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Gene Dmel\Alr

General Information
Symbol	Dmel\Alr	Species	D. melanogaster
Name	Augmenter of liver regeneration	Annotation symbol	CG12534
Feature type	protein_coding_gene	FlyBase ID	FBgn0031068
Gene Model Status	Current	Stock availability	3 publicly available
Genomic Location
Chromosome (arm)	X	Recombination map
Cytogenetic map	18F1-18F1	Sequence location	X:19,642,417..19,644,204 [+]
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 Augmenter of liver regeneration is referred to in FlyBase by the symbol Dmel\Alr (CG12534, FBgn0031068). It is a protein_coding_gene from Drosophila melanogaster. Based on sequence similarity, it is predicted to have molecular function: flavin-linked sulfhydryl oxidase activity. There is experimental evidence that it is involved in the biological process: tissue regeneration. 6 alleles are reported. The phenotype of these alleles is annotated with: imaginal disc. It has 2 annotated transcripts and 2 annotated polypeptides. Protein features are: ERV/ALR sulphydryl oxidase; Erv1/Alr. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of moderate expression. Peak expression observed within 00-06 and 18-24 hour embryonic stages, during early larval stages, at stages throughout the pupal period, in stages of adults of both sexes. Summary of FlyAtlas Anatomical Expression Data: Expression at moderate levels in the following post-embryonic organs or tissues: adult head, adult eye, larval/adult central nervous system, adult hindgut, larval/adult Malpighian tubules, adult ovary, adult testis, adult carcass. Comments on Affy2 ProbeSet: ProbeSet 1630885_at completely aligns to an exonic region of the only FlyBase-annotated transcript isoform of Alr. Gene sequence location is X:19642417..19644204.
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.
Update Feed	Click the icon below to subscribe to this FlyBase record and receive updates automatically through your feed reader.
FB2013_03	Controlled Vocabulary Terms regulation of cell cycle
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 18F1-18F1   Limits computationally determined from genome sequence between P{EP}Sec61γEP1511 and P{EP}EP1116&P{EP}EP1344EP1344
Experimentally Determined Cytological Location
Cytogenetic map Notes References
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\Alr 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 5.45
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) Alr-RA FBtr0074794  NM_134509   1111   261 Alr-RB FBtr0331763  NM_001272802   1291   266
Additional Transcript Data & Comments
Reported size (kB)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kDa) Length (aa) Theoretical pI RefSeq ID GenBank protein Alr-PA   FBpp0074563   30.0   261   8.21     NP_608353   AAF49017 Alr-PB   FBpp0304151   30.7   266   8.40     NP_001259731   AGB95570
Additional Polypeptide Data & Comments
Reported size (kDa)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Erv1/Alr (IPR006863) ERV/ALR sulphydryl oxidase (IPR017905)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AA695527   AA696037   AE014298 AAF49017   AE014298 AGB95570   AI135313   AI455442   AY094854 AAM11207   BG634870   BI171800   BI640490   BP542237   BT023008   BT072969   CA806257   EC064329   EC089540   GO254349   GO254576
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL	Q7KUU5 Q8SX43
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
immunolocalization Stage Tissue/Position (including subcellular localization) Reference third instar larval stage   prothoracic leg disc   (McClure et al., 2008) Comment:activated at sites of regeneration in situ Stage Tissue/Position (including subcellular localization) Reference embryonic stage 1 -- 3   organism   (Fisher et al., 2012) Comment:maternally deposited embryonic stage 3 -- 5   ectoderm   (McClure et al., 2008) Comment:except at the anterior end third instar larval stage   prothoracic leg disc   (McClure et al., 2008) Comment:activated at sites of regeneration
Additional Descriptive Data
	Alr expression is abundant in blastoderm stage embryos except at the anterior end. It is activated in prothoracic leg discs after regeneration is induced. It is expressed along the ventral cut site, where the blastema forms, and along the dorsal cut site. (McClure et al., 2008)
Marker for
Subcellular Localization
CV Term
Polypeptide Expression
immunolocalization Stage Tissue/Position (including subcellular localization) Reference embryonic stage 3 -- 5   ectoderm   (McClure et al., 2008) Comment:except at the anterior end third instar larval stage   prothoracic leg disc   (McClure et al., 2008) Comment:activated at sites of regeneration
Additional Descriptive Data
	Alr expression is abundant in blastoderm stage embryos except at the anterior end. It is activated in prothoracic leg discs after regeneration is induced. It is expressed along the ventral cut site, where the blastema forms, and along the dorsal cut site. (McClure et al., 2008)
Marker for
Subcellular Localization (GO Cellular Component)
CV term Evidence References
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools
Reference	See Gelbart and Emmert, 2010.10.13 for analysis details and data files for all genes.
FlyAtlas Anatomy Microarray
FlyAtlas Anatomical Expression Data (FlyAtlas-RNA.adult) (FlyAtlas-RNA.larva)    Styles Linear Logarithmic Heatmap Back-to-back    Scales gene max expression Moderate expression bin max High level expression bin max Very high expression bin max Summary of FlyAtlas Anatomical Expression Data: Expression at moderate levels in the following post-embryonic organs or tissues: adult head, adult eye, larval/adult central nervous system, adult hindgut, larval/adult Malpighian tubules, adult ovary, adult testis, adult carcass. [download data (TSV)] Guide to FlyAtlas expression level colors   No expression (0 - 9.999)   Low expression (10 - 99.999)   Moderate expression (100 - 499.999)   High level expression (500 - 999.999)   Very high expression (>999.999) Linear, scaled to maximum expression level Tissue   Expression Level Larval Central Nervous System    143.675 Larval Midgut    76.5 Larval Hindgut    70.5 Larval Malpighian Tubules    121.6 Larval Fat Body    71.3 Larval Salivary Gland    80.8 Larval Trachea    96.925 Larval Carcass    88.4 Adult Head    100 Adult Eye    115.775 Adult Brain    139 Adult Thoracic-Abdominal Ganglion    123.3 Adult Crop    89 Adult Midgut    95.6 Adult Hindgut    101.9 Adult Malpighian Tubules    111.8 Adult Fat Body    99.3 Adult Salivary Gland    87.4 Adult Heart    85.25 Adult VirginFemale Spermatheca    59.1 Adult InseminatedFemale Spermatheca    61.4 Adult Ovary    242 Adult Testis    363.4 Adult Male Accessory Gland    74.4 Adult Carcass    121.4 Expression Level Scale  None   Low   Moderate  Linear, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    143.675 Larval Midgut    76.5 Larval Hindgut    70.5 Larval Malpighian Tubules    121.6 Larval Fat Body    71.3 Larval Salivary Gland    80.8 Larval Trachea    96.925 Larval Carcass    88.4 Adult Head    100 Adult Eye    115.775 Adult Brain    139 Adult Thoracic-Abdominal Ganglion    123.3 Adult Crop    89 Adult Midgut    95.6 Adult Hindgut    101.9 Adult Malpighian Tubules    111.8 Adult Fat Body    99.3 Adult Salivary Gland    87.4 Adult Heart    85.25 Adult VirginFemale Spermatheca    59.1 Adult InseminatedFemale Spermatheca    61.4 Adult Ovary    242 Adult Testis    363.4 Adult Male Accessory Gland    74.4 Adult Carcass    121.4 Expression Level Scale  None   Low   Moderate   High  Linear, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    143.675 Larval Midgut    76.5 Larval Hindgut    70.5 Larval Malpighian Tubules    121.6 Larval Fat Body    71.3 Larval Salivary Gland    80.8 Larval Trachea    96.925 Larval Carcass    88.4 Adult Head    100 Adult Eye    115.775 Adult Brain    139 Adult Thoracic-Abdominal Ganglion    123.3 Adult Crop    89 Adult Midgut    95.6 Adult Hindgut    101.9 Adult Malpighian Tubules    111.8 Adult Fat Body    99.3 Adult Salivary Gland    87.4 Adult Heart    85.25 Adult VirginFemale Spermatheca    59.1 Adult InseminatedFemale Spermatheca    61.4 Adult Ovary    242 Adult Testis    363.4 Adult Male Accessory Gland    74.4 Adult Carcass    121.4 Expression Level Scale  None   Low   Moderate   High   Very high  Linear, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    143.675 Larval Midgut    76.5 Larval Hindgut    70.5 Larval Malpighian Tubules    121.6 Larval Fat Body    71.3 Larval Salivary Gland    80.8 Larval Trachea    96.925 Larval Carcass    88.4 Adult Head    100 Adult Eye    115.775 Adult Brain    139 Adult Thoracic-Abdominal Ganglion    123.3 Adult Crop    89 Adult Midgut    95.6 Adult Hindgut    101.9 Adult Malpighian Tubules    111.8 Adult Fat Body    99.3 Adult Salivary Gland    87.4 Adult Heart    85.25 Adult VirginFemale Spermatheca    59.1 Adult InseminatedFemale Spermatheca    61.4 Adult Ovary    242 Adult Testis    363.4 Adult Male Accessory Gland    74.4 Adult Carcass    121.4 Expression Level Scale  Very high  log, scaled to maximum expression level Tissue   Expression Level Larval Central Nervous System    143.675 Larval Midgut    76.5 Larval Hindgut    70.5 Larval Malpighian Tubules    121.6 Larval Fat Body    71.3 Larval Salivary Gland    80.8 Larval Trachea    96.925 Larval Carcass    88.4 Adult Head    100 Adult Eye    115.775 Adult Brain    139 Adult Thoracic-Abdominal Ganglion    123.3 Adult Crop    89 Adult Midgut    95.6 Adult Hindgut    101.9 Adult Malpighian Tubules    111.8 Adult Fat Body    99.3 Adult Salivary Gland    87.4 Adult Heart    85.25 Adult VirginFemale Spermatheca    59.1 Adult InseminatedFemale Spermatheca    61.4 Adult Ovary    242 Adult Testis    363.4 Adult Male Accessory Gland    74.4 Adult Carcass    121.4 Expression Level Scale  None   Low   Moderate   High  log, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    143.675 Larval Midgut    76.5 Larval Hindgut    70.5 Larval Malpighian Tubules    121.6 Larval Fat Body    71.3 Larval Salivary Gland    80.8 Larval Trachea    96.925 Larval Carcass    88.4 Adult Head    100 Adult Eye    115.775 Adult Brain    139 Adult Thoracic-Abdominal Ganglion    123.3 Adult Crop    89 Adult Midgut    95.6 Adult Hindgut    101.9 Adult Malpighian Tubules    111.8 Adult Fat Body    99.3 Adult Salivary Gland    87.4 Adult Heart    85.25 Adult VirginFemale Spermatheca    59.1 Adult InseminatedFemale Spermatheca    61.4 Adult Ovary    242 Adult Testis    363.4 Adult Male Accessory Gland    74.4 Adult Carcass    121.4 Expression Level Scale  None   Low   Moderate   High  log, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    143.675 Larval Midgut    76.5 Larval Hindgut    70.5 Larval Malpighian Tubules    121.6 Larval Fat Body    71.3 Larval Salivary Gland    80.8 Larval Trachea    96.925 Larval Carcass    88.4 Adult Head    100 Adult Eye    115.775 Adult Brain    139 Adult Thoracic-Abdominal Ganglion    123.3 Adult Crop    89 Adult Midgut    95.6 Adult Hindgut    101.9 Adult Malpighian Tubules    111.8 Adult Fat Body    99.3 Adult Salivary Gland    87.4 Adult Heart    85.25 Adult VirginFemale Spermatheca    59.1 Adult InseminatedFemale Spermatheca    61.4 Adult Ovary    242 Adult Testis    363.4 Adult Male Accessory Gland    74.4 Adult Carcass    121.4 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    143.675 Larval Midgut    76.5 Larval Hindgut    70.5 Larval Malpighian Tubules    121.6 Larval Fat Body    71.3 Larval Salivary Gland    80.8 Larval Trachea    96.925 Larval Carcass    88.4 Adult Head    100 Adult Eye    115.775 Adult Brain    139 Adult Thoracic-Abdominal Ganglion    123.3 Adult Crop    89 Adult Midgut    95.6 Adult Hindgut    101.9 Adult Malpighian Tubules    111.8 Adult Fat Body    99.3 Adult Salivary Gland    87.4 Adult Heart    85.25 Adult VirginFemale Spermatheca    59.1 Adult InseminatedFemale Spermatheca    61.4 Adult Ovary    242 Adult Testis    363.4 Adult Male Accessory Gland    74.4 Adult Carcass    121.4 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    100   NA  Eye    115.775   NA  Brain    139   143.675  Central Nervous System    NA   NA  Thoracic-Abdominal Ganglion    123.3   NA  Crop    89   76.5  Midgut    95.6   70.5  Hindgut    101.9   121.6  Malpighian Tubules    111.8   no informative data  Fat Body    99.3   80.8  Salivary Gland    87.4   NA  Heart    85.25   96.925  Trachea    NA   NA  VirginFemale Spermatheca    no informative data   NA  InseminatedFemale Spermatheca    61.4   NA  Ovary    242   NA  Testis    363.4   NA  Male Accessory Gland    74.4   88.4  Carcass    121.4 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    100 central nervous system, larvae L3    19 central nervous system, pupae P8    14 head, virgin 1-day female    13 head, virgin 4-day female    13 head, virgin 20-day female    19 head, mated 1-day female    11 head, mated 4-day female    11 head, mated 20-day female    16 head, mated 1-day male    16 head, mated 4-day male    17 head, mated 20-day male    24 salivary gland, larvae L3 wandering    1 salivary gland, white prepupae    2 digestive system, larvae L3 wandering    10 digestive system, 1-day adult    15 digestive system, 4-day adult    17 digestive system, 20-day adult    19 fat body, larvae L3 wandering    8 fat body, white prepupae    14 fat body, pupae P8    33 carcass, larvae L3 wandering    11 carcass, 1-day adult    12 carcass, 4-day adult    16 carcass, 20-day adult    20 ovary, virgin 4-day female    55 ovary, mated 4-day female    58 testis, mated 4-day male    148 accessory gland, mated 4-day male    23 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering  (100) central nervous system, larvae L3    19 central nervous system, pupae P8    14 head, virgin 1-day female    13 head, virgin 4-day female    13 head, virgin 20-day female    19 head, mated 1-day female    11 head, mated 4-day female    11 head, mated 20-day female    16 head, mated 1-day male    16 head, mated 4-day male    17 head, mated 20-day male    24 salivary gland, larvae L3 wandering    1 salivary gland, white prepupae    2 digestive system, larvae L3 wandering    10 digestive system, 1-day adult    15 digestive system, 4-day adult    17 digestive system, 20-day adult    19 fat body, larvae L3 wandering    8 fat body, white prepupae    14 fat body, pupae P8  (33) carcass, larvae L3 wandering    11 carcass, 1-day adult    12 carcass, 4-day adult    16 carcass, 20-day adult    20 ovary, virgin 4-day female  (55) ovary, mated 4-day female  (58) testis, mated 4-day male  (148) accessory gland, mated 4-day male    23 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    100 central nervous system, larvae L3    19 central nervous system, pupae P8    14 head, virgin 1-day female    13 head, virgin 4-day female    13 head, virgin 20-day female    19 head, mated 1-day female    11 head, mated 4-day female    11 head, mated 20-day female    16 head, mated 1-day male    16 head, mated 4-day male    17 head, mated 20-day male    24 salivary gland, larvae L3 wandering    1 salivary gland, white prepupae    2 digestive system, larvae L3 wandering    10 digestive system, 1-day adult    15 digestive system, 4-day adult    17 digestive system, 20-day adult    19 fat body, larvae L3 wandering    8 fat body, white prepupae    14 fat body, pupae P8    33 carcass, larvae L3 wandering    11 carcass, 1-day adult    12 carcass, 4-day adult    16 carcass, 20-day adult    20 ovary, virgin 4-day female    55 ovary, mated 4-day female    58 testis, mated 4-day male  (148) accessory gland, mated 4-day male    23 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    100 central nervous system, larvae L3    19 central nervous system, pupae P8    14 head, virgin 1-day female    13 head, virgin 4-day female    13 head, virgin 20-day female    19 head, mated 1-day female    11 head, mated 4-day female    11 head, mated 20-day female    16 head, mated 1-day male    16 head, mated 4-day male    17 head, mated 20-day male    24 salivary gland, larvae L3 wandering    1 salivary gland, white prepupae    2 digestive system, larvae L3 wandering    10 digestive system, 1-day adult    15 digestive system, 4-day adult    17 digestive system, 20-day adult    19 fat body, larvae L3 wandering    8 fat body, white prepupae    14 fat body, pupae P8    33 carcass, larvae L3 wandering    11 carcass, 1-day adult    12 carcass, 4-day adult    16 carcass, 20-day adult    20 ovary, virgin 4-day female    55 ovary, mated 4-day female    58 testis, mated 4-day male    148 accessory gland, mated 4-day male    23 Expression Level Scale  Extremely high  log, scaled to maximum expression level Tissue   Expression Level imaginal disc, larvae L3 wandering    100 central nervous system, larvae L3    19 central nervous system, pupae P8    14 head, virgin 1-day female    13 head, virgin 4-day female    13 head, virgin 20-day female    19 head, mated 1-day female    11 head, mated 4-day female    11 head, mated 20-day female    16 head, mated 1-day male    16 head, mated 4-day male    17 head, mated 20-day male    24 salivary gland, larvae L3 wandering    1 salivary gland, white prepupae    2 digestive system, larvae L3 wandering    10 digestive system, 1-day adult    15 digestive system, 4-day adult    17 digestive system, 20-day adult    19 fat body, larvae L3 wandering    8 fat body, white prepupae    14 fat body, pupae P8    33 carcass, larvae L3 wandering    11 carcass, 1-day adult    12 carcass, 4-day adult    16 carcass, 20-day adult    20 ovary, virgin 4-day female    55 ovary, mated 4-day female    58 testis, mated 4-day male    148 accessory gland, mated 4-day male    23 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering  (100) central nervous system, larvae L3    19 central nervous system, pupae P8    14 head, virgin 1-day female    13 head, virgin 4-day female    13 head, virgin 20-day female    19 head, mated 1-day female    11 head, mated 4-day female    11 head, mated 20-day female    16 head, mated 1-day male    16 head, mated 4-day male    17 head, mated 20-day male    24 salivary gland, larvae L3 wandering    1 salivary gland, white prepupae    2 digestive system, larvae L3 wandering    10 digestive system, 1-day adult    15 digestive system, 4-day adult    17 digestive system, 20-day adult    19 fat body, larvae L3 wandering    8 fat body, white prepupae    14 fat body, pupae P8  (33) carcass, larvae L3 wandering    11 carcass, 1-day adult    12 carcass, 4-day adult    16 carcass, 20-day adult    20 ovary, virgin 4-day female  (55) ovary, mated 4-day female  (58) testis, mated 4-day male  (148) accessory gland, mated 4-day male    23 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    100 central nervous system, larvae L3    19 central nervous system, pupae P8    14 head, virgin 1-day female    13 head, virgin 4-day female    13 head, virgin 20-day female    19 head, mated 1-day female    11 head, mated 4-day female    11 head, mated 20-day female    16 head, mated 1-day male    16 head, mated 4-day male    17 head, mated 20-day male    24 salivary gland, larvae L3 wandering    1 salivary gland, white prepupae    2 digestive system, larvae L3 wandering    10 digestive system, 1-day adult    15 digestive system, 4-day adult    17 digestive system, 20-day adult    19 fat body, larvae L3 wandering    8 fat body, white prepupae    14 fat body, pupae P8    33 carcass, larvae L3 wandering    11 carcass, 1-day adult    12 carcass, 4-day adult    16 carcass, 20-day adult    20 ovary, virgin 4-day female    55 ovary, mated 4-day female    58 testis, mated 4-day male  (148) accessory gland, mated 4-day male    23 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    100 central nervous system, larvae L3    19 central nervous system, pupae P8    14 head, virgin 1-day female    13 head, virgin 4-day female    13 head, virgin 20-day female    19 head, mated 1-day female    11 head, mated 4-day female    11 head, mated 20-day female    16 head, mated 1-day male    16 head, mated 4-day male    17 head, mated 20-day male    24 salivary gland, larvae L3 wandering    1 salivary gland, white prepupae    2 digestive system, larvae L3 wandering    10 digestive system, 1-day adult    15 digestive system, 4-day adult    17 digestive system, 20-day adult    19 fat body, larvae L3 wandering    8 fat body, white prepupae    14 fat body, pupae P8    33 carcass, larvae L3 wandering    11 carcass, 1-day adult    12 carcass, 4-day adult    16 carcass, 20-day adult    20 ovary, virgin 4-day female    55 ovary, mated 4-day female    58 testis, mated 4-day male    148 accessory gland, mated 4-day male    23 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 moderate expression. Peak expression observed within 00-06 and 18-24 hour embryonic stages, during early larval stages, at stages throughout the pupal period, in stages of adults of both sexes. [download data (TSV)] Guide to modENCODE expression level colors   No/Extremely low expression (0 - 0)   Very low expression (1 - 3)   Low expression (4 - 10)   Moderate expression (11 - 25)   Moderately high expression (26 - 50)   High expression (51 - 100)   Very high expression (101 - 1000)   Extremely high expression (>1000) Linear, scaled to maximum expression level Developmental Stage   Expression Level embryo 00-02hr    45 embryo 02-04hr    13 embryo 04-06hr    8 embryo 06-08hr    12 embryo 08-10hr    9 embryo 10-12hr    9 embryo 12-14hr    8 embryo 14-16hr    12 embryo 16-18hr    15 embryo 18-20hr    23 embryo 20-22hr    22 embryo 22-24hr    20 larva L1    19 larva L2    18 larva L3 12hr old    14 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    11 larva L3 puffstage 7-9    10 white prepupae new    9 white prepupae 12hr    13 white prepupae 24hr    17 pupae 2d postWPP    19 pupae 3d postWPP    18 pupae 4d postWPP    23 adult male 01day    26 adult male 05day    34 adult male 30day    37 adult female 01day    18 adult female 05day    26 adult female 30day    28 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr  (45) embryo 02-04hr    13 embryo 04-06hr    8 embryo 06-08hr    12 embryo 08-10hr    9 embryo 10-12hr    9 embryo 12-14hr    8 embryo 14-16hr    12 embryo 16-18hr    15 embryo 18-20hr    23 embryo 20-22hr    22 embryo 22-24hr    20 larva L1    19 larva L2    18 larva L3 12hr old    14 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    11 larva L3 puffstage 7-9    10 white prepupae new    9 white prepupae 12hr    13 white prepupae 24hr    17 pupae 2d postWPP    19 pupae 3d postWPP    18 pupae 4d postWPP    23 adult male 01day  26 adult male 05day  (34) adult male 30day  (37) adult female 01day    18 adult female 05day  26 adult female 30day  (28) Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    45 embryo 02-04hr    13 embryo 04-06hr    8 embryo 06-08hr    12 embryo 08-10hr    9 embryo 10-12hr    9 embryo 12-14hr    8 embryo 14-16hr    12 embryo 16-18hr    15 embryo 18-20hr    23 embryo 20-22hr    22 embryo 22-24hr    20 larva L1    19 larva L2    18 larva L3 12hr old    14 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    11 larva L3 puffstage 7-9    10 white prepupae new    9 white prepupae 12hr    13 white prepupae 24hr    17 pupae 2d postWPP    19 pupae 3d postWPP    18 pupae 4d postWPP    23 adult male 01day    26 adult male 05day    34 adult male 30day    37 adult female 01day    18 adult female 05day    26 adult female 30day    28 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    45 embryo 02-04hr    13 embryo 04-06hr    8 embryo 06-08hr    12 embryo 08-10hr    9 embryo 10-12hr    9 embryo 12-14hr    8 embryo 14-16hr    12 embryo 16-18hr    15 embryo 18-20hr    23 embryo 20-22hr    22 embryo 22-24hr    20 larva L1    19 larva L2    18 larva L3 12hr old    14 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    11 larva L3 puffstage 7-9    10 white prepupae new    9 white prepupae 12hr    13 white prepupae 24hr    17 pupae 2d postWPP    19 pupae 3d postWPP    18 pupae 4d postWPP    23 adult male 01day    26 adult male 05day    34 adult male 30day    37 adult female 01day    18 adult female 05day    26 adult female 30day    28 Expression Level Scale  Extremely high  log, scaled to maximum expression level Developmental Stage   Expression Level embryo 00-02hr    45 embryo 02-04hr    13 embryo 04-06hr    8 embryo 06-08hr    12 embryo 08-10hr    9 embryo 10-12hr    9 embryo 12-14hr    8 embryo 14-16hr    12 embryo 16-18hr    15 embryo 18-20hr    23 embryo 20-22hr    22 embryo 22-24hr    20 larva L1    19 larva L2    18 larva L3 12hr old    14 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    11 larva L3 puffstage 7-9    10 white prepupae new    9 white prepupae 12hr    13 white prepupae 24hr    17 pupae 2d postWPP    19 pupae 3d postWPP    18 pupae 4d postWPP    23 adult male 01day    26 adult male 05day    34 adult male 30day    37 adult female 01day    18 adult female 05day    26 adult female 30day    28 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  log, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr  (45) embryo 02-04hr    13 embryo 04-06hr    8 embryo 06-08hr    12 embryo 08-10hr    9 embryo 10-12hr    9 embryo 12-14hr    8 embryo 14-16hr    12 embryo 16-18hr    15 embryo 18-20hr    23 embryo 20-22hr    22 embryo 22-24hr    20 larva L1    19 larva L2    18 larva L3 12hr old    14 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    11 larva L3 puffstage 7-9    10 white prepupae new    9 white prepupae 12hr    13 white prepupae 24hr    17 pupae 2d postWPP    19 pupae 3d postWPP    18 pupae 4d postWPP    23 adult male 01day  26 adult male 05day  (34) adult male 30day  (37) adult female 01day    18 adult female 05day  26 adult female 30day  28 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    45 embryo 02-04hr    13 embryo 04-06hr    8 embryo 06-08hr    12 embryo 08-10hr    9 embryo 10-12hr    9 embryo 12-14hr    8 embryo 14-16hr    12 embryo 16-18hr    15 embryo 18-20hr    23 embryo 20-22hr    22 embryo 22-24hr    20 larva L1    19 larva L2    18 larva L3 12hr old    14 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    11 larva L3 puffstage 7-9    10 white prepupae new    9 white prepupae 12hr    13 white prepupae 24hr    17 pupae 2d postWPP    19 pupae 3d postWPP    18 pupae 4d postWPP    23 adult male 01day    26 adult male 05day    34 adult male 30day    37 adult female 01day    18 adult female 05day    26 adult female 30day    28 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    45 embryo 02-04hr    13 embryo 04-06hr    8 embryo 06-08hr    12 embryo 08-10hr    9 embryo 10-12hr    9 embryo 12-14hr    8 embryo 14-16hr    12 embryo 16-18hr    15 embryo 18-20hr    23 embryo 20-22hr    22 embryo 22-24hr    20 larva L1    19 larva L2    18 larva L3 12hr old    14 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    11 larva L3 puffstage 7-9    10 white prepupae new    9 white prepupae 12hr    13 white prepupae 24hr    17 pupae 2d postWPP    19 pupae 3d postWPP    18 pupae 4d postWPP    23 adult male 01day    26 adult male 05day    34 adult male 30day    37 adult female 01day    18 adult female 05day    26 adult female 30day    28 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+    34 Schneider line 2 Sg4    37 embryonic 1182-4H    72 embryonic GM2    107 embryonic Kc167    64 embryonic S1    144 embryonic S3    43 leg disc CME L1    80 wing disc CME-W2    56 wing disc ML-DmD8    55 wing disc ML-DmD9    120 wing disc ML-DmD16-c3    45 wing disc ML-DmD21    76 wing disc ML-DmD32    65 haltere disc ML-DmD17-c3    50 eye-antennal disc ML-DmD11    101 antennal disc ML-DmD20-c5    51 mixed discs ML-DmD4-c1    43 CNS ML-DmBG1-c1    120 CNS ML-DmBG2-c2    103 tumorous blood cells mbn2    45 ovary fGS/OSS    84 ovary OSC    68 ovary OSS    67 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+  (34) Schneider line 2 Sg4  (37) embryonic 1182-4H  (72) embryonic GM2  (107) embryonic Kc167  (64) embryonic S1  (144) embryonic S3  (43) leg disc CME L1  (80) wing disc CME-W2  (56) wing disc ML-DmD8  (55) wing disc ML-DmD9  (120) wing disc ML-DmD16-c3  (45) wing disc ML-DmD21  (76) wing disc ML-DmD32  (65) haltere disc ML-DmD17-c3  (50) eye-antennal disc ML-DmD11  (101) antennal disc ML-DmD20-c5  (51) mixed discs ML-DmD4-c1  (43) CNS ML-DmBG1-c1  (120) CNS ML-DmBG2-c2  (103) tumorous blood cells mbn2  (45) ovary fGS/OSS  (84) ovary OSC  (68) ovary OSS  (67) Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    34 Schneider line 2 Sg4    37 embryonic 1182-4H    72 embryonic GM2  107 embryonic Kc167    64 embryonic S1  (144) embryonic S3    43 leg disc CME L1    80 wing disc CME-W2    56 wing disc ML-DmD8    55 wing disc ML-DmD9  (120) wing disc ML-DmD16-c3    45 wing disc ML-DmD21    76 wing disc ML-DmD32    65 haltere disc ML-DmD17-c3    50 eye-antennal disc ML-DmD11  101 antennal disc ML-DmD20-c5    51 mixed discs ML-DmD4-c1    43 CNS ML-DmBG1-c1  (120) CNS ML-DmBG2-c2  103 tumorous blood cells mbn2    45 ovary fGS/OSS    84 ovary OSC    68 ovary OSS    67 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+    34 Schneider line 2 Sg4    37 embryonic 1182-4H    72 embryonic GM2    107 embryonic Kc167    64 embryonic S1    144 embryonic S3    43 leg disc CME L1    80 wing disc CME-W2    56 wing disc ML-DmD8    55 wing disc ML-DmD9    120 wing disc ML-DmD16-c3    45 wing disc ML-DmD21    76 wing disc ML-DmD32    65 haltere disc ML-DmD17-c3    50 eye-antennal disc ML-DmD11    101 antennal disc ML-DmD20-c5    51 mixed discs ML-DmD4-c1    43 CNS ML-DmBG1-c1    120 CNS ML-DmBG2-c2    103 tumorous blood cells mbn2    45 ovary fGS/OSS    84 ovary OSC    68 ovary OSS    67 Expression Level Scale  Extremely high  log, scaled to maximum expression level Cell Line   Expression Level Schneider line 2 S2R+    34 Schneider line 2 Sg4    37 embryonic 1182-4H    72 embryonic GM2    107 embryonic Kc167    64 embryonic S1    144 embryonic S3    43 leg disc CME L1    80 wing disc CME-W2    56 wing disc ML-DmD8    55 wing disc ML-DmD9    120 wing disc ML-DmD16-c3    45 wing disc ML-DmD21    76 wing disc ML-DmD32    65 haltere disc ML-DmD17-c3    50 eye-antennal disc ML-DmD11    101 antennal disc ML-DmD20-c5    51 mixed discs ML-DmD4-c1    43 CNS ML-DmBG1-c1    120 CNS ML-DmBG2-c2    103 tumorous blood cells mbn2    45 ovary fGS/OSS    84 ovary OSC    68 ovary OSS    67 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+  (34) Schneider line 2 Sg4  (37) embryonic 1182-4H  (72) embryonic GM2  (107) embryonic Kc167  (64) embryonic S1  (144) embryonic S3  (43) leg disc CME L1  (80) wing disc CME-W2  (56) wing disc ML-DmD8  (55) wing disc ML-DmD9  (120) wing disc ML-DmD16-c3  (45) wing disc ML-DmD21  (76) wing disc ML-DmD32  (65) haltere disc ML-DmD17-c3  (50) eye-antennal disc ML-DmD11  (101) antennal disc ML-DmD20-c5  (51) mixed discs ML-DmD4-c1  (43) CNS ML-DmBG1-c1  (120) CNS ML-DmBG2-c2  (103) tumorous blood cells mbn2  (45) ovary fGS/OSS  (84) ovary OSC  (68) ovary OSS  (67) Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    34 Schneider line 2 Sg4    37 embryonic 1182-4H    72 embryonic GM2  107 embryonic Kc167    64 embryonic S1  (144) embryonic S3    43 leg disc CME L1    80 wing disc CME-W2    56 wing disc ML-DmD8    55 wing disc ML-DmD9  120 wing disc ML-DmD16-c3    45 wing disc ML-DmD21    76 wing disc ML-DmD32    65 haltere disc ML-DmD17-c3    50 eye-antennal disc ML-DmD11  101 antennal disc ML-DmD20-c5    51 mixed discs ML-DmD4-c1    43 CNS ML-DmBG1-c1  120 CNS ML-DmBG2-c2  103 tumorous blood cells mbn2    45 ovary fGS/OSS    84 ovary OSC    68 ovary OSS    67 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+    34 Schneider line 2 Sg4    37 embryonic 1182-4H    72 embryonic GM2    107 embryonic Kc167    64 embryonic S1    144 embryonic S3    43 leg disc CME L1    80 wing disc CME-W2    56 wing disc ML-DmD8    55 wing disc ML-DmD9    120 wing disc ML-DmD16-c3    45 wing disc ML-DmD21    76 wing disc ML-DmD32    65 haltere disc ML-DmD17-c3    50 eye-antennal disc ML-DmD11    101 antennal disc ML-DmD20-c5    51 mixed discs ML-DmD4-c1    43 CNS ML-DmBG1-c1    120 CNS ML-DmBG2-c2    103 tumorous blood cells mbn2    45 ovary fGS/OSS    84 ovary OSC    68 ovary OSS    67 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    28 cold shock, 4-day adult    18 heat shock, 4-day adult    28 Cadmium 50 mM 6 hrs, larvae L3    15 Cadmium 50 mM 12 hrs, larvae L3    13 Cadmium 50 mM 48 hrs, 4-day adult    33 Cadmium 100 mM 48 hrs, 4-day adult    76 Copper 0.5 mM 12 hrs, larvae L3    9 Copper 15 mM 48 hrs, 4-day adult    21 Zinc 5 mM 12 hrs, larvae L3    17 Zinc 4.5 mM 48 hrs, 4-day adult    24 Ethanol 2.5% 3 hrs, larvae L3    55 Ethanol 5% 3 hrs, larvae L3    22 Ethanol 10% 3 hrs, larvae L3    20 Caffeine 1.5 mg/ml 4 hrs, larvae L3    32 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    59 Caffeine 25 mg/ml 48 hrs, 4-day adult    30 Paraquat 5 mM 48 hrs, 4-day adult    49 Paraquat 10 mM 48 hrs, 4-day adult    114 Rotenone 2 μg 12 hrs, larvae L3    19 Rotenone 8 μg 12 hrs, larvae L3    44 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult  (28) cold shock, 4-day adult    18 heat shock, 4-day adult  (28) Cadmium 50 mM 6 hrs, larvae L3    15 Cadmium 50 mM 12 hrs, larvae L3    13 Cadmium 50 mM 48 hrs, 4-day adult  (33) Cadmium 100 mM 48 hrs, 4-day adult  (76) Copper 0.5 mM 12 hrs, larvae L3    9 Copper 15 mM 48 hrs, 4-day adult    21 Zinc 5 mM 12 hrs, larvae L3    17 Zinc 4.5 mM 48 hrs, 4-day adult    24 Ethanol 2.5% 3 hrs, larvae L3  (55) Ethanol 5% 3 hrs, larvae L3    22 Ethanol 10% 3 hrs, larvae L3    20 Caffeine 1.5 mg/ml 4 hrs, larvae L3  (32) Caffeine 2.5 mg/ml 48 hrs, 4-day adult  (59) Caffeine 25 mg/ml 48 hrs, 4-day adult  (30) Paraquat 5 mM 48 hrs, 4-day adult  (49) Paraquat 10 mM 48 hrs, 4-day adult  (114) Rotenone 2 μg 12 hrs, larvae L3    19 Rotenone 8 μg 12 hrs, larvae L3  (44) Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    28 cold shock, 4-day adult    18 heat shock, 4-day adult    28 Cadmium 50 mM 6 hrs, larvae L3    15 Cadmium 50 mM 12 hrs, larvae L3    13 Cadmium 50 mM 48 hrs, 4-day adult    33 Cadmium 100 mM 48 hrs, 4-day adult    76 Copper 0.5 mM 12 hrs, larvae L3    9 Copper 15 mM 48 hrs, 4-day adult    21 Zinc 5 mM 12 hrs, larvae L3    17 Zinc 4.5 mM 48 hrs, 4-day adult    24 Ethanol 2.5% 3 hrs, larvae L3    55 Ethanol 5% 3 hrs, larvae L3    22 Ethanol 10% 3 hrs, larvae L3    20 Caffeine 1.5 mg/ml 4 hrs, larvae L3    32 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    59 Caffeine 25 mg/ml 48 hrs, 4-day adult    30 Paraquat 5 mM 48 hrs, 4-day adult    49 Paraquat 10 mM 48 hrs, 4-day adult  (114) Rotenone 2 μg 12 hrs, larvae L3    19 Rotenone 8 μg 12 hrs, larvae L3    44 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    28 cold shock, 4-day adult    18 heat shock, 4-day adult    28 Cadmium 50 mM 6 hrs, larvae L3    15 Cadmium 50 mM 12 hrs, larvae L3    13 Cadmium 50 mM 48 hrs, 4-day adult    33 Cadmium 100 mM 48 hrs, 4-day adult    76 Copper 0.5 mM 12 hrs, larvae L3    9 Copper 15 mM 48 hrs, 4-day adult    21 Zinc 5 mM 12 hrs, larvae L3    17 Zinc 4.5 mM 48 hrs, 4-day adult    24 Ethanol 2.5% 3 hrs, larvae L3    55 Ethanol 5% 3 hrs, larvae L3    22 Ethanol 10% 3 hrs, larvae L3    20 Caffeine 1.5 mg/ml 4 hrs, larvae L3    32 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    59 Caffeine 25 mg/ml 48 hrs, 4-day adult    30 Paraquat 5 mM 48 hrs, 4-day adult    49 Paraquat 10 mM 48 hrs, 4-day adult    114 Rotenone 2 μg 12 hrs, larvae L3    19 Rotenone 8 μg 12 hrs, larvae L3    44 Expression Level Scale  Extremely high  log, scaled to maximum expression level Treatment   Expression Level extended cold, 4-day adult    28 cold shock, 4-day adult    18 heat shock, 4-day adult    28 Cadmium 50 mM 6 hrs, larvae L3    15 Cadmium 50 mM 12 hrs, larvae L3    13 Cadmium 50 mM 48 hrs, 4-day adult    33 Cadmium 100 mM 48 hrs, 4-day adult    76 Copper 0.5 mM 12 hrs, larvae L3    9 Copper 15 mM 48 hrs, 4-day adult    21 Zinc 5 mM 12 hrs, larvae L3    17 Zinc 4.5 mM 48 hrs, 4-day adult    24 Ethanol 2.5% 3 hrs, larvae L3    55 Ethanol 5% 3 hrs, larvae L3    22 Ethanol 10% 3 hrs, larvae L3    20 Caffeine 1.5 mg/ml 4 hrs, larvae L3    32 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    59 Caffeine 25 mg/ml 48 hrs, 4-day adult    30 Paraquat 5 mM 48 hrs, 4-day adult    49 Paraquat 10 mM 48 hrs, 4-day adult    114 Rotenone 2 μg 12 hrs, larvae L3    19 Rotenone 8 μg 12 hrs, larvae L3    44 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult  28 cold shock, 4-day adult    18 heat shock, 4-day adult  28 Cadmium 50 mM 6 hrs, larvae L3    15 Cadmium 50 mM 12 hrs, larvae L3    13 Cadmium 50 mM 48 hrs, 4-day adult  (33) Cadmium 100 mM 48 hrs, 4-day adult  (76) Copper 0.5 mM 12 hrs, larvae L3    9 Copper 15 mM 48 hrs, 4-day adult    21 Zinc 5 mM 12 hrs, larvae L3    17 Zinc 4.5 mM 48 hrs, 4-day adult    24 Ethanol 2.5% 3 hrs, larvae L3  (55) Ethanol 5% 3 hrs, larvae L3    22 Ethanol 10% 3 hrs, larvae L3    20 Caffeine 1.5 mg/ml 4 hrs, larvae L3  32 Caffeine 2.5 mg/ml 48 hrs, 4-day adult  (59) Caffeine 25 mg/ml 48 hrs, 4-day adult  30 Paraquat 5 mM 48 hrs, 4-day adult  (49) Paraquat 10 mM 48 hrs, 4-day adult  (114) Rotenone 2 μg 12 hrs, larvae L3    19 Rotenone 8 μg 12 hrs, larvae L3  (44) Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    28 cold shock, 4-day adult    18 heat shock, 4-day adult    28 Cadmium 50 mM 6 hrs, larvae L3    15 Cadmium 50 mM 12 hrs, larvae L3    13 Cadmium 50 mM 48 hrs, 4-day adult    33 Cadmium 100 mM 48 hrs, 4-day adult    76 Copper 0.5 mM 12 hrs, larvae L3    9 Copper 15 mM 48 hrs, 4-day adult    21 Zinc 5 mM 12 hrs, larvae L3    17 Zinc 4.5 mM 48 hrs, 4-day adult    24 Ethanol 2.5% 3 hrs, larvae L3    55 Ethanol 5% 3 hrs, larvae L3    22 Ethanol 10% 3 hrs, larvae L3    20 Caffeine 1.5 mg/ml 4 hrs, larvae L3    32 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    59 Caffeine 25 mg/ml 48 hrs, 4-day adult    30 Paraquat 5 mM 48 hrs, 4-day adult    49 Paraquat 10 mM 48 hrs, 4-day adult  114 Rotenone 2 μg 12 hrs, larvae L3    19 Rotenone 8 μg 12 hrs, larvae L3    44 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    28 cold shock, 4-day adult    18 heat shock, 4-day adult    28 Cadmium 50 mM 6 hrs, larvae L3    15 Cadmium 50 mM 12 hrs, larvae L3    13 Cadmium 50 mM 48 hrs, 4-day adult    33 Cadmium 100 mM 48 hrs, 4-day adult    76 Copper 0.5 mM 12 hrs, larvae L3    9 Copper 15 mM 48 hrs, 4-day adult    21 Zinc 5 mM 12 hrs, larvae L3    17 Zinc 4.5 mM 48 hrs, 4-day adult    24 Ethanol 2.5% 3 hrs, larvae L3    55 Ethanol 5% 3 hrs, larvae L3    22 Ethanol 10% 3 hrs, larvae L3    20 Caffeine 1.5 mg/ml 4 hrs, larvae L3    32 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    59 Caffeine 25 mg/ml 48 hrs, 4-day adult    30 Paraquat 5 mM 48 hrs, 4-day adult    49 Paraquat 10 mM 48 hrs, 4-day adult    114 Rotenone 2 μg 12 hrs, larvae L3    19 Rotenone 8 μg 12 hrs, larvae L3    44 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_26 mE1_20_mRNA_expression_cluster_09
External Data & Images
Linkouts	BDGP expression data • RE13652 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0031068 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG12534-RA
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele lethal | recessive | third instar larval stage Alr1 Alr2 Alr3 Phenotype manifest in Allele imaginal disc Alr1 Alr2 Alr3
Classical Alleles ( 3 )
For All Classical Alleles Show
Allele of Alr Class Mutagen Stocks Known lesion Alr1 P-element activity 1 Yes Alr2 P-element activity 1 Yes Alr3 P-element activity 0 Yes
Alleles Carried on Transgenic Constructs ( 3 )
For All Alleles Carried on Transgenic Constructs Show
Allele of Alr Class Mutagen Stocks Known lesion AlrKK108339 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes AlrGD15114 in vitro construct - RNAi in vitro construct - regulatory fusion 0 Yes AlrNIG.12534R in vitro construct - RNAi in vitro construct - regulatory fusion 0 Yes
Aneuploid Aberrations
Disrupted in	Df(1)Exel6253 (Ryder, 2004.4.26)
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{KK108339} NA P{NIG.12534R} NA
Insertions
	Type of insertions Name Expression data miscellaneous insertions P{SUPor-P}Pmp70KG08105 NA insertion of mobile activating element P{EPgy2}EY03908 NA P{EPgy2}parvinEY03677 NA
Gene Ontology: Function, Process & Cellular Component ( 5 unique terms )
Terms Based on Experimental Evidence ( 2 terms )
Molecular Function ( 0 terms)
Biological Process
CV term Evidence References
regulation of cell cycle inferred from direct assay (Guest et al., 2011) tissue regeneration inferred from expression pattern (McClure et al., 2008) inferred from mutant phenotype (McClure et al., 2008)
Cellular Component ( 0 terms)
Terms Based on Predictions or Assertions ( 3 terms )
Molecular Function
CV term Evidence References
flavin-linked sulfhydryl oxidase activity inferred from sequence or structural similarity with Saccharomyces ERV1 (FlyBase, 1992-)
Biological Process
CV term Evidence References
oxidation-reduction process inferred from electronic annotation with InterPro:IPR006863, InterPro:IPR017905 (FlyBase Curators et al., 2004-)
Cellular Component
CV term Evidence References
mitochondrion inferred from sequence or structural similarity with Saccharomyces ERV1 (FlyBase, 1992-)
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 Alr allele Gene References
External Data
Linkouts	BioGRID - A database of protein and genetic interactions • 59286 DroID - A comprehensive database of gene and protein interactions. • FBgn0031068 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 32991
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 EOG63BN8B Dipteran inclusive ortholog search EOG6VX2FD Insect inclusive ortholog search EOG66DK0F Arthropod inclusive ortholog search EOG6TQJSN Metazoa inclusive ortholog search EOG6N0H98
Orthologs in Drosophila Species (EOG63BN8B)
Organism Common Name Gene AAA Syntenic Ortholog Multiple Dmel Genes in this Orthologous Group Drosophila melanogaster fruit fly  Dmel\Alr     Drosophila simulans   Dsim\GD17467 Y   Drosophila sechellia   Dsec\GM22993 Y   Drosophila erecta   Dere\GG19256 Y   Drosophila yakuba   Dyak\GE15875 Y   Drosophila ananassae   Dana\GF20218 Y   Drosophila pseudoobscura pseudoobscura   Dpse\GA11683 Y   Drosophila persimilis   Dper\GL15019 Y   Drosophila willistoni   Dwil\GK25283 Y   Drosophila virilis   Dvir\GJ15753 Y   Drosophila mojavensis   Dmoj\GI16104 Y   Drosophila grimshawi   Dgri\GH18034 Y
Orthologs in non-Drosophila Dipterans (EOG6VX2FD)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Aedes aegypti Yellow fever mosquito  Aaeg\AAEL014737   Aedes aegypti Yellow fever mosquito  Aaeg\AAEL008891   Anopheles gambiae Malaria mosquito  Agam\AGAP006470   Culex quinquefasciatus Southern house mosquito  Cqui\CPIJ012226
Orthologs in non-Dipteran Insects (EOG66DK0F)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Apis mellifera Western honey bee  Amel\Alr   Nasonia vitripennis Parasitic wasp  Nvit\Nasvi2EG000422   Acromyrmex echinatior Panamanian leafcutter ant  Aech\AECH23142   Atta cephalotes Leafcutter ant  Acep\ACEP27303   Camponotus floridanus Florida carpenter ant  Cflo\CFLO15685   Harpegnathos saltator Jerdons jumping ant  Hsal\HSAL12915   Linepithema humile Argentine ant  Lhum\LH23862   Pogonomyrmex barbatus Red harvester ant  Pbar\PB22250   Solenopsis invicta Red fire ant  Sinv\SINV25617   Acyrthosiphon pisum Pea aphid  Apim\ACYPI008907   Acyrthosiphon pisum Pea aphid  Apim\ACYPI28318   Acyrthosiphon pisum Pea aphid  Apim\ACYPI45593   Bombyx mori Silkmoth  Bmor\BGIBMGA014475   Pediculus humanus Human body louse  Phum\PHUM519410   Tribolium castaneum Red flour beetle  Tcas\TC003291
Orthologs in non-Insect Arthropods (EOG6TQJSN)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Daphnia pulex Water flea  Dpux\Mfap5
Orthologs in non-Arthropod Metazoa (EOG6N0H98)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Caenorhabditis elegans Nematode  Cele\F56C11.3   Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_027970gn   Danio rerio Zebrafish  Drer\gfer   Xenopus tropicalis Western clawed frog  Xtro\gfer   Gallus gallus Domestic chicken  Ggal\GFER   Mus musculus House mouse  Mmus\Gfer   Rattus norvegicus Norway rat  Rnor\Gfer   Homo sapiens Human  Hsap\GFER
Human Orthologs (1)
Gene OMIM HGNC Hsap\GFER
AAA Orthologs (11) based on analysis using Dmel annotation version 4.3
Organism Gene Drosophila simulans Dsim\GD17467 Drosophila sechellia Dsec\GM22993 Drosophila erecta Dere\GG19256 Drosophila yakuba Dyak\GE15875 Drosophila ananassae Dana\GF20218 Drosophila pseudoobscura pseudoobscura Dpse\GA11683 Drosophila persimilis Dper\GL15019 Drosophila willistoni Dwil\GK25283 Drosophila virilis Dvir\GJ15753 Drosophila mojavensis Dmoj\GI16104 Drosophila grimshawi Dgri\GH18034
Stocks & Reagents
Stocks Listed in FlyBase ( 3 )
Bloomington	25048 y1 w67c23 Alr1/FM7i, P{ActGFP}JMR3 25049 y1 w67c23 Alr2/FM7i, P{ActGFP}JMR3
VDRC	v108383 P{KK108339}VIE-260B
Genomic Clones ( 2 )
	BACR33M08 BACR48P17 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 15 )
	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	IP04111 RE13652
Other clones	MIP09632
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	AT31246 GH12993 GM02968 GM04945 SD23371
Other clones	81462 163687 ESG012c.E21_C05 FGC010F04 LD24271 RP01084 RP01113
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0031068 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 32991
Antibody Information
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of	Source for identity of: Alr CG12534 (McClure et al., 2008)
Source for database merge of
Additional comments
Other Comments
	Alr functions in blastema cell proliferation and the extent of regeneration. (McClure et al., 2008)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_134509 NM_001272802 RefSeq (Proteins) • NP_608353 NP_001259731 DDBJ / EMBL / GenBank • AAF49017 AAM11207 AGB95570 AY094854 BI171800 Entrez Gene - A searchable database of RefSeq genes. • 32991 UniProtKB/TrEMBL • Q7KUU5 Q8SX43
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • Erv1/Alr (IPR006863) ERV/ALR sulphydryl oxidase (IPR017905) BDGP expression data - Patterns of gene expression in Drosophila embryogenesis • RE13652
Linkouts
	BioGRID - A database of protein and genetic interactions • 59286 DroID - A comprehensive database of gene and protein interactions. • FBgn0031068 DRSC - Results from RNAi screens. • FBgn0031068 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0031068 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG12534-RA FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0031068 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 32991 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 32991 modMine - Data generated by the modENCODE project. • FBgn0031068
Synonyms & Secondary IDs ( 5 )
Reported As
Symbol Synonym	alr (Sustar et al., 2008, McClure et al., 2008) Alr (Guest et al., 2011) CG12534 (Sustar et al., 2008, Weake et al., 2008, Keleman et al., 2009.8.5, Japanese National Institute of Genetics, 2012.5.21)
Name Synonym	augmenter of liver regeneration (Sustar et al., 2008, McClure et al., 2008) Augmenter of liver regeneration   CG12534
Secondary FlyBase IDs
References ( 18 )
Research paper	Guest et al., 2011, BMC Syst. Biol. 5(1): 65 A protein network-guided screen for cell cycle regulators in Drosophila. [FBrf0213913] McClure et al., 2008, Dev. Biol. 319(1): 68--77 Three genes control the timing, the site and the size of blastema formation in Drosophila. [FBrf0205073] Weake et al., 2008, EMBO J. 27(2): 394--405 SAGA-mediated H2B deubiquitination controls the development of neuronal connectivity in the Drosophila visual system. [FBrf0204567] Klebes et al., 2005, Development 132(16): 3753--3765 Regulation of cellular plasticity in Drosophila imaginal disc cells by the Polycomb group, trithorax group and lama genes. [FBrf0187468]
Supplementary material	Graveley et al., 2011, Nature 471(7339): Supplementary Table 33. Fuzzy Cluster Members. [FBrf0213980] The modENCODE Consortium, 2010, Science 330(6012): DataS14: Gene co-expression clusters. [FBrf0213979] Dietzl et al., 2007, Nature 448(7150): Supplementary Table 1. [FBrf0202579] Giot et al., 2003, Science 302(5651): Tables S1 to S7. [FBrf0166452]
Personal communication to FlyBase	Keleman et al., 2009.8.5, RNAi-phiC31 construct and insertion data submitted by the Vienna Drosophila RNAi Center RNAi-phiC31 construct and insertion data submitted by the Vienna Drosophila RNAi Center [FBrf0208510] FlyBase Curators et al., 2004-, Gene Ontology annotation in FlyBase through association of InterPro records with GO terms. Gene Ontology annotation in FlyBase through association of InterPro records with GO terms. [FBrf0174215] Ryder, 2004.4.26, Exelixis CG deletion data. Exelixis CG deletion data. [FBrf0184335] Gene Disruption Project members, 2001-, (Computer file) (Computer file) [FBrf0132177] BDGP Project Members, 2000-, Berkeley Drosophila Genome Project. (Computer file) Berkeley Drosophila Genome Project. (Computer file) [FBrf0125078]
Abstract	Sustar et al., 2008, A. Dros. Res. Conf. 49: 90 Regeneration genes affect the position, time and amount of blastema formation. [FBrf0203738]
FlyBase analysis	FlyBase, 1992-, FlyBase curation. FlyBase curation. [FBrf0105495]
Stock list	Japanese National Institute of Genetics, 2012.5.21, RNAi stocks available from NIG-FLY. RNAi stocks available from NIG-FLY. [FBrf0218457]
Website	Fisher et al., 2012, BDGP insitu homepage BDGP insitu homepage [FBrf0219073]
Curated genome annotation	Evangelista, 1999.11, [Annotations performed at the Celera Jamboreee.] [Annotations performed at the Celera Jamboreee.] [FBrf0126663]