonic S3    34 leg disc CME L1    25 wing disc CME-W2    7 wing disc ML-DmD8    34 wing disc ML-DmD9    21 wing disc ML-DmD16-c3    26 wing disc ML-DmD21    17 wing disc ML-DmD32    12 haltere disc ML-DmD17-c3    10 eye-antennal disc ML-DmD11    12 antennal disc ML-DmD20-c5    10 mixed discs ML-DmD4-c1    45 CNS ML-DmBG1-c1    15 CNS ML-DmBG2-c2    11 tumorous blood cells mbn2    27 ovary fGS/OSS    5 ovary OSC    6 ovary OSS    7 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+    31 Schneider line 2 Sg4    21 embryonic 1182-4H    23 embryonic GM2    57 embryonic Kc167    11 embryonic S1    11 embryonic S3    34 leg disc CME L1    25 wing disc CME-W2    7 wing disc ML-DmD8    34 wing disc ML-DmD9    21 wing disc ML-DmD16-c3    26 wing disc ML-DmD21    17 wing disc ML-DmD32    12 haltere disc ML-DmD17-c3    10 eye-antennal disc ML-DmD11    12 antennal disc ML-DmD20-c5    10 mixed discs ML-DmD4-c1    45 CNS ML-DmBG1-c1    15 CNS ML-DmBG2-c2    11 tumorous blood cells mbn2    27 ovary fGS/OSS    5 ovary OSC    6 ovary OSS    7 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    12 cold shock, 4-day adult    10 heat shock, 4-day adult    16 Cadmium 50 mM 6 hrs, larvae L3    11 Cadmium 50 mM 12 hrs, larvae L3    9 Cadmium 50 mM 48 hrs, 4-day adult    15 Cadmium 100 mM 48 hrs, 4-day adult    27 Copper 0.5 mM 12 hrs, larvae L3    16 Copper 15 mM 48 hrs, 4-day adult    21 Zinc 5 mM 12 hrs, larvae L3    9 Zinc 4.5 mM 48 hrs, 4-day adult    19 Ethanol 2.5% 3 hrs, larvae L3    26 Ethanol 5% 3 hrs, larvae L3    13 Ethanol 10% 3 hrs, larvae L3    10 Caffeine 1.5 mg/ml 4 hrs, larvae L3    17 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    24 Caffeine 25 mg/ml 48 hrs, 4-day adult    12 Paraquat 5 mM 48 hrs, 4-day adult    23 Paraquat 10 mM 48 hrs, 4-day adult    26 Rotenone 2 μg 12 hrs, larvae L3    11 Rotenone 8 μg 12 hrs, larvae L3    10 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    12 cold shock, 4-day adult    10 heat shock, 4-day adult    16 Cadmium 50 mM 6 hrs, larvae L3    11 Cadmium 50 mM 12 hrs, larvae L3    9 Cadmium 50 mM 48 hrs, 4-day adult    15 Cadmium 100 mM 48 hrs, 4-day adult  (27) Copper 0.5 mM 12 hrs, larvae L3    16 Copper 15 mM 48 hrs, 4-day adult    21 Zinc 5 mM 12 hrs, larvae L3    9 Zinc 4.5 mM 48 hrs, 4-day adult    19 Ethanol 2.5% 3 hrs, larvae L3  26 Ethanol 5% 3 hrs, larvae L3    13 Ethanol 10% 3 hrs, larvae L3    10 Caffeine 1.5 mg/ml 4 hrs, larvae L3    17 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    24 Caffeine 25 mg/ml 48 hrs, 4-day adult    12 Paraquat 5 mM 48 hrs, 4-day adult    23 Paraquat 10 mM 48 hrs, 4-day adult  26 Rotenone 2 μg 12 hrs, larvae L3    11 Rotenone 8 μg 12 hrs, larvae L3    10 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    12 cold shock, 4-day adult    10 heat shock, 4-day adult    16 Cadmium 50 mM 6 hrs, larvae L3    11 Cadmium 50 mM 12 hrs, larvae L3    9 Cadmium 50 mM 48 hrs, 4-day adult    15 Cadmium 100 mM 48 hrs, 4-day adult    27 Copper 0.5 mM 12 hrs, larvae L3    16 Copper 15 mM 48 hrs, 4-day adult    21 Zinc 5 mM 12 hrs, larvae L3    9 Zinc 4.5 mM 48 hrs, 4-day adult    19 Ethanol 2.5% 3 hrs, larvae L3    26 Ethanol 5% 3 hrs, larvae L3    13 Ethanol 10% 3 hrs, larvae L3    10 Caffeine 1.5 mg/ml 4 hrs, larvae L3    17 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    24 Caffeine 25 mg/ml 48 hrs, 4-day adult    12 Paraquat 5 mM 48 hrs, 4-day adult    23 Paraquat 10 mM 48 hrs, 4-day adult    26 Rotenone 2 μg 12 hrs, larvae L3    11 Rotenone 8 μg 12 hrs, larvae L3    10 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    12 cold shock, 4-day adult    10 heat shock, 4-day adult    16 Cadmium 50 mM 6 hrs, larvae L3    11 Cadmium 50 mM 12 hrs, larvae L3    9 Cadmium 50 mM 48 hrs, 4-day adult    15 Cadmium 100 mM 48 hrs, 4-day adult    27 Copper 0.5 mM 12 hrs, larvae L3    16 Copper 15 mM 48 hrs, 4-day adult    21 Zinc 5 mM 12 hrs, larvae L3    9 Zinc 4.5 mM 48 hrs, 4-day adult    19 Ethanol 2.5% 3 hrs, larvae L3    26 Ethanol 5% 3 hrs, larvae L3    13 Ethanol 10% 3 hrs, larvae L3    10 Caffeine 1.5 mg/ml 4 hrs, larvae L3    17 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    24 Caffeine 25 mg/ml 48 hrs, 4-day adult    12 Paraquat 5 mM 48 hrs, 4-day adult    23 Paraquat 10 mM 48 hrs, 4-day adult    26 Rotenone 2 μg 12 hrs, larvae L3    11 Rotenone 8 μg 12 hrs, larvae L3    10 Expression Level Scale  Extremely high  log, scaled to maximum expression level Treatment   Expression Level extended cold, 4-day adult    12 cold shock, 4-day adult    10 heat shock, 4-day adult    16 Cadmium 50 mM 6 hrs, larvae L3    11 Cadmium 50 mM 12 hrs, larvae L3    9 Cadmium 50 mM 48 hrs, 4-day adult    15 Cadmium 100 mM 48 hrs, 4-day adult    27 Copper 0.5 mM 12 hrs, larvae L3    16 Copper 15 mM 48 hrs, 4-day adult    21 Zinc 5 mM 12 hrs, larvae L3    9 Zinc 4.5 mM 48 hrs, 4-day adult    19 Ethanol 2.5% 3 hrs, larvae L3    26 Ethanol 5% 3 hrs, larvae L3    13 Ethanol 10% 3 hrs, larvae L3    10 Caffeine 1.5 mg/ml 4 hrs, larvae L3    17 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    24 Caffeine 25 mg/ml 48 hrs, 4-day adult    12 Paraquat 5 mM 48 hrs, 4-day adult    23 Paraquat 10 mM 48 hrs, 4-day adult    26 Rotenone 2 μg 12 hrs, larvae L3    11 Rotenone 8 μg 12 hrs, larvae L3    10 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    12 cold shock, 4-day adult    10 heat shock, 4-day adult    16 Cadmium 50 mM 6 hrs, larvae L3    11 Cadmium 50 mM 12 hrs, larvae L3    9 Cadmium 50 mM 48 hrs, 4-day adult    15 Cadmium 100 mM 48 hrs, 4-day adult  27 Copper 0.5 mM 12 hrs, larvae L3    16 Copper 15 mM 48 hrs, 4-day adult    21 Zinc 5 mM 12 hrs, larvae L3    9 Zinc 4.5 mM 48 hrs, 4-day adult    19 Ethanol 2.5% 3 hrs, larvae L3  26 Ethanol 5% 3 hrs, larvae L3    13 Ethanol 10% 3 hrs, larvae L3    10 Caffeine 1.5 mg/ml 4 hrs, larvae L3    17 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    24 Caffeine 25 mg/ml 48 hrs, 4-day adult    12 Paraquat 5 mM 48 hrs, 4-day adult    23 Paraquat 10 mM 48 hrs, 4-day adult  26 Rotenone 2 μg 12 hrs, larvae L3    11 Rotenone 8 μg 12 hrs, larvae L3    10 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    12 cold shock, 4-day adult    10 heat shock, 4-day adult    16 Cadmium 50 mM 6 hrs, larvae L3    11 Cadmium 50 mM 12 hrs, larvae L3    9 Cadmium 50 mM 48 hrs, 4-day adult    15 Cadmium 100 mM 48 hrs, 4-day adult    27 Copper 0.5 mM 12 hrs, larvae L3    16 Copper 15 mM 48 hrs, 4-day adult    21 Zinc 5 mM 12 hrs, larvae L3    9 Zinc 4.5 mM 48 hrs, 4-day adult    19 Ethanol 2.5% 3 hrs, larvae L3    26 Ethanol 5% 3 hrs, larvae L3    13 Ethanol 10% 3 hrs, larvae L3    10 Caffeine 1.5 mg/ml 4 hrs, larvae L3    17 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    24 Caffeine 25 mg/ml 48 hrs, 4-day adult    12 Paraquat 5 mM 48 hrs, 4-day adult    23 Paraquat 10 mM 48 hrs, 4-day adult    26 Rotenone 2 μg 12 hrs, larvae L3    11 Rotenone 8 μg 12 hrs, larvae L3    10 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    12 cold shock, 4-day adult    10 heat shock, 4-day adult    16 Cadmium 50 mM 6 hrs, larvae L3    11 Cadmium 50 mM 12 hrs, larvae L3    9 Cadmium 50 mM 48 hrs, 4-day adult    15 Cadmium 100 mM 48 hrs, 4-day adult    27 Copper 0.5 mM 12 hrs, larvae L3    16 Copper 15 mM 48 hrs, 4-day adult    21 Zinc 5 mM 12 hrs, larvae L3    9 Zinc 4.5 mM 48 hrs, 4-day adult    19 Ethanol 2.5% 3 hrs, larvae L3    26 Ethanol 5% 3 hrs, larvae L3    13 Ethanol 10% 3 hrs, larvae L3    10 Caffeine 1.5 mg/ml 4 hrs, larvae L3    17 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    24 Caffeine 25 mg/ml 48 hrs, 4-day adult    12 Paraquat 5 mM 48 hrs, 4-day adult    23 Paraquat 10 mM 48 hrs, 4-day adult    26 Rotenone 2 μg 12 hrs, larvae L3    11 Rotenone 8 μg 12 hrs, larvae L3    10 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_10 mE1_20_mRNA_expression_cluster_09
External Data & Images
Linkouts	BDGP expression data • RE09535 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0004914 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG9310-RA FlyExpress - Embryonic expression images (BDGP data) • Show all FlyExpress processed images for Hnf4 Stages(s) 4-6
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele lethal | adult stage (with Hnf4Δ17) Hnf4Δ33 lethal | adult stage (with Hnf4Δ33) Hnf4Δ17 viable Hnf4KG08976 viable, with Scer\GAL4pnr-MD237 Hnf4GD4362 Sterility Allele fertile Hnf4KG08976 Other Phenotypes Allele eclosion defective (with Hnf4Δ17) Hnf4Δ33 eclosion defective (with Hnf4Δ33) Hnf4Δ17 stress response defective (with Hnf4Δ17) Hnf4Δ33 stress response defective (with Hnf4Δ33) Hnf4Δ17 Phenotype manifest in Allele
Classical Alleles ( 18 )
For All Classical Alleles Show
Allele of Hnf4 Class Mutagen Stocks Known lesion Hnf4e02246 piggyBac transposase 3 -- Hnf45-HA-1982 1 -- Hnf45-SZ-4012 1 -- Hnf4B181 1 -- Hnf4c00451 piggyBac transposase 1 -- Hnf4EP2449 P-element activity 1 -- Hnf4f00460 piggyBac transposase 1 -- Hnf4f03347 piggyBac transposase 1 -- Hnf4KG06827 P-element activity 1 -- Hnf4KG08976 P-element activity 1 -- Hnf4MI05541 1 -- Hnf4Δ33 1 Yes Hnf4[EY19034] P-element activity 1 -- Hnf4c02056 piggyBac transposase 0 -- Hnf4c06605 piggyBac transposase 0 -- Hnf4e04699 piggyBac transposase 0 -- Hnf4f06265 piggyBac transposase 0 -- Hnf4Δ17 P-element activity 0 Yes
Alleles Carried on Transgenic Constructs ( 9 )
For All Alleles Carried on Transgenic Constructs Show
Allele of Hnf4 Class Mutagen Stocks Known lesion Hnf4GD4362 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes Hnf4hs.T:Scer\GAL4.T:Ivir\HA1 in vitro construct - regulatory fusion in vitro construct - coding region fusion 1 Yes Hnf4JF02539 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes Hnf4T:Avic\GFP-SF,T:Zzzz\FLAG in vitro construct - coding region fusion 1 Yes Hnf4hs.Act in vitro construct - regulatory fusion 0 Yes Hnf4hs.LBD.T:Scer\GAL4 in vitro construct - regulatory fusion in vitro construct - coding region fusion 0 Yes Hnf4NIG.9310R in vitro construct - RNAi in vitro construct - regulatory fusion 0 Yes Hnf4Scer\UAS.cPa in vitro construct - regulatory fusion 0 Yes Hnf4tCH321-12P12 in vitro construct - genomic fragment 0 Yes
Aneuploid Aberrations
Disrupted in	Df(2L)Exel7039 (Ryder, 2004.4.26) Df(2L)TE30Cb-1 (Zhong et al., 1993) Df(2L)Δ17 (Palanker et al., 2009)
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data heat-shock construct P{hs-GAL4-Hnf4.LBD.HA} NA P{hs-Hnf4} NA P{hsp70-GAL4-Hnf4} NA GAL4 construct P{hs-GAL4-Hnf4.LBD.HA} No P{hsp70-GAL4-Hnf4} No UAS construct P{GD4362} NA P{NIG.9310R} NA P{TRiP.JF02539} NA P{UAS-Hnf4.P} NA characterization construct PBac{CH321-12P12} NA PBac{Hnf4-GFP.FLAG} NA
Insertions
	Type of insertions Name Expression data insertion of mobile activating element P{EP}Hnf4EP2449 NA P{EPgy2}Hnf4EY19034 NA miscellaneous insertions Mi{MIC}Hnf4MI05541 NA P{RS5}Hnf45-HA-1982 NA P{RS5}Hnf45-SZ-4012 NA P{SUPor-P}Hnf4KG06827a NA P{SUPor-P}Hnf4KG06827b NA P{SUPor-P}Hnf4KG08976 NA PBac{5HPw+}Hnf4B181 NA PBac{PB}Hnf4c00451 NA PBac{PB}Hnf4c02056 NA PBac{PB}Hnf4c06605 NA PBac{RB}Hnf4e02246 NA PBac{RB}Hnf4e04699 NA PBac{WH}Hnf4f00460 NA PBac{WH}Hnf4f03347 NA PBac{WH}Hnf4f06265 NA
Gene Ontology: Function, Process & Cellular Component ( 13 unique terms )
Terms Based on Experimental Evidence ( 2 terms )
Molecular Function ( 0 terms)
Biological Process
CV term Evidence References
lipid catabolic process inferred from direct assay (Palanker et al., 2009) lipid oxidation inferred from direct assay (Palanker et al., 2009)
Cellular Component ( 0 terms)
Terms Based on Predictions or Assertions ( 11 terms )
Molecular Function
CV term Evidence References
ligand-activated sequence-specific DNA binding RNA polymerase II transcription factor activity inferred from sequence or structural similarity with UniProtKB:P79926 (FlyBase, 1992-) non-traceable author statement (Swiss-Prot Project Members, 1996.6.1, Maglich et al., 2001) sequence-specific DNA binding inferred from electronic annotation with InterPro:IPR001628 (FlyBase Curators et al., 2004-) sequence-specific DNA binding transcription factor activity inferred from sequence or structural similarity with UniProtKB:P79926 (FlyBase, 1992-) non-traceable author statement (Swiss-Prot Project Members, 1996.6.1) steroid hormone receptor activity inferred from electronic annotation with InterPro:IPR000536, InterPro:IPR001723, InterPro:IPR008946 (FlyBase Curators et al., 2004-) zinc ion binding inferred from electronic annotation with InterPro:IPR000003, InterPro:IPR001628, InterPro:IPR013088 (FlyBase Curators et al., 2004-)
Biological Process
CV term Evidence References
endoderm development non-traceable author statement (Swiss-Prot Project Members, 1996.6.1) lipid biosynthetic process non-traceable author statement (Lafont, 2000) mesoderm development non-traceable author statement (Swiss-Prot Project Members, 1996.6.1) regulation of transcription, DNA-dependent inferred from electronic annotation with InterPro:IPR000003, InterPro:IPR000536, InterPro:IPR001628, InterPro:IPR001723, InterPro:IPR008946, InterPro:IPR013088 (FlyBase Curators et al., 2004-) steroid hormone mediated signaling pathway inferred from electronic annotation with InterPro:IPR000536, InterPro:IPR008946 (FlyBase Curators et al., 2004-)
Cellular Component
CV term Evidence References
nucleus inferred from sequence or structural similarity with UniProtKB:P79926 (FlyBase, 1992-) non-traceable author statement (Swiss-Prot Project Members, 1996.6.1)
Sequence Ontology: Class of Gene
	nuclear_gene   protein_coding_gene
Interactions & Pathways
Summary of Physical Interactions
Summary of Genetic Interactions
Interacts with	Please look at the allele data for full details of the genetic interactions Hnf4 allele Gene References
External Data
Linkouts	BioGRID - A database of protein and genetic interactions • 69122 DroID - A comprehensive database of gene and protein interactions. • FBgn0004914 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 44544
Orthologs
OrthoDB Orthologs (50) - 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 EOG6Q5984 Dipteran inclusive ortholog search EOG6MPHZF Insect inclusive ortholog search EOG6XSJK4 Arthropod inclusive ortholog search EOG6SQVBW Metazoa inclusive ortholog search EOG6HJ1VM
Orthologs in Drosophila Species (EOG6Q5984)
Organism Common Name Gene AAA Syntenic Ortholog Multiple Dmel Genes in this Orthologous Group Drosophila melanogaster fruit fly  Dmel\Hnf4     Drosophila simulans   Dsim\GD22387 Y   Drosophila sechellia   Dsec\GM12759 Y   Drosophila erecta   Dere\GG24056 Y   Drosophila yakuba   Dyak\GE10817 Y   Drosophila ananassae   Dana\GF14359 Y   Drosophila pseudoobscura pseudoobscura   Dpse\GA21689 Y   Drosophila persimilis   Dper\GL26219 Y   Drosophila willistoni   Dwil\GK18664 Y   Drosophila virilis   Dvir\GJ17882 Y   Drosophila mojavensis   Dmoj\GI12430 Y   Drosophila grimshawi   Dgri\GH13232 Y
Orthologs in non-Drosophila Dipterans (EOG6MPHZF)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Aedes aegypti Yellow fever mosquito  Aaeg\AAEL011323   Anopheles gambiae Malaria mosquito  Agam\AGAP002155   Culex quinquefasciatus Southern house mosquito  Cqui\CPIJ010249
Orthologs in non-Dipteran Insects (EOG6XSJK4)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Apis mellifera Western honey bee  Amel\GB45602   Nasonia vitripennis Parasitic wasp  Nvit\Nasvi2EG029395   Acromyrmex echinatior Panamanian leafcutter ant  Aech\AECH15579   Atta cephalotes Leafcutter ant  Acep\ACEP17779   Camponotus floridanus Florida carpenter ant  Cflo\CFLO22342   Harpegnathos saltator Jerdons jumping ant  Hsal\HSAL21209   Linepithema humile Argentine ant  Lhum\LH14103   Pogonomyrmex barbatus Red harvester ant  Pbar\PB15074   Solenopsis invicta Red fire ant  Sinv\SINV18643   Acyrthosiphon pisum Pea aphid  Apim\ACYPI009409   Bombyx mori Silkmoth  Bmor\BGIBMGA001947   Pediculus humanus Human body louse  Phum\PHUM477600   Tribolium castaneum Red flour beetle  Tcas\Hnf4
Orthologs in non-Insect Arthropods (EOG6SQVBW)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Daphnia pulex Water flea  Dpux\JGI_V11_59378   Ixodes scapularis Deer tick  Isca\ISCW008774
Orthologs in non-Arthropod Metazoa (EOG6HJ1VM)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Caenorhabditis elegans Nematode  Cele\nhr-49   Caenorhabditis elegans Nematode  Cele\nhr-69   Caenorhabditis elegans Nematode  Cele\nhr-35   Caenorhabditis elegans Nematode  Cele\nhr-64   Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_021192gn   Danio rerio Zebrafish  Drer\ENSDARG00000012764   Danio rerio Zebrafish  Drer\hnf4g   Danio rerio Zebrafish  Drer\hnf4a   Xenopus tropicalis Western clawed frog  Xtro\hnf4g   Xenopus tropicalis Western clawed frog  Xtro\hnf4b   Xenopus tropicalis Western clawed frog  Xtro\hnf4a   Gallus gallus Domestic chicken  Ggal\HNF4A   Gallus gallus Domestic chicken  Ggal\HNF4beta   Gallus gallus Domestic chicken  Ggal\HNF4G   Mus musculus House mouse  Mmus\Hnf4g   Mus musculus House mouse  Mmus\Hnf4a   Rattus norvegicus Norway rat  Rnor\Hnf4a   Rattus norvegicus Norway rat  Rnor\Hnf4g   Homo sapiens Human  Hsap\HNF4G   Homo sapiens Human  Hsap\NR2A1
Human Orthologs (2)
Gene OMIM HGNC Hsap\HNF4G     Hsap\NR2A1
AAA Orthologs (11) based on analysis using Dmel annotation version 4.3
Organism Gene Drosophila simulans Dsim\GD22387 Drosophila sechellia Dsec\GM12759 Drosophila erecta Dere\GG24056 Drosophila yakuba Dyak\GE10817 Drosophila ananassae Dana\GF14359 Drosophila pseudoobscura pseudoobscura Dpse\GA21689 Drosophila persimilis Dper\GL26219 Drosophila willistoni Dwil\GK18664 Drosophila virilis Dvir\GJ17882 Drosophila mojavensis Dmoj\GI12430 Drosophila grimshawi Dgri\GH13232
Stocks & Reagents
Stocks Listed in FlyBase ( 19 )
Bloomington	17249 w1118; P{EP}Hnf4EP2449 38649 w1118; PBac{Hnf4-GFP.FLAG}VK00033 16471 y1; P{SUPor-P}Hnf4KG08976 29375 y1 v1; P{TRiP.JF02539}attP2 18030 w1118; PBac{RB}Hnf4e02246/CyO
Harvard	- PBac{PB}Hnf4c00451 - PBac{RB}Hnf4e02246 - PBac{WH}Hnf4f00460 - PBac{WH}Hnf4f03347
Kyoto	125507 w1118; P{RS5}Hnf45-HA-1982 126287 w1118; P{RS5}Hnf45-SZ-4012
VDRC	v12692 w1118; P{GD4362}v12692
	More stocks available...
Genomic Clones ( 1 )
	BACR02B16 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 66 )
	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	IP16932 RE09535 RH29074
Other clones	FI04795
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	AT28571 GM12201 GM12595 RE07606 RE11107 RE22516 RE53218 RE54117 RH24949 RH28295 RH29493 RH33632 RH35801 SD08077
Other clones	47429 70744 99743 161157 214353.10 522369 CK01.18A.F9 CK01.20A.F3 CK01.53D.A4 CK01.65B.C10 CK01.67B.E12 CK01.97C.C12 CK01.108B.D12 CK01.109D.H11 Dmel_dig_007190_0710_1633 Dmel_dig_018330_0680_1938 EK018717 EK020021 EK043434 EK054250 EK067543 EK075642 EK092248 EK099032 EK166304 EK175513 EK222439 EK264820 EK277403 EN01913 EP08836 IP16832 IP17032 IP17132 RP003036383 RP003110079 RP003240393 RP003240521 RP003253780 RP003261474 RP003295143 RP003314080 RP003335641 RP003345123 RP003476800 RP003543032 RP003617202 RP003633703
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0004914 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 44544
Antibody Information
	polyclonal (Palanker et al., 2009, Gutzwiller et al., 2010)
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of
Source for database merge of	Source for merge of: Hnf4 CG9310 (Bayraktaroglu, 2000.4.13)
Additional comments
Other Comments
	Starved Hnf4 mutant larvae consume glycogen normally but retain lipids in their midgut nd fat body and have increased levels of long-chain fatty acids, suggesting that they are unable to efficiently mobilize stored fat for energy. (Palanker et al., 2009) Both triglycerides and long chain fatty acids accumulate upon starvation in Hnf4 mutant larvae. (Palanker et al., 2009) Identified on basis of DNA sequence similarity to rat hepatocyte nuclear factor 4. The analogous expression patterns of the two genes, together with similar findings for rat hepatocyte nuclear factor 3 and fkh, suggest evolutionary relationships between a group of genes involved in gut formation in invertebrates and mammals. (Zhong et al., 1993) Early expression of Hnf4 at the terminal regions of the syncytial blastoderm may indicate a role of Hnf4 in midgut determination. (Zhong and Darnell, 1992)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_057539 NM_164833 NM_164834 NM_001103656 RefSeq (Proteins) • NP_476887 NP_723413 NP_723414 NP_001097126 DDBJ / EMBL / GenBank • AAB09592 AAF52702 AAF52703 AAN10680 AAN71555 AAO39537 ABV53653 AC008331 AQ073595 BI168690 BI588062 BT001800 BT003533 CL528241 CZ466469 CZ467646 CZ470849 CZ470850 CZ480074 CZ482480 CZ482481 CZ482932 CZ485897 CZ485898 CZ488941 CZ488942 U70874 Entrez Gene - A searchable database of RefSeq genes. • 44544 UniProtKB/Swiss-Prot • P49866 UniProtKB/TrEMBL • A8DYX8 Q8IGG2 Q8IPF2 Q9VLI7
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • Nuclear hormone receptor, ligand-binding, core (IPR000536) Zinc finger, nuclear hormone receptor-type (IPR001628) Steroid hormone receptor (IPR001723) Nuclear hormone receptor, ligand-binding (IPR008946) Zinc finger, NHR/GATA-type (IPR013088) Retinoid X receptor/HNF4 (IPR000003) BDGP expression data - Patterns of gene expression in Drosophila embryogenesis • RE09535
Linkouts
	BioGRID - A database of protein and genetic interactions • 69122 DroID - A comprehensive database of gene and protein interactions. • FBgn0004914 DRSC - Results from RNAi screens. • FBgn0004914 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0004914 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG9310-RA FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0004914 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 44544 Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution • /dbzhnsky/hnf4-1.htm InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 44544 modMine - Data generated by the modENCODE project. • FBgn0004914
Synonyms & Secondary IDs ( 15 )
Reported As
Symbol Synonym	CG9310 (Perkins et al., 2009, Cherbas et al., 2011, Laurençon et al., 2007) dHNF4 (Palanker and Thummel, 2005, Fisk and Thummel, 1995, Palanker et al., 2009, Dubrovsky et al., 2011) dHNF-4 (Palanker and Thummel, 2006, Dubrovsky et al., 2011) DmHNF4 (Henrich and Brown, 1995) HNF-4 (Lafont, 2000) HNF4 (Stainier, 2002, Zhong and Darnell, 1992, Palanker and Thummel, 2007, Palanker et al., 2006, King-Jones and Thummel, 2005, de Rosny et al., 2008, Moshkin et al., 2009, Li-Kroeger et al., 2012, Gutzwiller et al., 2010) Hnf4 (Gutierrez et al., 2007, Zhang et al., 2006, Venken et al., 2009, Spokony and White, 2012.5.22, Laurençon et al., 2007, Japanese National Institute of Genetics, 2012.5.21) Hnf-4 (Okumura et al., 2007) HNF-4(D) (Zhong, 1996.9.13, Segraves, 1994) Hnf-4h (Zhong et al., 1993) HNF4α (Orian, 2006) NR2A4 (Nuclear Receptors Nomenclature Committee, 1999, King-Jones and Thummel, 2005)
Name Synonym	hepatocyte nuclear factor 4 (Stainier, 2002) Hepatocyte nuclear factor 4   Hepatocyte nuclear factor 4 homologue (Zhong et al., 1993)
Secondary FlyBase IDs
	FBgn0032062
References ( 59 )
Generate a list of	All references relating to this gene ( 59 )
List References by type	Research paper  ( 20 ) Supplementary material  ( 4 ) Review  ( 7 ) Personal communication to FlyBase  ( 15 ) Abstract  ( 4 ) FlyBase analysis  ( 3 ) DNA/RNA sequence record  ( 1 ) Stock list  ( 1 ) Protein sequence record  ( 1 ) Website  ( 1 ) Curated genome annotation  ( 2 )
Recent research papers ( 3 )
	Li-Kroeger et al., 2012, Development 139(9): 1611--1619 Integration of an abdominal Hox complex with Pax2 yields cell-specific EGF secretion from Drosophila sensory precursor cells. [FBrf0217994] Cherbas et al., 2011, Genome Res. 21(2): 301--314 The transcriptional diversity of 25 Drosophila cell lines. [FBrf0213077] Dubrovsky et al., 2011, J. Biol. Chem. 286(38): 33689--33700 The Drosophila FTZ-F1 Nuclear Receptor Mediates Juvenile Hormone Activation of E75A Gene Expression through an Intracellular Pathway. [FBrf0215576] Show all research papers ...
Recent reviews (0)
	All reviews listed in FlyBase were published before 2011 Show reviews ...