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Gene Dmel\hay

General Information
Symbol	Dmel\hay	Species	D. melanogaster
Name	haywire	Annotation symbol	CG8019
Feature type	protein_coding_gene	FlyBase ID	FBgn0001179
Gene Model Status	Current	Stock availability	5 publicly available
Also Known As	ERCC3, TFIIH, XPB, DmXPB
Genomic Location
Chromosome (arm)	3L	Recombination map	3-34.4
Cytogenetic map	67E5-67E5	Sequence location	3L:10,624,179..10,627,069 [+]
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 haywire is referred to in FlyBase by the symbol Dmel\hay (CG8019, FBgn0001179). It is a protein_coding_gene from Drosophila melanogaster. Based on sequence similarity, it is predicted to have molecular function: helicase activity; ATP-dependent 3'-5' DNA helicase activity. There is experimental evidence that it is involved in the biological process: adult locomotory behavior; transcription from RNA polymerase II promoter; regulation of alternative mRNA splicing, via spliceosome; response to UV. 30 alleles are reported. The phenotypes of these alleles are annotated with: wing margin; macrochaeta; chaeta; wing; imaginal disc; microchaeta; embryonic/larval central nervous system. It has 2 annotated transcripts and 2 annotated polypeptides. Protein features are: Helicase Ercc3; Helicase, C-terminal; Helicase, superfamily 1/2, ATP-binding domain; Helicase/UvrB domain. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of low expression. Peak expression observed within 00-12 hour embryonic stages, during early pupal stages, in adult female stages. Summary of FlyAtlas Anatomical Expression Data: Expression at moderate levels in the following post-embryonic organs or tissues: larval/adult central nervous system, larval Malpighian tubules, adult ovary. Comments on Affy2 ProbeSet: ProbeSet 1641306_at completely aligns to an exonic region common to each of the 2 FlyBase-annotated transcript isoforms of hay. Gene sequence location is 3L:10624179..10627069.
User Contributed Data
	Beta version, feedback welcome
Phenotypic Description from the Red Book (Lindsley & Zimm 1992)
Gene/Allele symbols may differ from current usage	hay: haywire The original allele, haync2, is homozygous male sterile; some derivative alleles are recessive lethal. Homozygous haync2 males display defects in meiosis, flagellar elongation, and nuclear shaping. haync2 also male sterile in trans heterozygotes with recessive male-sterile alleles of β Tub85D or with wrlnc4 suggesting a role for the haywire product in microtubule function. Deficiencies of hay are fertile in heterozygous combination with the above interacting mutations, indicating that the extragenic failure haync2 to complement is based on a poison product mechanism. This feature was used to select alleles (haync2rv1-8) that revert the failure of haync2 to complement β2tn (= βTub85Dn).
Recent Updates
Description	What does this section display? This section contains items that were added to this record for each release. It currently only tracks new links between this FlyBase report and other FlyBase data classes (e.g. genes, references, stocks) or controlled vocabulary terms (e.g. GO, anatomy terms). What does this section not display? This section does not currently display links that were removed or gene model changes.
Update Feed	Click the icon below to subscribe to this FlyBase record and receive updates automatically through your feed reader.
FB2013_03
FB2013_02
All updates	Click here to see a list of all updates to this record from FB2010_08 and on.
Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map Evidence for location 67E5-67E5   Limits computationally determined from genome sequence between P{lacW}l(3)L0539L0539&P{PZ}Dhh1rL562 and P{PZ}simj01814
Experimentally Determined Cytological Location
Cytogenetic map Notes References 63E3-63E7     (Koken, 1992.9.7) 67E3-67E4   (determined by in situ hybridisation)   (Koken et al., 1992) 67E3-67E4   (determined by in situ hybridisation)   (Mounkes et al., 1992)
Experimentally Determined Recombination Data
Location	3-34.4   3-24.4 +/- 0.5 (Fuller, 1986)
Left of (cM)	sens rs (Fuller, 1986)
Right of (cM)	cur (Fuller, 1986)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\hay 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 5.43 Gene model reviewed during 5.46 Shares 5' UTR with downstream gene.
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) hay-RA FBtr0076253  NM_079296   2604   798 hay-RB FBtr0114599  NM_001144459   2511   798
Additional Transcript Data & Comments
Reported size (kB)	2.7 (unknown) (Koken et al., 1992) 2.5 (northern blot) (Mounkes et al., 1992)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kDa) Length (aa) Theoretical pI RefSeq ID GenBank protein hay-PA   FBpp0075982   90.3   798   7.94     NP_524020   AAF50150 hay-PB   FBpp0113091   90.3   798   7.94     NP_001137931   ACL83286
Additional Polypeptide Data & Comments
Reported size (kDa)	802 (aa) (Koken et al., 1992) 801 (aa) (Mounkes et al., 1992)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Helicase Ercc3 (IPR001161) Helicase, C-terminal (IPR001650) Helicase/UvrB domain (IPR006935) Helicase, superfamily 1/2, ATP-binding domain (IPR014001) P-loop containing nucleoside triphosphate hydrolase (IPR027417)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AE014296 AAF50150   AE014296 ACL83286   AI512246   AW943690   AY051975 AAK93399   BI165367   BI231933   BI241661   BI367520   BI372130   BI375247   BT025199   CK605032   CO181771   CO292363   CO299801   CO340660   CZ482516   EC053649   EC053652   EC055676   EC056091   EC063561   EC253379   GH947872   GH948350   GH950682   GH952296   GH952445   GH952465   GH960799   GH965054   GH965272   GH966246   GH968725   GH971535   GH972824   GH979332   GH981110   GH981992   GH983654   L02965 AAA74931   X68309 CAA48386
UniProtKB/Swiss-Prot	Q02870
UniProtKB/TrEMBL	B7Z0G1
Mapped Features
Mapped Features have been reorganized, please see this article for details. Additional mapped features and mutations can be found on GBrowse or related reports. Type Symbol & Location Additional Notes References
External Data
Linkouts
Crossreferences
Expression Data
Transcript Expression
in situ Stage Tissue/Position (including subcellular localization) Reference embryonic stage 1 -- 3   organism   (Fisher et al., 2012) Comment:maternally deposited embryonic stage 4 -- 6   organism | ubiquitous   (Fisher et al., 2012) embryonic stage 7 -- 8   organism | ubiquitous   (Fisher et al., 2012) embryonic stage 9 -- 10   organism | ubiquitous   (Fisher et al., 2012) embryonic stage 11 -- 12   organism | faint & ubiquitous   (Fisher et al., 2012) northern blot Stage Tissue/Position (including subcellular localization) Reference embryonic stage -- adult stage     (Mounkes et al., 1992)
Additional Descriptive Data
	hay transcripts are detected at all stages of development and are present at lower levels in embryos than in later stages. (Mounkes et al., 1992) hay transcripts are detected throughout development on northern blots. (Koken 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
holo TFIIH complex inferred from direct assay (Austin and Biggin, 1996) nucleus inferred from direct assay (Fregoso et al., 2007, Aguilar-Fuentes et al., 2008, Austin and Biggin, 1996)
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, larval Malpighian tubules, adult ovary. [download data (TSV)] Guide to FlyAtlas expression level colors   No expression (0 - 9.999)   Low expression (10 - 99.999)   Moderate expression (100 - 499.999)   High level expression (500 - 999.999)   Very high expression (>999.999) Linear, scaled to maximum expression level Tissue   Expression Level Larval Central Nervous System    170.425 Larval Midgut    79 Larval Hindgut    76.8 Larval Malpighian Tubules    102.2 Larval Fat Body    78.1 Larval Salivary Gland    85.9 Larval Trachea    68.825 Larval Carcass    68.2 Adult Head    59.4 Adult Eye    42.45 Adult Brain    111.6 Adult Thoracic-Abdominal Ganglion    94.8 Adult Crop    56.4 Adult Midgut    90 Adult Hindgut    62.3 Adult Malpighian Tubules    60.1 Adult Fat Body    46.2 Adult Salivary Gland    51.2 Adult Heart    33.475 Adult VirginFemale Spermatheca    46.9 Adult InseminatedFemale Spermatheca    47.9 Adult Ovary    134.7 Adult Testis    56.6 Adult Male Accessory Gland    63.5 Adult Carcass    57.7 Expression Level Scale  None   Low   Moderate  Linear, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    170.425 Larval Midgut    79 Larval Hindgut    76.8 Larval Malpighian Tubules    102.2 Larval Fat Body    78.1 Larval Salivary Gland    85.9 Larval Trachea    68.825 Larval Carcass    68.2 Adult Head    59.4 Adult Eye    42.45 Adult Brain    111.6 Adult Thoracic-Abdominal Ganglion    94.8 Adult Crop    56.4 Adult Midgut    90 Adult Hindgut    62.3 Adult Malpighian Tubules    60.1 Adult Fat Body    46.2 Adult Salivary Gland    51.2 Adult Heart    33.475 Adult VirginFemale Spermatheca    46.9 Adult InseminatedFemale Spermatheca    47.9 Adult Ovary    134.7 Adult Testis    56.6 Adult Male Accessory Gland    63.5 Adult Carcass    57.7 Expression Level Scale  None   Low   Moderate   High  Linear, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    170.425 Larval Midgut    79 Larval Hindgut    76.8 Larval Malpighian Tubules    102.2 Larval Fat Body    78.1 Larval Salivary Gland    85.9 Larval Trachea    68.825 Larval Carcass    68.2 Adult Head    59.4 Adult Eye    42.45 Adult Brain    111.6 Adult Thoracic-Abdominal Ganglion    94.8 Adult Crop    56.4 Adult Midgut    90 Adult Hindgut    62.3 Adult Malpighian Tubules    60.1 Adult Fat Body    46.2 Adult Salivary Gland    51.2 Adult Heart    33.475 Adult VirginFemale Spermatheca    46.9 Adult InseminatedFemale Spermatheca    47.9 Adult Ovary    134.7 Adult Testis    56.6 Adult Male Accessory Gland    63.5 Adult Carcass    57.7 Expression Level Scale  None   Low   Moderate   High   Very high  Linear, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    170.425 Larval Midgut    79 Larval Hindgut    76.8 Larval Malpighian Tubules    102.2 Larval Fat Body    78.1 Larval Salivary Gland    85.9 Larval Trachea    68.825 Larval Carcass    68.2 Adult Head    59.4 Adult Eye    42.45 Adult Brain    111.6 Adult Thoracic-Abdominal Ganglion    94.8 Adult Crop    56.4 Adult Midgut    90 Adult Hindgut    62.3 Adult Malpighian Tubules    60.1 Adult Fat Body    46.2 Adult Salivary Gland    51.2 Adult Heart    33.475 Adult VirginFemale Spermatheca    46.9 Adult InseminatedFemale Spermatheca    47.9 Adult Ovary    134.7 Adult Testis    56.6 Adult Male Accessory Gland    63.5 Adult Carcass    57.7 Expression Level Scale  Very high  log, scaled to maximum expression level Tissue   Expression Level Larval Central Nervous System    170.425 Larval Midgut    79 Larval Hindgut    76.8 Larval Malpighian Tubules    102.2 Larval Fat Body    78.1 Larval Salivary Gland    85.9 Larval Trachea    68.825 Larval Carcass    68.2 Adult Head    59.4 Adult Eye    42.45 Adult Brain    111.6 Adult Thoracic-Abdominal Ganglion    94.8 Adult Crop    56.4 Adult Midgut    90 Adult Hindgut    62.3 Adult Malpighian Tubules    60.1 Adult Fat Body    46.2 Adult Salivary Gland    51.2 Adult Heart    33.475 Adult VirginFemale Spermatheca    46.9 Adult InseminatedFemale Spermatheca    47.9 Adult Ovary    134.7 Adult Testis    56.6 Adult Male Accessory Gland    63.5 Adult Carcass    57.7 Expression Level Scale  None   Low   Moderate  log, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    170.425 Larval Midgut    79 Larval Hindgut    76.8 Larval Malpighian Tubules    102.2 Larval Fat Body    78.1 Larval Salivary Gland    85.9 Larval Trachea    68.825 Larval Carcass    68.2 Adult Head    59.4 Adult Eye    42.45 Adult Brain    111.6 Adult Thoracic-Abdominal Ganglion    94.8 Adult Crop    56.4 Adult Midgut    90 Adult Hindgut    62.3 Adult Malpighian Tubules    60.1 Adult Fat Body    46.2 Adult Salivary Gland    51.2 Adult Heart    33.475 Adult VirginFemale Spermatheca    46.9 Adult InseminatedFemale Spermatheca    47.9 Adult Ovary    134.7 Adult Testis    56.6 Adult Male Accessory Gland    63.5 Adult Carcass    57.7 Expression Level Scale  None   Low   Moderate   High  log, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    170.425 Larval Midgut    79 Larval Hindgut    76.8 Larval Malpighian Tubules    102.2 Larval Fat Body    78.1 Larval Salivary Gland    85.9 Larval Trachea    68.825 Larval Carcass    68.2 Adult Head    59.4 Adult Eye    42.45 Adult Brain    111.6 Adult Thoracic-Abdominal Ganglion    94.8 Adult Crop    56.4 Adult Midgut    90 Adult Hindgut    62.3 Adult Malpighian Tubules    60.1 Adult Fat Body    46.2 Adult Salivary Gland    51.2 Adult Heart    33.475 Adult VirginFemale Spermatheca    46.9 Adult InseminatedFemale Spermatheca    47.9 Adult Ovary    134.7 Adult Testis    56.6 Adult Male Accessory Gland    63.5 Adult Carcass    57.7 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    170.425 Larval Midgut    79 Larval Hindgut    76.8 Larval Malpighian Tubules    102.2 Larval Fat Body    78.1 Larval Salivary Gland    85.9 Larval Trachea    68.825 Larval Carcass    68.2 Adult Head    59.4 Adult Eye    42.45 Adult Brain    111.6 Adult Thoracic-Abdominal Ganglion    94.8 Adult Crop    56.4 Adult Midgut    90 Adult Hindgut    62.3 Adult Malpighian Tubules    60.1 Adult Fat Body    46.2 Adult Salivary Gland    51.2 Adult Heart    33.475 Adult VirginFemale Spermatheca    46.9 Adult InseminatedFemale Spermatheca    47.9 Adult Ovary    134.7 Adult Testis    56.6 Adult Male Accessory Gland    63.5 Adult Carcass    57.7 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    59.4   NA  Eye    42.45   NA  Brain    111.6   170.425  Central Nervous System    NA   NA  Thoracic-Abdominal Ganglion    94.8   NA  Crop    56.4   79  Midgut    90   76.8  Hindgut    62.3   102.2  Malpighian Tubules    60.1   78.1  Fat Body    46.2   85.9  Salivary Gland    51.2   NA  Heart    33.475   68.825  Trachea    NA   NA  VirginFemale Spermatheca    46.9   NA  InseminatedFemale Spermatheca    47.9   NA  Ovary    134.7   NA  Testis    56.6   NA  Male Accessory Gland    63.5   68.2  Carcass    57.7 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    21 central nervous system, larvae L3    18 central nervous system, pupae P8    10 head, virgin 1-day female    6 head, virgin 4-day female    4 head, virgin 20-day female    5 head, mated 1-day female    4 head, mated 4-day female    6 head, mated 20-day female    4 head, mated 1-day male    7 head, mated 4-day male    8 head, mated 20-day male    12 salivary gland, larvae L3 wandering    2 salivary gland, white prepupae    6 digestive system, larvae L3 wandering    7 digestive system, 1-day adult    7 digestive system, 4-day adult    7 digestive system, 20-day adult    7 fat body, larvae L3 wandering    2 fat body, white prepupae    7 fat body, pupae P8    3 carcass, larvae L3 wandering    12 carcass, 1-day adult    4 carcass, 4-day adult    5 carcass, 20-day adult    3 ovary, virgin 4-day female    28 ovary, mated 4-day female    26 testis, mated 4-day male    9 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    21 central nervous system, larvae L3    18 central nervous system, pupae P8    10 head, virgin 1-day female    6 head, virgin 4-day female    4 head, virgin 20-day female    5 head, mated 1-day female    4 head, mated 4-day female    6 head, mated 20-day female    4 head, mated 1-day male    7 head, mated 4-day male    8 head, mated 20-day male    12 salivary gland, larvae L3 wandering    2 salivary gland, white prepupae    6 digestive system, larvae L3 wandering    7 digestive system, 1-day adult    7 digestive system, 4-day adult    7 digestive system, 20-day adult    7 fat body, larvae L3 wandering    2 fat body, white prepupae    7 fat body, pupae P8    3 carcass, larvae L3 wandering    12 carcass, 1-day adult    4 carcass, 4-day adult    5 carcass, 20-day adult    3 ovary, virgin 4-day female  (28) ovary, mated 4-day female  26 testis, mated 4-day male    9 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    21 central nervous system, larvae L3    18 central nervous system, pupae P8    10 head, virgin 1-day female    6 head, virgin 4-day female    4 head, virgin 20-day female    5 head, mated 1-day female    4 head, mated 4-day female    6 head, mated 20-day female    4 head, mated 1-day male    7 head, mated 4-day male    8 head, mated 20-day male    12 salivary gland, larvae L3 wandering    2 salivary gland, white prepupae    6 digestive system, larvae L3 wandering    7 digestive system, 1-day adult    7 digestive system, 4-day adult    7 digestive system, 20-day adult    7 fat body, larvae L3 wandering    2 fat body, white prepupae    7 fat body, pupae P8    3 carcass, larvae L3 wandering    12 carcass, 1-day adult    4 carcass, 4-day adult    5 carcass, 20-day adult    3 ovary, virgin 4-day female    28 ovary, mated 4-day female    26 testis, mated 4-day male    9 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    21 central nervous system, larvae L3    18 central nervous system, pupae P8    10 head, virgin 1-day female    6 head, virgin 4-day female    4 head, virgin 20-day female    5 head, mated 1-day female    4 head, mated 4-day female    6 head, mated 20-day female    4 head, mated 1-day male    7 head, mated 4-day male    8 head, mated 20-day male    12 salivary gland, larvae L3 wandering    2 salivary gland, white prepupae    6 digestive system, larvae L3 wandering    7 digestive system, 1-day adult    7 digestive system, 4-day adult    7 digestive system, 20-day adult    7 fat body, larvae L3 wandering    2 fat body, white prepupae    7 fat body, pupae P8    3 carcass, larvae L3 wandering    12 carcass, 1-day adult    4 carcass, 4-day adult    5 carcass, 20-day adult    3 ovary, virgin 4-day female    28 ovary, mated 4-day female    26 testis, mated 4-day male    9 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    21 central nervous system, larvae L3    18 central nervous system, pupae P8    10 head, virgin 1-day female    6 head, virgin 4-day female    4 head, virgin 20-day female    5 head, mated 1-day female    4 head, mated 4-day female    6 head, mated 20-day female    4 head, mated 1-day male    7 head, mated 4-day male    8 head, mated 20-day male    12 salivary gland, larvae L3 wandering    2 salivary gland, white prepupae    6 digestive system, larvae L3 wandering    7 digestive system, 1-day adult    7 digestive system, 4-day adult    7 digestive system, 20-day adult    7 fat body, larvae L3 wandering    2 fat body, white prepupae    7 fat body, pupae P8    3 carcass, larvae L3 wandering    12 carcass, 1-day adult    4 carcass, 4-day adult    5 carcass, 20-day adult    3 ovary, virgin 4-day female    28 ovary, mated 4-day female    26 testis, mated 4-day male    9 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    21 central nervous system, larvae L3    18 central nervous system, pupae P8    10 head, virgin 1-day female    6 head, virgin 4-day female    4 head, virgin 20-day female    5 head, mated 1-day female    4 head, mated 4-day female    6 head, mated 20-day female    4 head, mated 1-day male    7 head, mated 4-day male    8 head, mated 20-day male    12 salivary gland, larvae L3 wandering    2 salivary gland, white prepupae    6 digestive system, larvae L3 wandering    7 digestive system, 1-day adult    7 digestive system, 4-day adult    7 digestive system, 20-day adult    7 fat body, larvae L3 wandering    2 fat body, white prepupae    7 fat body, pupae P8    3 carcass, larvae L3 wandering    12 carcass, 1-day adult    4 carcass, 4-day adult    5 carcass, 20-day adult    3 ovary, virgin 4-day female  28 ovary, mated 4-day female  26 testis, mated 4-day male    9 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    21 central nervous system, larvae L3    18 central nervous system, pupae P8    10 head, virgin 1-day female    6 head, virgin 4-day female    4 head, virgin 20-day female    5 head, mated 1-day female    4 head, mated 4-day female    6 head, mated 20-day female    4 head, mated 1-day male    7 head, mated 4-day male    8 head, mated 20-day male    12 salivary gland, larvae L3 wandering    2 salivary gland, white prepupae    6 digestive system, larvae L3 wandering    7 digestive system, 1-day adult    7 digestive system, 4-day adult    7 digestive system, 20-day adult    7 fat body, larvae L3 wandering    2 fat body, white prepupae    7 fat body, pupae P8    3 carcass, larvae L3 wandering    12 carcass, 1-day adult    4 carcass, 4-day adult    5 carcass, 20-day adult    3 ovary, virgin 4-day female    28 ovary, mated 4-day female    26 testis, mated 4-day male    9 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    21 central nervous system, larvae L3    18 central nervous system, pupae P8    10 head, virgin 1-day female    6 head, virgin 4-day female    4 head, virgin 20-day female    5 head, mated 1-day female    4 head, mated 4-day female    6 head, mated 20-day female    4 head, mated 1-day male    7 head, mated 4-day male    8 head, mated 20-day male    12 salivary gland, larvae L3 wandering    2 salivary gland, white prepupae    6 digestive system, larvae L3 wandering    7 digestive system, 1-day adult    7 digestive system, 4-day adult    7 digestive system, 20-day adult    7 fat body, larvae L3 wandering    2 fat body, white prepupae    7 fat body, pupae P8    3 carcass, larvae L3 wandering    12 carcass, 1-day adult    4 carcass, 4-day adult    5 carcass, 20-day adult    3 ovary, virgin 4-day female    28 ovary, mated 4-day female    26 testis, mated 4-day male    9 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 00-12 hour embryonic stages, during early pupal stages, in adult female 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    26 embryo 02-04hr    31 embryo 04-06hr    29 embryo 06-08hr    23 embryo 08-10hr    19 embryo 10-12hr    13 embryo 12-14hr    14 embryo 14-16hr    11 embryo 16-18hr    8 embryo 18-20hr    6 embryo 20-22hr    5 embryo 22-24hr    6 larva L1    9 larva L2    9 larva L3 12hr old    8 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    16 white prepupae new    15 white prepupae 12hr    18 white prepupae 24hr    19 pupae 2d postWPP    14 pupae 3d postWPP    8 pupae 4d postWPP    6 adult male 01day    8 adult male 05day    10 adult male 30day    10 adult female 01day    13 adult female 05day    20 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  26 embryo 02-04hr  (31) embryo 04-06hr  (29) embryo 06-08hr    23 embryo 08-10hr    19 embryo 10-12hr    13 embryo 12-14hr    14 embryo 14-16hr    11 embryo 16-18hr    8 embryo 18-20hr    6 embryo 20-22hr    5 embryo 22-24hr    6 larva L1    9 larva L2    9 larva L3 12hr old    8 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    16 white prepupae new    15 white prepupae 12hr    18 white prepupae 24hr    19 pupae 2d postWPP    14 pupae 3d postWPP    8 pupae 4d postWPP    6 adult male 01day    8 adult male 05day    10 adult male 30day    10 adult female 01day    13 adult female 05day    20 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    26 embryo 02-04hr    31 embryo 04-06hr    29 embryo 06-08hr    23 embryo 08-10hr    19 embryo 10-12hr    13 embryo 12-14hr    14 embryo 14-16hr    11 embryo 16-18hr    8 embryo 18-20hr    6 embryo 20-22hr    5 embryo 22-24hr    6 larva L1    9 larva L2    9 larva L3 12hr old    8 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    16 white prepupae new    15 white prepupae 12hr    18 white prepupae 24hr    19 pupae 2d postWPP    14 pupae 3d postWPP    8 pupae 4d postWPP    6 adult male 01day    8 adult male 05day    10 adult male 30day    10 adult female 01day    13 adult female 05day    20 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    26 embryo 02-04hr    31 embryo 04-06hr    29 embryo 06-08hr    23 embryo 08-10hr    19 embryo 10-12hr    13 embryo 12-14hr    14 embryo 14-16hr    11 embryo 16-18hr    8 embryo 18-20hr    6 embryo 20-22hr    5 embryo 22-24hr    6 larva L1    9 larva L2    9 larva L3 12hr old    8 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    16 white prepupae new    15 white prepupae 12hr    18 white prepupae 24hr    19 pupae 2d postWPP    14 pupae 3d postWPP    8 pupae 4d postWPP    6 adult male 01day    8 adult male 05day    10 adult male 30day    10 adult female 01day    13 adult female 05day    20 adult female 30day    20 Expression Level Scale  Extremely high  log, scaled to maximum expression level Developmental Stage   Expression Level embryo 00-02hr    26 embryo 02-04hr    31 embryo 04-06hr    29 embryo 06-08hr    23 embryo 08-10hr    19 embryo 10-12hr    13 embryo 12-14hr    14 embryo 14-16hr    11 embryo 16-18hr    8 embryo 18-20hr    6 embryo 20-22hr    5 embryo 22-24hr    6 larva L1    9 larva L2    9 larva L3 12hr old    8 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    16 white prepupae new    15 white prepupae 12hr    18 white prepupae 24hr    19 pupae 2d postWPP    14 pupae 3d postWPP    8 pupae 4d postWPP    6 adult male 01day    8 adult male 05day    10 adult male 30day    10 adult female 01day    13 adult female 05day    20 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  26 embryo 02-04hr  31 embryo 04-06hr  29 embryo 06-08hr    23 embryo 08-10hr    19 embryo 10-12hr    13 embryo 12-14hr    14 embryo 14-16hr    11 embryo 16-18hr    8 embryo 18-20hr    6 embryo 20-22hr    5 embryo 22-24hr    6 larva L1    9 larva L2    9 larva L3 12hr old    8 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    16 white prepupae new    15 white prepupae 12hr    18 white prepupae 24hr    19 pupae 2d postWPP    14 pupae 3d postWPP    8 pupae 4d postWPP    6 adult male 01day    8 adult male 05day    10 adult male 30day    10 adult female 01day    13 adult female 05day    20 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    26 embryo 02-04hr    31 embryo 04-06hr    29 embryo 06-08hr    23 embryo 08-10hr    19 embryo 10-12hr    13 embryo 12-14hr    14 embryo 14-16hr    11 embryo 16-18hr    8 embryo 18-20hr    6 embryo 20-22hr    5 embryo 22-24hr    6 larva L1    9 larva L2    9 larva L3 12hr old    8 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    16 white prepupae new    15 white prepupae 12hr    18 white prepupae 24hr    19 pupae 2d postWPP    14 pupae 3d postWPP    8 pupae 4d postWPP    6 adult male 01day    8 adult male 05day    10 adult male 30day    10 adult female 01day    13 adult female 05day    20 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    26 embryo 02-04hr    31 embryo 04-06hr    29 embryo 06-08hr    23 embryo 08-10hr    19 embryo 10-12hr    13 embryo 12-14hr    14 embryo 14-16hr    11 embryo 16-18hr    8 embryo 18-20hr    6 embryo 20-22hr    5 embryo 22-24hr    6 larva L1    9 larva L2    9 larva L3 12hr old    8 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    16 white prepupae new    15 white prepupae 12hr    18 white prepupae 24hr    19 pupae 2d postWPP    14 pupae 3d postWPP    8 pupae 4d postWPP    6 adult male 01day    8 adult male 05day    10 adult male 30day    10 adult female 01day    13 adult female 05day    20 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+    19 Schneider line 2 Sg4    30 embryonic 1182-4H    24 embryonic GM2    20 embryonic Kc167    31 embryonic S1    37 embryonic S3    20 leg disc CME L1    39 wing disc CME-W2    62 wing disc ML-DmD8    27 wing disc ML-DmD9    51 wing disc ML-DmD16-c3    32 wing disc ML-DmD21    26 wing disc ML-DmD32    20 haltere disc ML-DmD17-c3    38 eye-antennal disc ML-DmD11    33 antennal disc ML-DmD20-c5    36 mixed discs ML-DmD4-c1    29 CNS ML-DmBG1-c1    41 CNS ML-DmBG2-c2    30 tumorous blood cells mbn2    13 ovary fGS/OSS    40 ovary OSC    32 ovary OSS    15 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  Linear, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+    19 Schneider line 2 Sg4  (30) embryonic 1182-4H    24 embryonic GM2    20 embryonic Kc167  (31) embryonic S1  (37) embryonic S3    20 leg disc CME L1  (39) wing disc CME-W2  (62) wing disc ML-DmD8  (27) wing disc ML-DmD9  (51) wing disc ML-DmD16-c3  (32) wing disc ML-DmD21  26 wing disc ML-DmD32    20 haltere disc ML-DmD17-c3  (38) eye-antennal disc ML-DmD11  (33) antennal disc ML-DmD20-c5  (36) mixed discs ML-DmD4-c1  (29) CNS ML-DmBG1-c1  (41) CNS ML-DmBG2-c2  (30) tumorous blood cells mbn2    13 ovary fGS/OSS  (40) ovary OSC  (32) ovary OSS    15 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    19 Schneider line 2 Sg4    30 embryonic 1182-4H    24 embryonic GM2    20 embryonic Kc167    31 embryonic S1    37 embryonic S3    20 leg disc CME L1    39 wing disc CME-W2    62 wing disc ML-DmD8    27 wing disc ML-DmD9    51 wing disc ML-DmD16-c3    32 wing disc ML-DmD21    26 wing disc ML-DmD32    20 haltere disc ML-DmD17-c3    38 eye-antennal disc ML-DmD11    33 antennal disc ML-DmD20-c5    36 mixed discs ML-DmD4-c1    29 CNS ML-DmBG1-c1    41 CNS ML-DmBG2-c2    30 tumorous blood cells mbn2    13 ovary fGS/OSS    40 ovary OSC    32 ovary OSS    15 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+    19 Schneider line 2 Sg4    30 embryonic 1182-4H    24 embryonic GM2    20 embryonic Kc167    31 embryonic S1    37 embryonic S3    20 leg disc CME L1    39 wing disc CME-W2    62 wing disc ML-DmD8    27 wing disc ML-DmD9    51 wing disc ML-DmD16-c3    32 wing disc ML-DmD21    26 wing disc ML-DmD32    20 haltere disc ML-DmD17-c3    38 eye-antennal disc ML-DmD11    33 antennal disc ML-DmD20-c5    36 mixed discs ML-DmD4-c1    29 CNS ML-DmBG1-c1    41 CNS ML-DmBG2-c2    30 tumorous blood cells mbn2    13 ovary fGS/OSS    40 ovary OSC    32 ovary OSS    15 Expression Level Scale  Extremely high  log, scaled to maximum expression level Cell Line   Expression Level Schneider line 2 S2R+    19 Schneider line 2 Sg4    30 embryonic 1182-4H    24 embryonic GM2    20 embryonic Kc167    31 embryonic S1    37 embryonic S3    20 leg disc CME L1    39 wing disc CME-W2    62 wing disc ML-DmD8    27 wing disc ML-DmD9    51 wing disc ML-DmD16-c3    32 wing disc ML-DmD21    26 wing disc ML-DmD32    20 haltere disc ML-DmD17-c3    38 eye-antennal disc ML-DmD11    33 antennal disc ML-DmD20-c5    36 mixed discs ML-DmD4-c1    29 CNS ML-DmBG1-c1    41 CNS ML-DmBG2-c2    30 tumorous blood cells mbn2    13 ovary fGS/OSS    40 ovary OSC    32 ovary OSS    15 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  log, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+    19 Schneider line 2 Sg4  30 embryonic 1182-4H    24 embryonic GM2    20 embryonic Kc167  31 embryonic S1  (37) embryonic S3    20 leg disc CME L1  (39) wing disc CME-W2  (62) wing disc ML-DmD8  27 wing disc ML-DmD9  (51) wing disc ML-DmD16-c3  32 wing disc ML-DmD21  26 wing disc ML-DmD32    20 haltere disc ML-DmD17-c3  (38) eye-antennal disc ML-DmD11  (33) antennal disc ML-DmD20-c5  (36) mixed discs ML-DmD4-c1  29 CNS ML-DmBG1-c1  (41) CNS ML-DmBG2-c2  30 tumorous blood cells mbn2    13 ovary fGS/OSS  (40) ovary OSC  32 ovary OSS    15 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    19 Schneider line 2 Sg4    30 embryonic 1182-4H    24 embryonic GM2    20 embryonic Kc167    31 embryonic S1    37 embryonic S3    20 leg disc CME L1    39 wing disc CME-W2    62 wing disc ML-DmD8    27 wing disc ML-DmD9    51 wing disc ML-DmD16-c3    32 wing disc ML-DmD21    26 wing disc ML-DmD32    20 haltere disc ML-DmD17-c3    38 eye-antennal disc ML-DmD11    33 antennal disc ML-DmD20-c5    36 mixed discs ML-DmD4-c1    29 CNS ML-DmBG1-c1    41 CNS ML-DmBG2-c2    30 tumorous blood cells mbn2    13 ovary fGS/OSS    40 ovary OSC    32 ovary OSS    15 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+    19 Schneider line 2 Sg4    30 embryonic 1182-4H    24 embryonic GM2    20 embryonic Kc167    31 embryonic S1    37 embryonic S3    20 leg disc CME L1    39 wing disc CME-W2    62 wing disc ML-DmD8    27 wing disc ML-DmD9    51 wing disc ML-DmD16-c3    32 wing disc ML-DmD21    26 wing disc ML-DmD32    20 haltere disc ML-DmD17-c3    38 eye-antennal disc ML-DmD11    33 antennal disc ML-DmD20-c5    36 mixed discs ML-DmD4-c1    29 CNS ML-DmBG1-c1    41 CNS ML-DmBG2-c2    30 tumorous blood cells mbn2    13 ovary fGS/OSS    40 ovary OSC    32 ovary OSS    15 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    9 cold shock, 4-day adult    5 heat shock, 4-day adult    14 Cadmium 50 mM 6 hrs, larvae L3    7 Cadmium 50 mM 12 hrs, larvae L3    11 Cadmium 50 mM 48 hrs, 4-day adult    12 Cadmium 100 mM 48 hrs, 4-day adult    18 Copper 0.5 mM 12 hrs, larvae L3    7 Copper 15 mM 48 hrs, 4-day adult    14 Zinc 5 mM 12 hrs, larvae L3    7 Zinc 4.5 mM 48 hrs, 4-day adult    6 Ethanol 2.5% 3 hrs, larvae L3    21 Ethanol 5% 3 hrs, larvae L3    10 Ethanol 10% 3 hrs, larvae L3    8 Caffeine 1.5 mg/ml 4 hrs, larvae L3    9 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    19 Caffeine 25 mg/ml 48 hrs, 4-day adult    8 Paraquat 5 mM 48 hrs, 4-day adult    17 Paraquat 10 mM 48 hrs, 4-day adult    19 Rotenone 2 μg 12 hrs, larvae L3    10 Rotenone 8 μg 12 hrs, larvae L3    8 Expression Level Scale  Very low   Low   Moderate  Linear, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    9 cold shock, 4-day adult    5 heat shock, 4-day adult    14 Cadmium 50 mM 6 hrs, larvae L3    7 Cadmium 50 mM 12 hrs, larvae L3    11 Cadmium 50 mM 48 hrs, 4-day adult    12 Cadmium 100 mM 48 hrs, 4-day adult    18 Copper 0.5 mM 12 hrs, larvae L3    7 Copper 15 mM 48 hrs, 4-day adult    14 Zinc 5 mM 12 hrs, larvae L3    7 Zinc 4.5 mM 48 hrs, 4-day adult    6 Ethanol 2.5% 3 hrs, larvae L3    21 Ethanol 5% 3 hrs, larvae L3    10 Ethanol 10% 3 hrs, larvae L3    8 Caffeine 1.5 mg/ml 4 hrs, larvae L3    9 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    19 Caffeine 25 mg/ml 48 hrs, 4-day adult    8 Paraquat 5 mM 48 hrs, 4-day adult    17 Paraquat 10 mM 48 hrs, 4-day adult    19 Rotenone 2 μg 12 hrs, larvae L3    10 Rotenone 8 μg 12 hrs, larvae L3    8 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    9 cold shock, 4-day adult    5 heat shock, 4-day adult    14 Cadmium 50 mM 6 hrs, larvae L3    7 Cadmium 50 mM 12 hrs, larvae L3    11 Cadmium 50 mM 48 hrs, 4-day adult    12 Cadmium 100 mM 48 hrs, 4-day adult    18 Copper 0.5 mM 12 hrs, larvae L3    7 Copper 15 mM 48 hrs, 4-day adult    14 Zinc 5 mM 12 hrs, larvae L3    7 Zinc 4.5 mM 48 hrs, 4-day adult    6 Ethanol 2.5% 3 hrs, larvae L3    21 Ethanol 5% 3 hrs, larvae L3    10 Ethanol 10% 3 hrs, larvae L3    8 Caffeine 1.5 mg/ml 4 hrs, larvae L3    9 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    19 Caffeine 25 mg/ml 48 hrs, 4-day adult    8 Paraquat 5 mM 48 hrs, 4-day adult    17 Paraquat 10 mM 48 hrs, 4-day adult    19 Rotenone 2 μg 12 hrs, larvae L3    10 Rotenone 8 μg 12 hrs, larvae L3    8 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    9 cold shock, 4-day adult    5 heat shock, 4-day adult    14 Cadmium 50 mM 6 hrs, larvae L3    7 Cadmium 50 mM 12 hrs, larvae L3    11 Cadmium 50 mM 48 hrs, 4-day adult    12 Cadmium 100 mM 48 hrs, 4-day adult    18 Copper 0.5 mM 12 hrs, larvae L3    7 Copper 15 mM 48 hrs, 4-day adult    14 Zinc 5 mM 12 hrs, larvae L3    7 Zinc 4.5 mM 48 hrs, 4-day adult    6 Ethanol 2.5% 3 hrs, larvae L3    21 Ethanol 5% 3 hrs, larvae L3    10 Ethanol 10% 3 hrs, larvae L3    8 Caffeine 1.5 mg/ml 4 hrs, larvae L3    9 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    19 Caffeine 25 mg/ml 48 hrs, 4-day adult    8 Paraquat 5 mM 48 hrs, 4-day adult    17 Paraquat 10 mM 48 hrs, 4-day adult    19 Rotenone 2 μg 12 hrs, larvae L3    10 Rotenone 8 μg 12 hrs, larvae L3    8 Expression Level Scale  Extremely high  log, scaled to maximum expression level Treatment   Expression Level extended cold, 4-day adult    9 cold shock, 4-day adult    5 heat shock, 4-day adult    14 Cadmium 50 mM 6 hrs, larvae L3    7 Cadmium 50 mM 12 hrs, larvae L3    11 Cadmium 50 mM 48 hrs, 4-day adult    12 Cadmium 100 mM 48 hrs, 4-day adult    18 Copper 0.5 mM 12 hrs, larvae L3    7 Copper 15 mM 48 hrs, 4-day adult    14 Zinc 5 mM 12 hrs, larvae L3    7 Zinc 4.5 mM 48 hrs, 4-day adult    6 Ethanol 2.5% 3 hrs, larvae L3    21 Ethanol 5% 3 hrs, larvae L3    10 Ethanol 10% 3 hrs, larvae L3    8 Caffeine 1.5 mg/ml 4 hrs, larvae L3    9 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    19 Caffeine 25 mg/ml 48 hrs, 4-day adult    8 Paraquat 5 mM 48 hrs, 4-day adult    17 Paraquat 10 mM 48 hrs, 4-day adult    19 Rotenone 2 μg 12 hrs, larvae L3    10 Rotenone 8 μg 12 hrs, larvae L3    8 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    9 cold shock, 4-day adult    5 heat shock, 4-day adult    14 Cadmium 50 mM 6 hrs, larvae L3    7 Cadmium 50 mM 12 hrs, larvae L3    11 Cadmium 50 mM 48 hrs, 4-day adult    12 Cadmium 100 mM 48 hrs, 4-day adult    18 Copper 0.5 mM 12 hrs, larvae L3    7 Copper 15 mM 48 hrs, 4-day adult    14 Zinc 5 mM 12 hrs, larvae L3    7 Zinc 4.5 mM 48 hrs, 4-day adult    6 Ethanol 2.5% 3 hrs, larvae L3    21 Ethanol 5% 3 hrs, larvae L3    10 Ethanol 10% 3 hrs, larvae L3    8 Caffeine 1.5 mg/ml 4 hrs, larvae L3    9 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    19 Caffeine 25 mg/ml 48 hrs, 4-day adult    8 Paraquat 5 mM 48 hrs, 4-day adult    17 Paraquat 10 mM 48 hrs, 4-day adult    19 Rotenone 2 μg 12 hrs, larvae L3    10 Rotenone 8 μg 12 hrs, larvae L3    8 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    9 cold shock, 4-day adult    5 heat shock, 4-day adult    14 Cadmium 50 mM 6 hrs, larvae L3    7 Cadmium 50 mM 12 hrs, larvae L3    11 Cadmium 50 mM 48 hrs, 4-day adult    12 Cadmium 100 mM 48 hrs, 4-day adult    18 Copper 0.5 mM 12 hrs, larvae L3    7 Copper 15 mM 48 hrs, 4-day adult    14 Zinc 5 mM 12 hrs, larvae L3    7 Zinc 4.5 mM 48 hrs, 4-day adult    6 Ethanol 2.5% 3 hrs, larvae L3    21 Ethanol 5% 3 hrs, larvae L3    10 Ethanol 10% 3 hrs, larvae L3    8 Caffeine 1.5 mg/ml 4 hrs, larvae L3    9 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    19 Caffeine 25 mg/ml 48 hrs, 4-day adult    8 Paraquat 5 mM 48 hrs, 4-day adult    17 Paraquat 10 mM 48 hrs, 4-day adult    19 Rotenone 2 μg 12 hrs, larvae L3    10 Rotenone 8 μg 12 hrs, larvae L3    8 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    9 cold shock, 4-day adult    5 heat shock, 4-day adult    14 Cadmium 50 mM 6 hrs, larvae L3    7 Cadmium 50 mM 12 hrs, larvae L3    11 Cadmium 50 mM 48 hrs, 4-day adult    12 Cadmium 100 mM 48 hrs, 4-day adult    18 Copper 0.5 mM 12 hrs, larvae L3    7 Copper 15 mM 48 hrs, 4-day adult    14 Zinc 5 mM 12 hrs, larvae L3    7 Zinc 4.5 mM 48 hrs, 4-day adult    6 Ethanol 2.5% 3 hrs, larvae L3    21 Ethanol 5% 3 hrs, larvae L3    10 Ethanol 10% 3 hrs, larvae L3    8 Caffeine 1.5 mg/ml 4 hrs, larvae L3    9 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    19 Caffeine 25 mg/ml 48 hrs, 4-day adult    8 Paraquat 5 mM 48 hrs, 4-day adult    17 Paraquat 10 mM 48 hrs, 4-day adult    19 Rotenone 2 μg 12 hrs, larvae L3    10 Rotenone 8 μg 12 hrs, larvae L3    8 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_06 mE1_20_mRNA_expression_cluster_04
External Data & Images
Linkouts	BDGP expression data • LD44022 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0001179 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG8019-RA FlyExpress - Embryonic expression images (BDGP data) • Show all FlyExpress processed images for hay Stages(s) 1-3 Stages(s) 4-6 Stages(s) 7-8 Stages(s) 9-10 Stages(s) 13-16
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele lethal haync2rv1 haync2rv2 haync2rv3 haync2rv7 haync2rv12 lethal, with haync2/haync2rv1 hayTTD.Hsp83 hayXPCS.Hsp83 lethal, with haync2/hayTTD.Hsp83 haync2rv1 lethal, with haync2/hayXPCS.Hsp83 haync2rv1 lethal, with haync2rv1/hayTTD.Hsp83 haync2 lethal, with haync2rv1/hayXPCS.Hsp83 haync2 lethal, with Scer\GAL4pnr-MD237 hayGD4213 lethal (with haync2), with haync2rv1 hayTTD.Hsp83 hayXPCS.Hsp83 lethal (with haync2), with hayTTD.Hsp83 haync2rv1 lethal (with haync2), with hayXPCS.Hsp83 haync2rv1 lethal (with haync2rv1), with haync2 hayTTD.Hsp83 hayXPCS.Hsp83 lethal (with haync2rv1), with hayTTD.Hsp83 haync2 lethal (with haync2rv1), with hayXPCS.Hsp83 haync2 lethal (with hayTTD.Hsp83), with haync2 haync2rv1 lethal (with hayTTD.Hsp83), with haync2rv1 haync2 lethal (with hayXPCS.Hsp83), with haync2 haync2rv1 lethal (with hayXPCS.Hsp83), with haync2rv1 haync2 lethal | partially (with Df(3L)lxd6) haync2 lethal | partially (with haync2) haync2rv1 haync2rv2 haync2rv4 haync2rv7 haync2rv8 lethal | partially (with haync2rv1) haync2 lethal | partially (with haync2rv2) haync2 lethal | partially (with haync2rv4) haync2 lethal | partially (with haync2rv7) haync2 lethal | partially (with haync2rv8) haync2 lethal | partially | recessive haync2 lethal | recessive haync2rv1 haync2rv2 haync2rv3 haync2rv4 haync2rv5 haync2rv6 haync2rv7 haync2rv12 lethal | recessive | heat sensitive haync2 haync2rv8 partially lethal - majority die | recessive | heat sensitive haync2 viable haync2 haync2rv8 haync2rv9 hayTTD.Hsp83 hayXPCS.Hsp83 Sterility Allele female fertile | reduced haync2 female sterile | recessive | heat sensitive haync2 male fertile haync2.tMa male sterile haync2 haync2rvP18 male sterile, with Df(3L)Ez7 haync2.tMa male sterile | recessive haync2 male sterile | recessive | heat sensitive haync2 Other Phenotypes Allele increased cell death haync2 meiotic cell cycle defective | male | recessive haync2 haync2rv1 haync2rv2 haync2rv3 haync2rv4 haync2rv5 haync2rv6 haync2rv7 radiation sensitive haync2 haync2rv8 radiation sensitive | recessive haync2 haync2rv8 haync2rvP18 visible, with haync2 hayXPCS.Hsp83 visible, with hayXPCS.Hsp83 haync2 visible (with Df(3L)lxd6) haync2 visible (with haync2) haync2rv1 haync2rv2 haync2rv4 haync2rv7 haync2rv8 visible (with haync2rv1) haync2 visible (with haync2rv2) haync2 visible (with haync2rv4) haync2 visible (with haync2rv7) haync2 visible (with haync2rv8) haync2 visible | recessive haync2 wild-type hay+t7.8 hayhs.P hayWT.A238T hayWT.A244P hayWT.e11 Phenotype manifest in Allele adult abdomen & endocuticle haync2 adult abdomen & endocuticle (with Df(3L)lxd6) haync2 adult abdomen & endocuticle (with haync2) haync2rv1 haync2rv2 haync2rv4 haync2rv7 haync2rv8 adult abdomen & endocuticle (with haync2rv1) haync2 adult abdomen & endocuticle (with haync2rv2) haync2 adult abdomen & endocuticle (with haync2rv4) haync2 adult abdomen & endocuticle (with haync2rv7) haync2 adult abdomen & endocuticle (with haync2rv8) haync2 chaeta, with haync2 hayXPCS.Hsp83 chaeta, with hayXPCS.Hsp83 haync2 embryonic/larval central nervous system haync2 imaginal disc haync2 macrochaeta haync2 macrochaeta (with Df(3L)lxd6) haync2 macrochaeta (with haync2) haync2rv1 haync2rv2 haync2rv4 haync2rv7 haync2rv8 macrochaeta (with haync2rv1) haync2 macrochaeta (with haync2rv2) haync2 macrochaeta (with haync2rv4) haync2 macrochaeta (with haync2rv7) haync2 macrochaeta (with haync2rv8) haync2 meiotic cell cycle | male haync2 microchaeta haync2 microchaeta (with Df(3L)lxd6) haync2 microchaeta (with haync2) haync2rv1 haync2rv2 haync2rv4 haync2rv7 haync2rv8 microchaeta (with haync2rv1) haync2 microchaeta (with haync2rv2) haync2 microchaeta (with haync2rv4) haync2 microchaeta (with haync2rv7) haync2 microchaeta (with haync2rv8) haync2 wing haync2 wing, with haync2 hayXPCS.Hsp83 wing, with hayXPCS.Hsp83 haync2 wing (with haync2) haync2rv1 haync2rv2 haync2rv7 wing (with haync2rv1) haync2 wing (with haync2rv2) haync2 wing (with haync2rv7) haync2 wing margin haync2 wing margin (with haync2) haync2rv1 haync2rv2 haync2rv7 wing margin (with haync2rv1) haync2 wing margin (with haync2rv2) haync2 wing margin (with haync2rv7) haync2
Classical Alleles ( 19 )
For All Classical Alleles Show
Allele of hay Class Mutagen Stocks Known lesion hayf00028 piggyBac transposase 2 -- hayE(z)65 0 Yes hayE(z)66 0 Yes haync2 antimorphic allele - genetic evidence, temperature conditional hypomorphic allele - genetic evidence ethyl methanesulfonate 0 Yes haync2rv12 diepoxybutane 0 Yes haync2rv1 antimorphic allele - genetic evidence ethyl methanesulfonate 0 Yes haync2rv2 antimorphic allele - genetic evidence ethyl methanesulfonate 0 Yes haync2rv3 antimorphic allele - genetic evidence ethyl methanesulfonate 0 Yes haync2rv4 antimorphic allele - genetic evidence ethyl methanesulfonate 0 -- haync2rv5 antimorphic allele - genetic evidence ethyl methanesulfonate 0 -- haync2rv6 antimorphic allele - genetic evidence ethyl methanesulfonate 0 -- haync2rv7 antimorphic allele - genetic evidence ethyl methanesulfonate 0 Yes haync2rv8 ethyl methanesulfonate 0 Yes haync2rv9 ethyl methanesulfonate 0 -- haync2rvP18 P-element activity 0 -- hayunspecified 0 -- hayWT.A238T wild-type allele 0 Yes hayWT.A244P wild-type allele 0 Yes hayWT.e11 wild-type allele 0 Yes
Alleles Carried on Transgenic Constructs ( 11 )
For All Alleles Carried on Transgenic Constructs Show
Allele of hay Class Mutagen Stocks Known lesion hayGD4213 in vitro construct - RNAi in vitro construct - regulatory fusion 2 Yes hayKK100816 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes hay+t7.8 in vitro construct - genomic fragment 0 Yes hayA17T,G23A in vitro construct 0 Yes hayB in vitro construct - genomic fragment 0 Yes haydsRNA.cCa in vitro construct - RNAi 0 Yes hayhs.P in vitro construct - regulatory fusion 0 Yes haync2.tMa in vitro construct - site directed mutagenesis in vitro construct - amino acid replacement 0 Yes hayScer\UAS.cMa in vitro construct - regulatory fusion 0 Yes hayTTD.Hsp83 in vitro construct - regulatory fusion 0 Yes hayXPCS.Hsp83 in vitro construct - regulatory fusion 0 Yes
Aneuploid Aberrations
Disrupted in	Df(3L)E(z)66 (Mounkes et al., 1992, Jones and Gelbart, 1993) Df(3L)Ez1 (Green et al., 1990) Df(3L)Ez4 (Mounkes et al., 1992) Df(3L)Ez6 (Mounkes et al., 1992) Df(3L)Ez7 (Mounkes et al., 1992) Df(3L)lxd6 (Regan and Fuller, 1988) Df(3L)lxd15 (Regan and Fuller, 1988) T(2;3)E(z)65 (Mounkes et al., 1992)
Not disrupted in	Df(3L)AC1 (Regan and Fuller, 1988) Df(3L)BK140 (Regan and Fuller, 1988) Df(3L)lxd8 (Regan and Fuller, 1988) Df(3L)vin2 (Regan and Fuller, 1988) Df(3L)vin3 (Regan and Fuller, 1988) Df(3L)vin4 (Regan and Fuller, 1988) Df(3L)vin5 (Regan and Fuller, 1988) Df(3L)vin6 (Regan and Fuller, 1988) Df(3L)vin7 (Regan and Fuller, 1988) Df(3L)vin66 (Regan and Fuller, 1988)
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data heat-shock construct P{hayhs.P} NA P{Hsp83-hay.TTD} NA P{Hsp83-hay.XPCS} NA UAS construct P{GD4213} NA P{KK100816} NA P{UAS-hay} NA characterization construct P{hay.R652C.A3} NA P{hayA17T,G23A} NA P{hayA} NA
Insertions
	Type of insertions Name Expression data miscellaneous insertions PBac{WH}hayf00028 NA
Gene Ontology: Function, Process & Cellular Component ( 16 unique terms )
Terms Based on Experimental Evidence ( 6 terms )
Molecular Function ( 0 terms)
Biological Process
CV term Evidence References
adult locomotory behavior inferred from mutant phenotype (Mounkes et al., 1992) regulation of alternative mRNA splicing, via spliceosome inferred from mutant phenotype (Park et al., 2004) response to UV inferred from mutant phenotype (Mounkes et al., 1992) transcription from RNA polymerase II promoter inferred from mutant phenotype (Gutierrez et al., 2004)
Cellular Component
CV term Evidence References
holo TFIIH complex inferred from direct assay (Austin and Biggin, 1996) nucleus inferred from direct assay (Fregoso et al., 2007, Aguilar-Fuentes et al., 2008, Austin and Biggin, 1996)
Terms Based on Predictions or Assertions ( 12 terms )
Molecular Function
CV term Evidence References
ATP binding inferred from electronic annotation with InterPro:IPR001161, InterPro:IPR001650, InterPro:IPR006935 (FlyBase Curators et al., 2004-) ATP-dependent 3'-5' DNA helicase activity inferred from sequence or structural similarity with human ERCC3 (Koken et al., 1992) ATP-dependent DNA helicase activity non-traceable author statement (Swiss-Prot Project Members, 1993.7.1) contributes_to core RNA polymerase binding transcription factor activity inferred by curator from GO:0005675 (Aguilar-Fuentes et al., 2008) DNA binding inferred from electronic annotation with InterPro:IPR001161, InterPro:IPR006935 (FlyBase Curators et al., 2004-) helicase activity inferred from sequence or structural similarity (Lasko, 2000) inferred from sequence or structural similarity with human ERCC3 (Koken et al., 1992, Mounkes et al., 1992)
Biological Process
CV term Evidence References
nucleotide-excision repair inferred from sequence or structural similarity with human ERCC3 (Koken et al., 1992, Mounkes et al., 1992) promoter clearance from RNA polymerase II promoter inferred from sequence or structural similarity with human ERCC3 (Koken et al., 1992) transcriptional open complex formation at RNA polymerase II promoter inferred from sequence or structural similarity with human ERCC3 (Koken et al., 1992) transcription initiation from RNA polymerase II promoter inferred from sequence or structural similarity with human ERCC3 AND inferred from sequence or structural similarity with Saccharomyces SSL2 (Aoyagi and Wassarman, 2000)
Cellular Component
CV term Evidence References
holo TFIIH complex inferred from sequence or structural similarity with human ERCC3 (Koken et al., 1992) inferred from sequence or structural similarity with human ERCC3 AND inferred from sequence or structural similarity with Saccharomyces SSL2 (Aoyagi and Wassarman, 2000) nucleus inferred by curator from GO:0000381 (Park et al., 2004) non-traceable author statement (Swiss-Prot Project Members, 1993.7.1)
Sequence Ontology: Class of Gene
	nuclear_gene   protein_coding_gene
Interactions & Pathways
Summary of Physical Interactions
protein-protein
Interacting group Assay References
hay - pUf68 anti bait coimmunoprecipitation, western blot (Mitchell et al., 2010)
Summary of Genetic Interactions
Interacts with	Please look at the allele data for full details of the genetic interactions hay allele Gene References haync2.tMa βTub85D (Mounkes and Fuller, 1999) haync2 Cdk7 (Merino et al., 2002) p53 (Merino et al., 2002) βTub85D (Fuller, 1986, Mounkes and Fuller, 1999) haync2rv1 p53 (Merino et al., 2002) haync2rv2 Cdk7 (Merino et al., 2002) haync2rv7 Cdk7 (Merino et al., 2002) haync2rv8 Cdk7 (Merino et al., 2002)
External Data
Linkouts	BioGRID - A database of protein and genetic interactions • 64581 DroID - A comprehensive database of gene and protein interactions. • FBgn0001179 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 39202
Orthologs
OrthoDB Orthologs (40) - 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 EOG6Z6370 Dipteran inclusive ortholog search EOG6V177X Insect inclusive ortholog search EOG6JQ2SJ Arthropod inclusive ortholog search EOG6Z08MN Metazoa inclusive ortholog search EOG6G2089
Orthologs in Drosophila Species (EOG6Z6370)
Organism Common Name Gene AAA Syntenic Ortholog Multiple Dmel Genes in this Orthologous Group Drosophila melanogaster fruit fly  Dmel\hay     Drosophila simulans   Dsim\GD14248 Y   Drosophila sechellia   Dsec\GM25215 Y   Drosophila erecta   Dere\GG15440 Y   Drosophila yakuba   Dyak\GE21750 Y   Drosophila ananassae   Dana\GF10598 Y   Drosophila pseudoobscura pseudoobscura   Dpse\GA20769 Y   Drosophila persimilis   Dper\GL15471 Y   Drosophila willistoni   Dwil\GK12273 Y   Drosophila virilis   Dvir\GJ13670 Y   Drosophila mojavensis   Dmoj\GI11476 Y   Drosophila grimshawi   Dgri\GH14950 Y
Orthologs in non-Drosophila Dipterans (EOG6V177X)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Aedes aegypti Yellow fever mosquito  Aaeg\AAEL012991   Aedes aegypti Yellow fever mosquito  Aaeg\AAEL013205   Anopheles gambiae Malaria mosquito  Agam\AGAP012169   Culex quinquefasciatus Southern house mosquito  Cqui\CPIJ016774   Culex quinquefasciatus Southern house mosquito  Cqui\CPIJ006481
Orthologs in non-Dipteran Insects (EOG6JQ2SJ)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Apis mellifera Western honey bee  Amel\hay   Nasonia vitripennis Parasitic wasp  Nvit\Nasvi2EG010160   Acromyrmex echinatior Panamanian leafcutter ant  Aech\AECH15137   Atta cephalotes Leafcutter ant  Acep\ACEP16511   Camponotus floridanus Florida carpenter ant  Cflo\CFLO16060   Harpegnathos saltator Jerdons jumping ant  Hsal\HSAL13007   Linepithema humile Argentine ant  Lhum\LH12667   Pogonomyrmex barbatus Red harvester ant  Pbar\PB27250   Solenopsis invicta Red fire ant  Sinv\SINV11735   Acyrthosiphon pisum Pea aphid  Apim\ACYPI002433   Bombyx mori Silkmoth  Bmor\BGIBMGA011797   Pediculus humanus Human body louse  Phum\PHUM087570   Tribolium castaneum Red flour beetle  Tcas\TC003167
Orthologs in non-Insect Arthropods (EOG6Z08MN)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Daphnia pulex Water flea  Dpux\ZNF711   Ixodes scapularis Deer tick  Isca\ISCW023179
Orthologs in non-Arthropod Metazoa (EOG6G2089)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Caenorhabditis elegans Nematode  Cele\Y66D12A.15   Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_025786gn   Danio rerio Zebrafish  Drer\ercc3   Xenopus tropicalis Western clawed frog  Xtro\ENSXETG00000033646   Gallus gallus Domestic chicken  Ggal\ERCC3   Mus musculus House mouse  Mmus\Ercc3   Rattus norvegicus Norway rat  Rnor\Ercc3   Homo sapiens Human  Hsap\ERCC3
Human Orthologs (1)
Gene OMIM HGNC Hsap\ERCC3
AAA Orthologs (11) based on analysis using Dmel annotation version 4.3
Organism Gene Drosophila simulans Dsim\GD14248 Drosophila sechellia Dsec\GM25215 Drosophila erecta Dere\GG15440 Drosophila yakuba Dyak\GE21750 Drosophila ananassae Dana\GF10598 Drosophila pseudoobscura pseudoobscura Dpse\GA20769 Drosophila persimilis Dper\GL15471 Drosophila willistoni Dwil\GK12273 Drosophila virilis Dvir\GJ13670 Drosophila mojavensis Dmoj\GI11476 Drosophila grimshawi Dgri\GH14950
Stocks & Reagents
Stocks Listed in FlyBase ( 5 )
Bloomington	18288 w1118; PBac{WH}hayf00028/TM6B, Tb1
Harvard	- PBac{WH}hayf00028
VDRC	v105524 P{KK100816}VIE-260B v41023 w1118; P{GD4213}v41023 v41022 w1118; P{GD4213}v41022/TM3
Genomic Clones ( 1 )
	BACR10M10 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 36 )
	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	LD44022
Other clones	FI01118
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	RE05247 RE25115 RE38779 RE53305 RE59011 RE63003 UT01631
Other clones	71012 214321.34 EC14954 EC053649 EC053652 EC055676 EC056091 EK176547 EK199932 EP11061 RP004143940 RP004144584 RP004146223 RP004174482 RP004199947 RP004204741 RP004206685 RP004226558 RP004236619 RP004251622 RP004391195 RP004410236 RP004451034 RP004481861 RP004494661 RP004496123 RP004542033
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0001179 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 39202
Antibody Information
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of	Source for identity of: hay CG8019 (Zhang, 1999.11)
Source for database merge of
Additional comments
Other Comments
	Mutant lesions in lethal hay alleles reveal the importance of the nucleotide-binding domain, suggesting an essential role for ATPase activity. (Mounkes and Fuller, 1999) Gene is involved in pre-replication DNA repair of UV and AA lesions. (de Buendia, 1998) hay encodes the largest subunit of TfIIH. (Austin and Biggin, 1996) mRNA levels do not increase at adult day 5 in strain showing extended longevity phenotype (ELP). (Dudas and Arking, 1995) Low-stringency hybridization isolated the homolog of the human excision repair gene ERCC3, which maps to 67E3--67E4, known to be the previously defined haywire gene. Microinjection and DNA transfection of haywire into human xeroderma pigmentosum fibroblasts and group 3 rodent mutants did not yield detectable correction. (Koken et al., 1992) The hay gene was cloned and is related to the human ERCC3 gene which is associated with both xeroderma pigmentosum and Cockayne's syndrome. Phenotypes of hay mutants mimic some of the effects of xeroderma pigmentosum in humans. (Mounkes et al., 1992) The original allele, haync2, is homozygous male sterile; some derivative alleles are recessive lethal. Homozygous haync2 males display defects in meiosis, flagellar elongation and nuclear shaping. haync2 also male sterile in transheterozygotes with recessive male-sterile alleles of β Tub85D or with wrl1 suggesting a role for the haywire product in microtubule function. Deficiencies of hay are fertile in heterozygous combination with the above interacting mutations, indicating that the extragenic failure haync2 to complement is based on a poison product mechanism. This feature was used to select alleles (haync2rv1-8) that revert the failure of haync2 to complement βTub85Dn.
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_079296 NM_001144459 RefSeq (Proteins) • NP_524020 NP_001137931 DDBJ / EMBL / GenBank • AAA74931 AAF50150 AAK93399 ACL83286 AI512246 AW943690 AY051975 CAA48386 CZ482516 L02965 X68309 Entrez Gene - A searchable database of RefSeq genes. • 39202 UniProtKB/Swiss-Prot • Q02870 UniProtKB/TrEMBL • B7Z0G1
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • Helicase Ercc3 (IPR001161) Helicase, C-terminal (IPR001650) Helicase/UvrB domain (IPR006935) Helicase, superfamily 1/2, ATP-binding domain (IPR014001) P-loop containing nucleoside triphosphate hydrolase (IPR027417) BDGP expression data - Patterns of gene expression in Drosophila embryogenesis • LD44022
Linkouts
	BioGRID - A database of protein and genetic interactions • 64581 DroID - A comprehensive database of gene and protein interactions. • FBgn0001179 DRSC - Results from RNAi screens. • FBgn0001179 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0001179 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG8019-RA FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0001179 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 39202 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 39202 modMine - Data generated by the modENCODE project. • FBgn0001179
Synonyms & Secondary IDs ( 16 )
Reported As
Symbol Synonym	CG8019 (Battersby et al., 2003, Aoyagi and Wassarman, 2000, Ardehali et al., 2009, Keleman et al., 2009.8.5, McIntyre et al., 2006) DhR25 (de Buendia, 1998) DhXPB (de Buendia, 1998) DmXPB (Dusenbery and Smith, 1996, Fregoso et al., 2007, Aguilar-Fuentes et al., 2008) ERCC3 (Lebedeva, 2005, Lebedeva et al., 2005, Koken, 1992.9.7, Koken et al., 1992, Ardehali et al., 2009, Petesch and Lis, 2008, Santoso and Kadonaga, 2006) hay (Gutierrez et al., 2004, Matsuno et al., 2007, Mounkes et al., 1992, Lindquist et al., 2011, Aguilar-Fuentes et al., 2008, Doumanis et al., 2009, McIntyre et al., 2006, Mitchell et al., 2010) Hay (Cranna et al., 2011) hwr (de Buendia, 1998) i50 (Battersby et al., 2003) ms(3)nc2   nc2 (Fuller, 1986, ) TFIIH (Lebedeva, 2005, Lebedeva et al., 2005, Saunders et al., 2005, Gu et al., 2002, Park et al., 2001, Kim and Lis, 2005, Aguilar-Fuentes et al., 2006) XPB (Lebedeva, 2005, Lebedeva et al., 2005, Fregoso-Lomas et al., 2006, Aguilar-Fuentes et al., 2006, Aguilar-Fuentes et al., 2006, Lebedeva et al., 2007) Xpb/hay (Chen et al., 2003)
Name Synonym	haywire (Hackstein et al., 2000, Arking et al., 1996, Hawley and Gilliland, 2006, Matsuno et al., 2007, Aguilar-Fuentes et al., 2008, Fregoso et al., 2007, Doumanis et al., 2009) Haywire (Aguilar-Fuentes et al., 2006, Cranna et al., 2011)
Secondary FlyBase IDs
	FBgn0004376 FBgn0015830
References ( 83 )
Generate a list of	All references relating to this gene ( 83 )
List References by type	Research paper  ( 42 ) Supplementary material  ( 4 ) Review  ( 13 ) Personal communication to FlyBase  ( 8 ) Abstract  ( 7 ) FlyBase analysis  ( 1 ) DNA/RNA sequence record  ( 1 ) Curated genome annotation  ( 3 ) Protein sequence record  ( 1 ) Website  ( 1 ) Book  ( 1 )
Recent research papers ( 3 )
	Baradaran-Heravi et al., 2012, Hum. Mol. Genet. 21(11): 2572--2587 Penetrance of biallelic SMARCAL1 mutations is associated with environmental and genetic disturbances of gene expression. [FBrf0218299] Cranna et al., 2011, Fly 5(2): 129--133 Hfp, the Drosophila homolog of the mammalian c-myc transcriptional-repressor and tumor suppressor FIR, inhibits dmyc transcription and cell growth. [FBrf0214410] Lindquist et al., 2011, Genome Res. 21(3): 433--446 Genome-scale RNAi on living-cell microarrays identifies novel regulators of Drosophila melanogaster TORC1-S6K pathway signaling. [FBrf0213199] Show all research papers ...
Recent reviews (0)
	All reviews listed in FlyBase were published before 2011 Show reviews ...