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Gene Dmel\Xpac

General Information
Symbol	Dmel\Xpac	Species	D. melanogaster
Name	Xeroderma pigmentosum group A-like	Annotation symbol	CG6358
Feature type	protein_coding_gene	FlyBase ID	FBgn0004832
Gene Model Status	Current	Stock availability	2 publicly available
Also Known As	dxpa, Xpa, DmXPA
Genomic Location
Chromosome (arm)	X	Recombination map	1-
Cytogenetic map	4A5-4A5	Sequence location	X:3,997,047..3,998,230 [-]
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 Xeroderma pigmentosum group A-like is referred to in FlyBase by the symbol Dmel\Xpac (CG6358, FBgn0004832). It is a protein_coding_gene from Drosophila melanogaster. An electronic pipeline based on InterPro domains suggests that it has the molecular function: nucleotide binding; damaged DNA binding. There is experimental evidence that it is involved in the biological process: nucleotide-excision repair. 5 alleles are reported. No phenotypic data is available. It has one annotated transcript and one annotated polypeptide. Protein features are: DNA binding domain, putative; XPA; XPA C- terminal; XPA, conserved site; Zinc finger, XPA-type, conserved site. 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 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 central nervous system. Comments on Affy2 ProbeSet: ProbeSet 1623485_at completely aligns to an exonic region of the only FlyBase-annotated transcript isoform of Xpac. Gene sequence location is X:3997047..3998230.
User Contributed Data
	Beta version, feedback welcome
Recent Updates
Description	What does this section display? This section contains items that were added to this record for each release. It currently only tracks new links between this FlyBase report and other FlyBase data classes (e.g. genes, references, stocks) or controlled vocabulary terms (e.g. GO, anatomy terms). What does this section not display? This section does not currently display links that were removed or gene model changes.
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FB2013_03
FB2013_02
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 4A5-4A5   Limits computationally determined from genome sequence between P{EP}CG2930EP1352 and P{EP}EP425
Experimentally Determined Cytological Location
Cytogenetic map Notes References 3F6-3F8     (Shimamoto, 1994.6.22) 3F6-3F8   (determined by in situ hybridisation)   (Shimamoto et al., 1995)
Experimentally Determined Recombination Data
Location	1- (Shimamoto, 1994.6.22)
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\Xpac for information on other features To submit a correction to a gene model please use the Contact FlyBase form
Comments on Gene Model
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) Xpac-RA FBtr0070670  NM_057518   1119   296
Additional Transcript Data & Comments
Reported size (kB)	1.4 (northern blot) (Shimamoto et al., 1995)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kDa) Length (aa) Theoretical pI RefSeq ID GenBank protein Xpac-PA   FBpp0070638   33.9   296   6.59     NP_476866   AAF45917
Additional Polypeptide Data & Comments
Reported size (kDa)	296 (aa) (Shimamoto et al., 1995)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • XPA (IPR000465) DNA binding domain, putative (IPR009061) Zinc finger, XPA-type, conserved site (IPR022652) XPA C- terminal (IPR022656) XPA, conserved site (IPR022658)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AE014298 AAF45917   AL033125 CAA21834   BT023272   BT120387   BT132894   CZ483696   D31892 BAA06690   D31893 BAA06691   EC246524   EL870543   EL870544
UniProtKB/Swiss-Prot	P28518
UniProtKB/TrEMBL
Mapped Features
Mapped Features have been reorganized, please see this article for details. Additional mapped features and mutations can be found on GBrowse or related reports. Type Symbol & Location Additional Notes References
External Data
Linkouts
Crossreferences
Expression Data
Transcript Expression
northern blot Stage Tissue/Position (including subcellular localization) Reference embryonic stage     (Shimamoto et al., 1995) third instar larval stage     (Shimamoto et al., 1995) pupal stage | mid     (Shimamoto et al., 1995) pupal stage | early     (Shimamoto et al., 1995) adult stage     (Shimamoto et al., 1995)
Additional Descriptive Data
	Xpac transcript is expressed in embryos, third instar larvae, early and mid stage pupae, and in adults. Expression increases through development, with lowest levels detected in embryos, and highest levels in adults. (Shimamoto et al., 1995)
Marker for
Subcellular Localization
CV Term
Polypeptide Expression
distribution deduced from reporter Stage Tissue/Position (including subcellular localization) Reference embryonic stage     (Shimamoto et al., 1995) adult stage   muscle cell   (Shimamoto et al., 1995) lamina   (Shimamoto et al., 1995) retina   (Shimamoto et al., 1995) immunolocalization Stage Tissue/Position (including subcellular localization) Reference embryonic stage   ventral nerve cord   (Shimamoto et al., 1995) adult stage   muscle cell   (Shimamoto et al., 1995) adult central nervous system   (Shimamoto et al., 1995)
Additional Descriptive Data
	Xpac protein is detected in the nuclei of central nervous system cells and muscles. (Shimamoto et al., 1995) Xpac protein is detected in the nuclei of central nervous system cells and muscles of adults, and in the ventral nerve cord of embryos. An Xpac-:-Ecol\lacZ protein fusion construct is expressed in the nuclei of cells in the lamina and retina of the eyes, in muscle nuclei of adult flies, and in all embryonic cells. (Shimamoto et al., 1995)
Marker for
Subcellular Localization (GO Cellular Component)
CV term Evidence References
nucleus inferred from direct assay (Shimamoto et al., 1995)
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 central nervous system. [download data (TSV)] Guide to FlyAtlas expression level colors   No expression (0 - 9.999)   Low expression (10 - 99.999)   Moderate expression (100 - 499.999)   High level expression (500 - 999.999)   Very high expression (>999.999) Linear, scaled to maximum expression level Tissue   Expression Level Larval Central Nervous System    119.95 Larval Midgut    34.4 Larval Hindgut    31.7 Larval Malpighian Tubules    26.1 Larval Fat Body    29 Larval Salivary Gland    36.9 Larval Trachea    43.1 Larval Carcass    32.575 Adult Head    45.2 Adult Eye    48.825 Adult Brain    96 Adult Thoracic-Abdominal Ganglion    77.9 Adult Crop    43.3 Adult Midgut    37 Adult Hindgut    33 Adult Malpighian Tubules    27.3 Adult Fat Body    25.5 Adult Salivary Gland    48.7 Adult Heart    28.75 Adult VirginFemale Spermatheca    18.9 Adult InseminatedFemale Spermatheca    24.3 Adult Ovary    98 Adult Testis    97.8 Adult Male Accessory Gland    44 Adult Carcass    37.4 Expression Level Scale  None   Low   Moderate  Linear, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    119.95 Larval Midgut    34.4 Larval Hindgut    31.7 Larval Malpighian Tubules    26.1 Larval Fat Body    29 Larval Salivary Gland    36.9 Larval Trachea    43.1 Larval Carcass    32.575 Adult Head    45.2 Adult Eye    48.825 Adult Brain    96 Adult Thoracic-Abdominal Ganglion    77.9 Adult Crop    43.3 Adult Midgut    37 Adult Hindgut    33 Adult Malpighian Tubules    27.3 Adult Fat Body    25.5 Adult Salivary Gland    48.7 Adult Heart    28.75 Adult VirginFemale Spermatheca    18.9 Adult InseminatedFemale Spermatheca    24.3 Adult Ovary    98 Adult Testis    97.8 Adult Male Accessory Gland    44 Adult Carcass    37.4 Expression Level Scale  None   Low   Moderate   High  Linear, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    119.95 Larval Midgut    34.4 Larval Hindgut    31.7 Larval Malpighian Tubules    26.1 Larval Fat Body    29 Larval Salivary Gland    36.9 Larval Trachea    43.1 Larval Carcass    32.575 Adult Head    45.2 Adult Eye    48.825 Adult Brain    96 Adult Thoracic-Abdominal Ganglion    77.9 Adult Crop    43.3 Adult Midgut    37 Adult Hindgut    33 Adult Malpighian Tubules    27.3 Adult Fat Body    25.5 Adult Salivary Gland    48.7 Adult Heart    28.75 Adult VirginFemale Spermatheca    18.9 Adult InseminatedFemale Spermatheca    24.3 Adult Ovary    98 Adult Testis    97.8 Adult Male Accessory Gland    44 Adult Carcass    37.4 Expression Level Scale  None   Low   Moderate   High   Very high  Linear, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    119.95 Larval Midgut    34.4 Larval Hindgut    31.7 Larval Malpighian Tubules    26.1 Larval Fat Body    29 Larval Salivary Gland    36.9 Larval Trachea    43.1 Larval Carcass    32.575 Adult Head    45.2 Adult Eye    48.825 Adult Brain    96 Adult Thoracic-Abdominal Ganglion    77.9 Adult Crop    43.3 Adult Midgut    37 Adult Hindgut    33 Adult Malpighian Tubules    27.3 Adult Fat Body    25.5 Adult Salivary Gland    48.7 Adult Heart    28.75 Adult VirginFemale Spermatheca    18.9 Adult InseminatedFemale Spermatheca    24.3 Adult Ovary    98 Adult Testis    97.8 Adult Male Accessory Gland    44 Adult Carcass    37.4 Expression Level Scale  Very high  log, scaled to maximum expression level Tissue   Expression Level Larval Central Nervous System    119.95 Larval Midgut    34.4 Larval Hindgut    31.7 Larval Malpighian Tubules    26.1 Larval Fat Body    29 Larval Salivary Gland    36.9 Larval Trachea    43.1 Larval Carcass    32.575 Adult Head    45.2 Adult Eye    48.825 Adult Brain    96 Adult Thoracic-Abdominal Ganglion    77.9 Adult Crop    43.3 Adult Midgut    37 Adult Hindgut    33 Adult Malpighian Tubules    27.3 Adult Fat Body    25.5 Adult Salivary Gland    48.7 Adult Heart    28.75 Adult VirginFemale Spermatheca    18.9 Adult InseminatedFemale Spermatheca    24.3 Adult Ovary    98 Adult Testis    97.8 Adult Male Accessory Gland    44 Adult Carcass    37.4 Expression Level Scale  None   Low   Moderate  log, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    119.95 Larval Midgut    34.4 Larval Hindgut    31.7 Larval Malpighian Tubules    26.1 Larval Fat Body    29 Larval Salivary Gland    36.9 Larval Trachea    43.1 Larval Carcass    32.575 Adult Head    45.2 Adult Eye    48.825 Adult Brain    96 Adult Thoracic-Abdominal Ganglion    77.9 Adult Crop    43.3 Adult Midgut    37 Adult Hindgut    33 Adult Malpighian Tubules    27.3 Adult Fat Body    25.5 Adult Salivary Gland    48.7 Adult Heart    28.75 Adult VirginFemale Spermatheca    18.9 Adult InseminatedFemale Spermatheca    24.3 Adult Ovary    98 Adult Testis    97.8 Adult Male Accessory Gland    44 Adult Carcass    37.4 Expression Level Scale  None   Low   Moderate   High  log, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    119.95 Larval Midgut    34.4 Larval Hindgut    31.7 Larval Malpighian Tubules    26.1 Larval Fat Body    29 Larval Salivary Gland    36.9 Larval Trachea    43.1 Larval Carcass    32.575 Adult Head    45.2 Adult Eye    48.825 Adult Brain    96 Adult Thoracic-Abdominal Ganglion    77.9 Adult Crop    43.3 Adult Midgut    37 Adult Hindgut    33 Adult Malpighian Tubules    27.3 Adult Fat Body    25.5 Adult Salivary Gland    48.7 Adult Heart    28.75 Adult VirginFemale Spermatheca    18.9 Adult InseminatedFemale Spermatheca    24.3 Adult Ovary    98 Adult Testis    97.8 Adult Male Accessory Gland    44 Adult Carcass    37.4 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    119.95 Larval Midgut    34.4 Larval Hindgut    31.7 Larval Malpighian Tubules    26.1 Larval Fat Body    29 Larval Salivary Gland    36.9 Larval Trachea    43.1 Larval Carcass    32.575 Adult Head    45.2 Adult Eye    48.825 Adult Brain    96 Adult Thoracic-Abdominal Ganglion    77.9 Adult Crop    43.3 Adult Midgut    37 Adult Hindgut    33 Adult Malpighian Tubules    27.3 Adult Fat Body    25.5 Adult Salivary Gland    48.7 Adult Heart    28.75 Adult VirginFemale Spermatheca    18.9 Adult InseminatedFemale Spermatheca    24.3 Adult Ovary    98 Adult Testis    97.8 Adult Male Accessory Gland    44 Adult Carcass    37.4 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    45.2   NA  Eye    48.825   NA  Brain    96   119.95  Central Nervous System    NA   NA  Thoracic-Abdominal Ganglion    77.9   NA  Crop    43.3   34.4  Midgut    37   31.7  Hindgut    33   26.1  Malpighian Tubules    27.3   29  Fat Body    25.5   36.9  Salivary Gland    48.7   NA  Heart    28.75   43.1  Trachea    NA   NA  VirginFemale Spermatheca    18.9   NA  InseminatedFemale Spermatheca    24.3   NA  Ovary    98   NA  Testis    97.8   NA  Male Accessory Gland    44   32.575  Carcass    37.4 FlyAtlas Anatomical Expression Data (Chintapalli et al., 2007)
modENCODE Anatomy RNA-Seq
modENCODE Tissue Expression Data (modENCODE_mRNA-Seq_tissues)    Styles Linear Logarithmic Heatmap    Scales gene max expression Moderate expression bin max High expression bin max Extremely high expression bin max [download data (TSV)] Guide to modENCODE expression level colors   No/Extremely low expression (0 - 0)   Very low expression (1 - 3)   Low expression (4 - 10)   Moderate expression (11 - 25)   Moderately high expression (26 - 50)   High expression (51 - 100)   Very high expression (101 - 1000)   Extremely high expression (>1000) Linear, scaled to maximum expression level Tissue   Expression Level imaginal disc, larvae L3 wandering    29 central nervous system, larvae L3    14 central nervous system, pupae P8    8 head, virgin 1-day female    2 head, virgin 4-day female    4 head, virgin 20-day female    3 head, mated 1-day female    2 head, mated 4-day female    3 head, mated 20-day female    4 head, mated 1-day male    6 head, mated 4-day male    5 head, mated 20-day male    7 salivary gland, larvae L3 wandering    2 salivary gland, white prepupae    3 digestive system, larvae L3 wandering    6 digestive system, 1-day adult    3 digestive system, 4-day adult    3 digestive system, 20-day adult    3 fat body, larvae L3 wandering    2 fat body, white prepupae    5 fat body, pupae P8    8 carcass, larvae L3 wandering    9 carcass, 1-day adult    3 carcass, 4-day adult    4 carcass, 20-day adult    4 ovary, virgin 4-day female    20 ovary, mated 4-day female    21 testis, mated 4-day male    37 accessory gland, mated 4-day male    6 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering  (29) central nervous system, larvae L3    14 central nervous system, pupae P8    8 head, virgin 1-day female    2 head, virgin 4-day female    4 head, virgin 20-day female    3 head, mated 1-day female    2 head, mated 4-day female    3 head, mated 20-day female    4 head, mated 1-day male    6 head, mated 4-day male    5 head, mated 20-day male    7 salivary gland, larvae L3 wandering    2 salivary gland, white prepupae    3 digestive system, larvae L3 wandering    6 digestive system, 1-day adult    3 digestive system, 4-day adult    3 digestive system, 20-day adult    3 fat body, larvae L3 wandering    2 fat body, white prepupae    5 fat body, pupae P8    8 carcass, larvae L3 wandering    9 carcass, 1-day adult    3 carcass, 4-day adult    4 carcass, 20-day adult    4 ovary, virgin 4-day female    20 ovary, mated 4-day female    21 testis, mated 4-day male  (37) accessory gland, mated 4-day male    6 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    29 central nervous system, larvae L3    14 central nervous system, pupae P8    8 head, virgin 1-day female    2 head, virgin 4-day female    4 head, virgin 20-day female    3 head, mated 1-day female    2 head, mated 4-day female    3 head, mated 20-day female    4 head, mated 1-day male    6 head, mated 4-day male    5 head, mated 20-day male    7 salivary gland, larvae L3 wandering    2 salivary gland, white prepupae    3 digestive system, larvae L3 wandering    6 digestive system, 1-day adult    3 digestive system, 4-day adult    3 digestive system, 20-day adult    3 fat body, larvae L3 wandering    2 fat body, white prepupae    5 fat body, pupae P8    8 carcass, larvae L3 wandering    9 carcass, 1-day adult    3 carcass, 4-day adult    4 carcass, 20-day adult    4 ovary, virgin 4-day female    20 ovary, mated 4-day female    21 testis, mated 4-day male    37 accessory gland, mated 4-day male    6 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Extremely high expression Tissue   Expression Level imaginal disc, larvae L3 wandering    29 central nervous system, larvae L3    14 central nervous system, pupae P8    8 head, virgin 1-day female    2 head, virgin 4-day female    4 head, virgin 20-day female    3 head, mated 1-day female    2 head, mated 4-day female    3 head, mated 20-day female    4 head, mated 1-day male    6 head, mated 4-day male    5 head, mated 20-day male    7 salivary gland, larvae L3 wandering    2 salivary gland, white prepupae    3 digestive system, larvae L3 wandering    6 digestive system, 1-day adult    3 digestive system, 4-day adult    3 digestive system, 20-day adult    3 fat body, larvae L3 wandering    2 fat body, white prepupae    5 fat body, pupae P8    8 carcass, larvae L3 wandering    9 carcass, 1-day adult    3 carcass, 4-day adult    4 carcass, 20-day adult    4 ovary, virgin 4-day female    20 ovary, mated 4-day female    21 testis, mated 4-day male    37 accessory gland, mated 4-day male    6 Expression Level Scale  Extremely high  log, scaled to maximum expression level Tissue   Expression Level imaginal disc, larvae L3 wandering    29 central nervous system, larvae L3    14 central nervous system, pupae P8    8 head, virgin 1-day female    2 head, virgin 4-day female    4 head, virgin 20-day female    3 head, mated 1-day female    2 head, mated 4-day female    3 head, mated 20-day female    4 head, mated 1-day male    6 head, mated 4-day male    5 head, mated 20-day male    7 salivary gland, larvae L3 wandering    2 salivary gland, white prepupae    3 digestive system, larvae L3 wandering    6 digestive system, 1-day adult    3 digestive system, 4-day adult    3 digestive system, 20-day adult    3 fat body, larvae L3 wandering    2 fat body, white prepupae    5 fat body, pupae P8    8 carcass, larvae L3 wandering    9 carcass, 1-day adult    3 carcass, 4-day adult    4 carcass, 20-day adult    4 ovary, virgin 4-day female    20 ovary, mated 4-day female    21 testis, mated 4-day male    37 accessory gland, mated 4-day male    6 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  log, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering  29 central nervous system, larvae L3    14 central nervous system, pupae P8    8 head, virgin 1-day female    2 head, virgin 4-day female    4 head, virgin 20-day female    3 head, mated 1-day female    2 head, mated 4-day female    3 head, mated 20-day female    4 head, mated 1-day male    6 head, mated 4-day male    5 head, mated 20-day male    7 salivary gland, larvae L3 wandering    2 salivary gland, white prepupae    3 digestive system, larvae L3 wandering    6 digestive system, 1-day adult    3 digestive system, 4-day adult    3 digestive system, 20-day adult    3 fat body, larvae L3 wandering    2 fat body, white prepupae    5 fat body, pupae P8    8 carcass, larvae L3 wandering    9 carcass, 1-day adult    3 carcass, 4-day adult    4 carcass, 20-day adult    4 ovary, virgin 4-day female    20 ovary, mated 4-day female    21 testis, mated 4-day male  (37) accessory gland, mated 4-day male    6 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    29 central nervous system, larvae L3    14 central nervous system, pupae P8    8 head, virgin 1-day female    2 head, virgin 4-day female    4 head, virgin 20-day female    3 head, mated 1-day female    2 head, mated 4-day female    3 head, mated 20-day female    4 head, mated 1-day male    6 head, mated 4-day male    5 head, mated 20-day male    7 salivary gland, larvae L3 wandering    2 salivary gland, white prepupae    3 digestive system, larvae L3 wandering    6 digestive system, 1-day adult    3 digestive system, 4-day adult    3 digestive system, 20-day adult    3 fat body, larvae L3 wandering    2 fat body, white prepupae    5 fat body, pupae P8    8 carcass, larvae L3 wandering    9 carcass, 1-day adult    3 carcass, 4-day adult    4 carcass, 20-day adult    4 ovary, virgin 4-day female    20 ovary, mated 4-day female    21 testis, mated 4-day male    37 accessory gland, mated 4-day male    6 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Extremely high expression Tissue   Expression Level imaginal disc, larvae L3 wandering    29 central nervous system, larvae L3    14 central nervous system, pupae P8    8 head, virgin 1-day female    2 head, virgin 4-day female    4 head, virgin 20-day female    3 head, mated 1-day female    2 head, mated 4-day female    3 head, mated 20-day female    4 head, mated 1-day male    6 head, mated 4-day male    5 head, mated 20-day male    7 salivary gland, larvae L3 wandering    2 salivary gland, white prepupae    3 digestive system, larvae L3 wandering    6 digestive system, 1-day adult    3 digestive system, 4-day adult    3 digestive system, 20-day adult    3 fat body, larvae L3 wandering    2 fat body, white prepupae    5 fat body, pupae P8    8 carcass, larvae L3 wandering    9 carcass, 1-day adult    3 carcass, 4-day adult    4 carcass, 20-day adult    4 ovary, virgin 4-day female    20 ovary, mated 4-day female    21 testis, mated 4-day male    37 accessory gland, mated 4-day male    6 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 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    30 embryo 02-04hr    4 embryo 04-06hr    7 embryo 06-08hr    9 embryo 08-10hr    9 embryo 10-12hr    12 embryo 12-14hr    8 embryo 14-16hr    8 embryo 16-18hr    4 embryo 18-20hr    4 embryo 20-22hr    3 embryo 22-24hr    4 larva L1    7 larva L2    7 larva L3 12hr old    5 larva L3 puffstage 1-2    8 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    15 white prepupae new    15 white prepupae 12hr    18 white prepupae 24hr    22 pupae 2d postWPP    16 pupae 3d postWPP    11 pupae 4d postWPP    10 adult male 01day    11 adult male 05day    17 adult male 30day    16 adult female 01day    14 adult female 05day    21 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  (30) embryo 02-04hr    4 embryo 04-06hr    7 embryo 06-08hr    9 embryo 08-10hr    9 embryo 10-12hr    12 embryo 12-14hr    8 embryo 14-16hr    8 embryo 16-18hr    4 embryo 18-20hr    4 embryo 20-22hr    3 embryo 22-24hr    4 larva L1    7 larva L2    7 larva L3 12hr old    5 larva L3 puffstage 1-2    8 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    15 white prepupae new    15 white prepupae 12hr    18 white prepupae 24hr    22 pupae 2d postWPP    16 pupae 3d postWPP    11 pupae 4d postWPP    10 adult male 01day    11 adult male 05day    17 adult male 30day    16 adult female 01day    14 adult female 05day    21 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    30 embryo 02-04hr    4 embryo 04-06hr    7 embryo 06-08hr    9 embryo 08-10hr    9 embryo 10-12hr    12 embryo 12-14hr    8 embryo 14-16hr    8 embryo 16-18hr    4 embryo 18-20hr    4 embryo 20-22hr    3 embryo 22-24hr    4 larva L1    7 larva L2    7 larva L3 12hr old    5 larva L3 puffstage 1-2    8 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    15 white prepupae new    15 white prepupae 12hr    18 white prepupae 24hr    22 pupae 2d postWPP    16 pupae 3d postWPP    11 pupae 4d postWPP    10 adult male 01day    11 adult male 05day    17 adult male 30day    16 adult female 01day    14 adult female 05day    21 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    30 embryo 02-04hr    4 embryo 04-06hr    7 embryo 06-08hr    9 embryo 08-10hr    9 embryo 10-12hr    12 embryo 12-14hr    8 embryo 14-16hr    8 embryo 16-18hr    4 embryo 18-20hr    4 embryo 20-22hr    3 embryo 22-24hr    4 larva L1    7 larva L2    7 larva L3 12hr old    5 larva L3 puffstage 1-2    8 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    15 white prepupae new    15 white prepupae 12hr    18 white prepupae 24hr    22 pupae 2d postWPP    16 pupae 3d postWPP    11 pupae 4d postWPP    10 adult male 01day    11 adult male 05day    17 adult male 30day    16 adult female 01day    14 adult female 05day    21 adult female 30day    20 Expression Level Scale  Extremely high  log, scaled to maximum expression level Developmental Stage   Expression Level embryo 00-02hr    30 embryo 02-04hr    4 embryo 04-06hr    7 embryo 06-08hr    9 embryo 08-10hr    9 embryo 10-12hr    12 embryo 12-14hr    8 embryo 14-16hr    8 embryo 16-18hr    4 embryo 18-20hr    4 embryo 20-22hr    3 embryo 22-24hr    4 larva L1    7 larva L2    7 larva L3 12hr old    5 larva L3 puffstage 1-2    8 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    15 white prepupae new    15 white prepupae 12hr    18 white prepupae 24hr    22 pupae 2d postWPP    16 pupae 3d postWPP    11 pupae 4d postWPP    10 adult male 01day    11 adult male 05day    17 adult male 30day    16 adult female 01day    14 adult female 05day    21 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  30 embryo 02-04hr    4 embryo 04-06hr    7 embryo 06-08hr    9 embryo 08-10hr    9 embryo 10-12hr    12 embryo 12-14hr    8 embryo 14-16hr    8 embryo 16-18hr    4 embryo 18-20hr    4 embryo 20-22hr    3 embryo 22-24hr    4 larva L1    7 larva L2    7 larva L3 12hr old    5 larva L3 puffstage 1-2    8 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    15 white prepupae new    15 white prepupae 12hr    18 white prepupae 24hr    22 pupae 2d postWPP    16 pupae 3d postWPP    11 pupae 4d postWPP    10 adult male 01day    11 adult male 05day    17 adult male 30day    16 adult female 01day    14 adult female 05day    21 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    30 embryo 02-04hr    4 embryo 04-06hr    7 embryo 06-08hr    9 embryo 08-10hr    9 embryo 10-12hr    12 embryo 12-14hr    8 embryo 14-16hr    8 embryo 16-18hr    4 embryo 18-20hr    4 embryo 20-22hr    3 embryo 22-24hr    4 larva L1    7 larva L2    7 larva L3 12hr old    5 larva L3 puffstage 1-2    8 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    15 white prepupae new    15 white prepupae 12hr    18 white prepupae 24hr    22 pupae 2d postWPP    16 pupae 3d postWPP    11 pupae 4d postWPP    10 adult male 01day    11 adult male 05day    17 adult male 30day    16 adult female 01day    14 adult female 05day    21 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    30 embryo 02-04hr    4 embryo 04-06hr    7 embryo 06-08hr    9 embryo 08-10hr    9 embryo 10-12hr    12 embryo 12-14hr    8 embryo 14-16hr    8 embryo 16-18hr    4 embryo 18-20hr    4 embryo 20-22hr    3 embryo 22-24hr    4 larva L1    7 larva L2    7 larva L3 12hr old    5 larva L3 puffstage 1-2    8 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    15 white prepupae new    15 white prepupae 12hr    18 white prepupae 24hr    22 pupae 2d postWPP    16 pupae 3d postWPP    11 pupae 4d postWPP    10 adult male 01day    11 adult male 05day    17 adult male 30day    16 adult female 01day    14 adult female 05day    21 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+    88 Schneider line 2 Sg4    24 embryonic 1182-4H    11 embryonic GM2    7 embryonic Kc167    14 embryonic S1    23 embryonic S3    15 leg disc CME L1    22 wing disc CME-W2    17 wing disc ML-DmD8    10 wing disc ML-DmD9    14 wing disc ML-DmD16-c3    16 wing disc ML-DmD21    21 wing disc ML-DmD32    10 haltere disc ML-DmD17-c3    19 eye-antennal disc ML-DmD11    10 antennal disc ML-DmD20-c5    15 mixed discs ML-DmD4-c1    15 CNS ML-DmBG1-c1    16 CNS ML-DmBG2-c2    28 tumorous blood cells mbn2    10 ovary fGS/OSS    19 ovary OSC    21 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+  (88) Schneider line 2 Sg4    24 embryonic 1182-4H    11 embryonic GM2    7 embryonic Kc167    14 embryonic S1    23 embryonic S3    15 leg disc CME L1    22 wing disc CME-W2    17 wing disc ML-DmD8    10 wing disc ML-DmD9    14 wing disc ML-DmD16-c3    16 wing disc ML-DmD21    21 wing disc ML-DmD32    10 haltere disc ML-DmD17-c3    19 eye-antennal disc ML-DmD11    10 antennal disc ML-DmD20-c5    15 mixed discs ML-DmD4-c1    15 CNS ML-DmBG1-c1    16 CNS ML-DmBG2-c2  (28) tumorous blood cells mbn2    10 ovary fGS/OSS    19 ovary OSC    21 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+    88 Schneider line 2 Sg4    24 embryonic 1182-4H    11 embryonic GM2    7 embryonic Kc167    14 embryonic S1    23 embryonic S3    15 leg disc CME L1    22 wing disc CME-W2    17 wing disc ML-DmD8    10 wing disc ML-DmD9    14 wing disc ML-DmD16-c3    16 wing disc ML-DmD21    21 wing disc ML-DmD32    10 haltere disc ML-DmD17-c3    19 eye-antennal disc ML-DmD11    10 antennal disc ML-DmD20-c5    15 mixed discs ML-DmD4-c1    15 CNS ML-DmBG1-c1    16 CNS ML-DmBG2-c2    28 tumorous blood cells mbn2    10 ovary fGS/OSS    19 ovary OSC    21 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+    88 Schneider line 2 Sg4    24 embryonic 1182-4H    11 embryonic GM2    7 embryonic Kc167    14 embryonic S1    23 embryonic S3    15 leg disc CME L1    22 wing disc CME-W2    17 wing disc ML-DmD8    10 wing disc ML-DmD9    14 wing disc ML-DmD16-c3    16 wing disc ML-DmD21    21 wing disc ML-DmD32    10 haltere disc ML-DmD17-c3    19 eye-antennal disc ML-DmD11    10 antennal disc ML-DmD20-c5    15 mixed discs ML-DmD4-c1    15 CNS ML-DmBG1-c1    16 CNS ML-DmBG2-c2    28 tumorous blood cells mbn2    10 ovary fGS/OSS    19 ovary OSC    21 ovary OSS    7 Expression Level Scale  Extremely high  log, scaled to maximum expression level Cell Line   Expression Level Schneider line 2 S2R+    88 Schneider line 2 Sg4    24 embryonic 1182-4H    11 embryonic GM2    7 embryonic Kc167    14 embryonic S1    23 embryonic S3    15 leg disc CME L1    22 wing disc CME-W2    17 wing disc ML-DmD8    10 wing disc ML-DmD9    14 wing disc ML-DmD16-c3    16 wing disc ML-DmD21    21 wing disc ML-DmD32    10 haltere disc ML-DmD17-c3    19 eye-antennal disc ML-DmD11    10 antennal disc ML-DmD20-c5    15 mixed discs ML-DmD4-c1    15 CNS ML-DmBG1-c1    16 CNS ML-DmBG2-c2    28 tumorous blood cells mbn2    10 ovary fGS/OSS    19 ovary OSC    21 ovary OSS    7 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+  (88) Schneider line 2 Sg4    24 embryonic 1182-4H    11 embryonic GM2    7 embryonic Kc167    14 embryonic S1    23 embryonic S3    15 leg disc CME L1    22 wing disc CME-W2    17 wing disc ML-DmD8    10 wing disc ML-DmD9    14 wing disc ML-DmD16-c3    16 wing disc ML-DmD21    21 wing disc ML-DmD32    10 haltere disc ML-DmD17-c3    19 eye-antennal disc ML-DmD11    10 antennal disc ML-DmD20-c5    15 mixed discs ML-DmD4-c1    15 CNS ML-DmBG1-c1    16 CNS ML-DmBG2-c2  28 tumorous blood cells mbn2    10 ovary fGS/OSS    19 ovary OSC    21 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+    88 Schneider line 2 Sg4    24 embryonic 1182-4H    11 embryonic GM2    7 embryonic Kc167    14 embryonic S1    23 embryonic S3    15 leg disc CME L1    22 wing disc CME-W2    17 wing disc ML-DmD8    10 wing disc ML-DmD9    14 wing disc ML-DmD16-c3    16 wing disc ML-DmD21    21 wing disc ML-DmD32    10 haltere disc ML-DmD17-c3    19 eye-antennal disc ML-DmD11    10 antennal disc ML-DmD20-c5    15 mixed discs ML-DmD4-c1    15 CNS ML-DmBG1-c1    16 CNS ML-DmBG2-c2    28 tumorous blood cells mbn2    10 ovary fGS/OSS    19 ovary OSC    21 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+    88 Schneider line 2 Sg4    24 embryonic 1182-4H    11 embryonic GM2    7 embryonic Kc167    14 embryonic S1    23 embryonic S3    15 leg disc CME L1    22 wing disc CME-W2    17 wing disc ML-DmD8    10 wing disc ML-DmD9    14 wing disc ML-DmD16-c3    16 wing disc ML-DmD21    21 wing disc ML-DmD32    10 haltere disc ML-DmD17-c3    19 eye-antennal disc ML-DmD11    10 antennal disc ML-DmD20-c5    15 mixed discs ML-DmD4-c1    15 CNS ML-DmBG1-c1    16 CNS ML-DmBG2-c2    28 tumorous blood cells mbn2    10 ovary fGS/OSS    19 ovary OSC    21 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    10 cold shock, 4-day adult    8 heat shock, 4-day adult    13 Cadmium 50 mM 6 hrs, larvae L3    7 Cadmium 50 mM 12 hrs, larvae L3    10 Cadmium 50 mM 48 hrs, 4-day adult    7 Cadmium 100 mM 48 hrs, 4-day adult    17 Copper 0.5 mM 12 hrs, larvae L3    11 Copper 15 mM 48 hrs, 4-day adult    6 Zinc 5 mM 12 hrs, larvae L3    4 Zinc 4.5 mM 48 hrs, 4-day adult    7 Ethanol 2.5% 3 hrs, larvae L3    21 Ethanol 5% 3 hrs, larvae L3    4 Ethanol 10% 3 hrs, larvae L3    5 Caffeine 1.5 mg/ml 4 hrs, larvae L3    4 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    16 Caffeine 25 mg/ml 48 hrs, 4-day adult    12 Paraquat 5 mM 48 hrs, 4-day adult    18 Paraquat 10 mM 48 hrs, 4-day adult    15 Rotenone 2 μg 12 hrs, larvae L3    6 Rotenone 8 μg 12 hrs, larvae L3    5 Expression Level Scale  Very low   Low   Moderate  Linear, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    10 cold shock, 4-day adult    8 heat shock, 4-day adult    13 Cadmium 50 mM 6 hrs, larvae L3    7 Cadmium 50 mM 12 hrs, larvae L3    10 Cadmium 50 mM 48 hrs, 4-day adult    7 Cadmium 100 mM 48 hrs, 4-day adult    17 Copper 0.5 mM 12 hrs, larvae L3    11 Copper 15 mM 48 hrs, 4-day adult    6 Zinc 5 mM 12 hrs, larvae L3    4 Zinc 4.5 mM 48 hrs, 4-day adult    7 Ethanol 2.5% 3 hrs, larvae L3    21 Ethanol 5% 3 hrs, larvae L3    4 Ethanol 10% 3 hrs, larvae L3    5 Caffeine 1.5 mg/ml 4 hrs, larvae L3    4 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    16 Caffeine 25 mg/ml 48 hrs, 4-day adult    12 Paraquat 5 mM 48 hrs, 4-day adult    18 Paraquat 10 mM 48 hrs, 4-day adult    15 Rotenone 2 μg 12 hrs, larvae L3    6 Rotenone 8 μg 12 hrs, larvae L3    5 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    10 cold shock, 4-day adult    8 heat shock, 4-day adult    13 Cadmium 50 mM 6 hrs, larvae L3    7 Cadmium 50 mM 12 hrs, larvae L3    10 Cadmium 50 mM 48 hrs, 4-day adult    7 Cadmium 100 mM 48 hrs, 4-day adult    17 Copper 0.5 mM 12 hrs, larvae L3    11 Copper 15 mM 48 hrs, 4-day adult    6 Zinc 5 mM 12 hrs, larvae L3    4 Zinc 4.5 mM 48 hrs, 4-day adult    7 Ethanol 2.5% 3 hrs, larvae L3    21 Ethanol 5% 3 hrs, larvae L3    4 Ethanol 10% 3 hrs, larvae L3    5 Caffeine 1.5 mg/ml 4 hrs, larvae L3    4 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    16 Caffeine 25 mg/ml 48 hrs, 4-day adult    12 Paraquat 5 mM 48 hrs, 4-day adult    18 Paraquat 10 mM 48 hrs, 4-day adult    15 Rotenone 2 μg 12 hrs, larvae L3    6 Rotenone 8 μg 12 hrs, larvae L3    5 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    10 cold shock, 4-day adult    8 heat shock, 4-day adult    13 Cadmium 50 mM 6 hrs, larvae L3    7 Cadmium 50 mM 12 hrs, larvae L3    10 Cadmium 50 mM 48 hrs, 4-day adult    7 Cadmium 100 mM 48 hrs, 4-day adult    17 Copper 0.5 mM 12 hrs, larvae L3    11 Copper 15 mM 48 hrs, 4-day adult    6 Zinc 5 mM 12 hrs, larvae L3    4 Zinc 4.5 mM 48 hrs, 4-day adult    7 Ethanol 2.5% 3 hrs, larvae L3    21 Ethanol 5% 3 hrs, larvae L3    4 Ethanol 10% 3 hrs, larvae L3    5 Caffeine 1.5 mg/ml 4 hrs, larvae L3    4 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    16 Caffeine 25 mg/ml 48 hrs, 4-day adult    12 Paraquat 5 mM 48 hrs, 4-day adult    18 Paraquat 10 mM 48 hrs, 4-day adult    15 Rotenone 2 μg 12 hrs, larvae L3    6 Rotenone 8 μg 12 hrs, larvae L3    5 Expression Level Scale  Extremely high  log, scaled to maximum expression level Treatment   Expression Level extended cold, 4-day adult    10 cold shock, 4-day adult    8 heat shock, 4-day adult    13 Cadmium 50 mM 6 hrs, larvae L3    7 Cadmium 50 mM 12 hrs, larvae L3    10 Cadmium 50 mM 48 hrs, 4-day adult    7 Cadmium 100 mM 48 hrs, 4-day adult    17 Copper 0.5 mM 12 hrs, larvae L3    11 Copper 15 mM 48 hrs, 4-day adult    6 Zinc 5 mM 12 hrs, larvae L3    4 Zinc 4.5 mM 48 hrs, 4-day adult    7 Ethanol 2.5% 3 hrs, larvae L3    21 Ethanol 5% 3 hrs, larvae L3    4 Ethanol 10% 3 hrs, larvae L3    5 Caffeine 1.5 mg/ml 4 hrs, larvae L3    4 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    16 Caffeine 25 mg/ml 48 hrs, 4-day adult    12 Paraquat 5 mM 48 hrs, 4-day adult    18 Paraquat 10 mM 48 hrs, 4-day adult    15 Rotenone 2 μg 12 hrs, larvae L3    6 Rotenone 8 μg 12 hrs, larvae L3    5 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    10 cold shock, 4-day adult    8 heat shock, 4-day adult    13 Cadmium 50 mM 6 hrs, larvae L3    7 Cadmium 50 mM 12 hrs, larvae L3    10 Cadmium 50 mM 48 hrs, 4-day adult    7 Cadmium 100 mM 48 hrs, 4-day adult    17 Copper 0.5 mM 12 hrs, larvae L3    11 Copper 15 mM 48 hrs, 4-day adult    6 Zinc 5 mM 12 hrs, larvae L3    4 Zinc 4.5 mM 48 hrs, 4-day adult    7 Ethanol 2.5% 3 hrs, larvae L3    21 Ethanol 5% 3 hrs, larvae L3    4 Ethanol 10% 3 hrs, larvae L3    5 Caffeine 1.5 mg/ml 4 hrs, larvae L3    4 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    16 Caffeine 25 mg/ml 48 hrs, 4-day adult    12 Paraquat 5 mM 48 hrs, 4-day adult    18 Paraquat 10 mM 48 hrs, 4-day adult    15 Rotenone 2 μg 12 hrs, larvae L3    6 Rotenone 8 μg 12 hrs, larvae L3    5 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    10 cold shock, 4-day adult    8 heat shock, 4-day adult    13 Cadmium 50 mM 6 hrs, larvae L3    7 Cadmium 50 mM 12 hrs, larvae L3    10 Cadmium 50 mM 48 hrs, 4-day adult    7 Cadmium 100 mM 48 hrs, 4-day adult    17 Copper 0.5 mM 12 hrs, larvae L3    11 Copper 15 mM 48 hrs, 4-day adult    6 Zinc 5 mM 12 hrs, larvae L3    4 Zinc 4.5 mM 48 hrs, 4-day adult    7 Ethanol 2.5% 3 hrs, larvae L3    21 Ethanol 5% 3 hrs, larvae L3    4 Ethanol 10% 3 hrs, larvae L3    5 Caffeine 1.5 mg/ml 4 hrs, larvae L3    4 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    16 Caffeine 25 mg/ml 48 hrs, 4-day adult    12 Paraquat 5 mM 48 hrs, 4-day adult    18 Paraquat 10 mM 48 hrs, 4-day adult    15 Rotenone 2 μg 12 hrs, larvae L3    6 Rotenone 8 μg 12 hrs, larvae L3    5 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    10 cold shock, 4-day adult    8 heat shock, 4-day adult    13 Cadmium 50 mM 6 hrs, larvae L3    7 Cadmium 50 mM 12 hrs, larvae L3    10 Cadmium 50 mM 48 hrs, 4-day adult    7 Cadmium 100 mM 48 hrs, 4-day adult    17 Copper 0.5 mM 12 hrs, larvae L3    11 Copper 15 mM 48 hrs, 4-day adult    6 Zinc 5 mM 12 hrs, larvae L3    4 Zinc 4.5 mM 48 hrs, 4-day adult    7 Ethanol 2.5% 3 hrs, larvae L3    21 Ethanol 5% 3 hrs, larvae L3    4 Ethanol 10% 3 hrs, larvae L3    5 Caffeine 1.5 mg/ml 4 hrs, larvae L3    4 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    16 Caffeine 25 mg/ml 48 hrs, 4-day adult    12 Paraquat 5 mM 48 hrs, 4-day adult    18 Paraquat 10 mM 48 hrs, 4-day adult    15 Rotenone 2 μg 12 hrs, larvae L3    6 Rotenone 8 μg 12 hrs, larvae L3    5 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_02 mE1_20_mRNA_expression_cluster_05
External Data & Images
Linkouts	FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0004832 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG6358-RA
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele viable, with Scer\GAL4pnr-MD237 XpacGD11900 Phenotype manifest in Allele
Classical Alleles ( 1 )
For All Classical Alleles Show
Allele of Xpac Class Mutagen Stocks Known lesion Xpacf01220 piggyBac transposase 1 --
Alleles Carried on Transgenic Constructs ( 4 )
For All Alleles Carried on Transgenic Constructs Show
Allele of Xpac Class Mutagen Stocks Known lesion XpacGD11900 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes XpacKK108692 in vitro construct - RNAi in vitro construct - regulatory fusion 0 Yes XpacNIG.6358R in vitro construct - RNAi in vitro construct - regulatory fusion 0 Yes XpacT:Ecol\lacZ in vitro construct - coding region fusion 0 Yes
Aneuploid Aberrations
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{GD11900} NA P{KK108692} NA P{NIG.6358R} NA reporter construct P{Dxpa-lacZ} No
Insertions
	Type of insertions Name Expression data miscellaneous insertions PBac{WH}Xpacf01220 NA
Gene Ontology: Function, Process & Cellular Component ( 4 unique terms )
Terms Based on Experimental Evidence ( 2 terms )
Molecular Function ( 0 terms)
Biological Process
CV term Evidence References
nucleotide-excision repair inferred from direct assay AND inferred from genetic interaction with human XPA (Shimamoto et al., 1995)
Cellular Component
CV term Evidence References
nucleus inferred from direct assay (Shimamoto et al., 1995)
Terms Based on Predictions or Assertions ( 4 terms )
Molecular Function
CV term Evidence References
damaged DNA binding inferred from electronic annotation with InterPro:IPR000465 (FlyBase Curators et al., 2004-) nucleotide binding inferred from electronic annotation with InterPro:IPR009061 (FlyBase Curators et al., 2004-)
Biological Process
CV term Evidence References
nucleotide-excision repair inferred from sequence or structural similarity with mouse Xpa (FlyBase, 1992-)
Cellular Component
CV term Evidence References
nucleus non-traceable author statement (Swiss-Prot Project Members, 1992.12.1)
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 Xpac allele Gene References
External Data
Linkouts	BioGRID - A database of protein and genetic interactions • 57875 DroID - A comprehensive database of gene and protein interactions. • FBgn0004832 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 31357
Orthologs
OrthoDB Orthologs (36) - 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 EOG6S1TT9 Dipteran inclusive ortholog search EOG64XJRN Insect inclusive ortholog search EOG6HHMZ6 Arthropod inclusive ortholog search EOG6DBRWC Metazoa inclusive ortholog search EOG6DJXQV
Orthologs in Drosophila Species (EOG6S1TT9)
Organism Common Name Gene AAA Syntenic Ortholog Multiple Dmel Genes in this Orthologous Group Drosophila melanogaster fruit fly  Dmel\Xpac     Drosophila sechellia   Dsec\GM12704 Y   Drosophila erecta   Dere\GG18561 Y   Drosophila yakuba   Dyak\GE16873 Y   Drosophila ananassae   Dana\GF21494 Y   Drosophila pseudoobscura pseudoobscura   Dpse\GA19537 Y   Drosophila persimilis   Dper\GL21388 Y   Drosophila willistoni   Dwil\GK10358 Y   Drosophila virilis   Dvir\GJ16428 Y   Drosophila mojavensis   Dmoj\GI16151 Y   Drosophila grimshawi   Dgri\GH24819 Y
Orthologs in non-Drosophila Dipterans (EOG64XJRN)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Aedes aegypti Yellow fever mosquito  Aaeg\AAEL011057   Anopheles gambiae Malaria mosquito  Agam\AGAP007566   Culex quinquefasciatus Southern house mosquito  Cqui\CPIJ006890
Orthologs in non-Dipteran Insects (EOG6HHMZ6)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Apis mellifera Western honey bee  Amel\GB51597   Nasonia vitripennis Parasitic wasp  Nvit\Nasvi2EG010377   Acromyrmex echinatior Panamanian leafcutter ant  Aech\AECH18266   Atta cephalotes Leafcutter ant  Acep\ACEP19178   Harpegnathos saltator Jerdons jumping ant  Hsal\HSAL22270   Linepithema humile Argentine ant  Lhum\LH13215   Pogonomyrmex barbatus Red harvester ant  Pbar\PB21944   Solenopsis invicta Red fire ant  Sinv\SINV21003   Acyrthosiphon pisum Pea aphid  Apim\ACYPI000110   Bombyx mori Silkmoth  Bmor\BGIBMGA014411   Pediculus humanus Human body louse  Phum\PHUM505840   Tribolium castaneum Red flour beetle  Tcas\TC013652
Orthologs in non-Insect Arthropods (EOG6DBRWC)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Daphnia pulex Water flea  Dpux\JGI_V11_220521   Ixodes scapularis Deer tick  Isca\ISCW010408
Orthologs in non-Arthropod Metazoa (EOG6DJXQV)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Caenorhabditis elegans Nematode  Cele\xpa-1   Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_001836gn   Danio rerio Zebrafish  Drer\xpa   Xenopus tropicalis Western clawed frog  Xtro\xpa   Gallus gallus Domestic chicken  Ggal\XPA   Mus musculus House mouse  Mmus\Xpa   Rattus norvegicus Norway rat  Rnor\Xpa   Homo sapiens Human  Hsap\XPA
Human Orthologs (1)
Gene OMIM HGNC Hsap\XPA
AAA Orthologs (10) based on analysis using Dmel annotation version 4.3
Organism Gene Drosophila sechellia Dsec\GM12704 Drosophila erecta Dere\GG18561 Drosophila yakuba Dyak\GE16873 Drosophila ananassae Dana\GF21494 Drosophila pseudoobscura pseudoobscura Dpse\GA19537 Drosophila persimilis Dper\GL21388 Drosophila willistoni Dwil\GK10358 Drosophila virilis Dvir\GJ16428 Drosophila mojavensis Dmoj\GI16151 Drosophila grimshawi Dgri\GH24819
Stocks & Reagents
Stocks Listed in FlyBase ( 2 )
Harvard	- PBac{WH}Xpacf01220
VDRC	v40368 w1118; P{GD11900}v40368
Genomic Clones ( 2 )
	BACR21I10 BACR21M21 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 5 )
	Please Note This section lists cDNAs and ESTs that fall within the genomic extent of the gene model, which may include cDNAs and ESTs of genes within introns, or of overlapping genes. Please see GBrowse for alignment of the cDNAs and ESTs to the gene model.
cDNA Clones, Fully Sequenced
BDGP DGC clones
Other clones	FI17405 IP02612 RT05942
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones
Other clones	63202 IP02611
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0004832 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 31357
Antibody Information
	polyclonal (Shimamoto et al., 1995)
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of	Source for identity of: Xpac CG6358 (Zhao, 1999.11)
Source for database merge of
Additional comments
Other Comments
	Gene is involved in pre-replication DNA repair of UV and AA lesions. (de Buendia, 1998) Xpac gene product is involved in nucleotide excision repair (NER) in vitro and in vivo. The gene is continually expressed in all stages of development with strong expression in the central nervous system and muscles. (Shimamoto et al., 1995) Interspecies conserved regions within the carboxyl terminus suggest the carboxyl terminal domain containing a zinc-finger motif plays an important role in the functioning of Xpac proteins. (Shimamoto et al., 1991)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_057518 RefSeq (Proteins) • NP_476866 DDBJ / EMBL / GenBank • AAF45917 AL033125 BAA06690 BAA06691 CAA21834 CZ483696 D31892 D31893 Entrez Gene - A searchable database of RefSeq genes. • 31357 UniProtKB/Swiss-Prot • P28518
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • XPA (IPR000465) DNA binding domain, putative (IPR009061) Zinc finger, XPA-type, conserved site (IPR022652) XPA C- terminal (IPR022656) XPA, conserved site (IPR022658)
Linkouts
	BioGRID - A database of protein and genetic interactions • 57875 DroID - A comprehensive database of gene and protein interactions. • FBgn0004832 DRSC - Results from RNAi screens. • FBgn0004832 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0004832 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG6358-RA FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0004832 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 31357 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 31357 modMine - Data generated by the modENCODE project. • FBgn0004832
Synonyms & Secondary IDs ( 13 )
Reported As
Symbol Synonym	CG6358 (Gandhi et al., 2007, Keleman et al., 2009.8.5) DhR14 (de Buendia, 1998) DhXPA (de Buendia, 1998) DmXPA (Dusenbery and Smith, 1996) dmXPA (Araj and Smith, 1995) dxpa (Boquet et al., 2000) Dxpa (Shimamoto, 1994.6.22, Shimamoto et al., 1995, ) EG:EG0007.8   Xpa (Giot et al., 2003, Potter et al., 2000) XPA_DROME (Storm and Sonnhammer, 2003) XPAC (Shimamoto, 1994.6.22) Xpac (Japanese National Institute of Genetics, 2012.5.21)
Name Synonym	Xeroderma pigmentosum group A-like
Secondary FlyBase IDs
References ( 29 )
Generate a list of	All references relating to this gene ( 29 )
List References by type	Research paper  ( 6 ) Supplementary material  ( 6 ) Review  ( 2 ) Personal communication to FlyBase  ( 5 ) Abstract  ( 1 ) FlyBase analysis  ( 2 ) DNA/RNA sequence record  ( 2 ) Stock list  ( 1 ) Curated genome annotation  ( 3 ) Protein sequence record  ( 1 )
Recent research papers (0)
	All research papers listed in FlyBase were published before 2011 Show research papers ...
Recent reviews (0)
	All reviews listed in FlyBase were published before 2011 Show reviews ...