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Gene Dmel\Phm

General Information
Symbol	Dmel\Phm	Species	D. melanogaster
Name	Peptidylglycine-α-hydroxylating monooxygenase	Annotation symbol	CG3832
Feature type	protein_coding_gene	FlyBase ID	FBgn0019948
Gene Model Status	Current	Stock availability	5 publicly available
Also Known As	dPHM
Genomic Location
Chromosome (arm)	2R	Recombination map
Cytogenetic map	60A16-60A16	Sequence location	2R:19,872,750..19,875,990 [-]
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 Peptidylglycine-α-hydroxylating monooxygenase is referred to in FlyBase by the symbol Dmel\Phm (CG3832, FBgn0019948). It is a protein_coding_gene from Drosophila melanogaster. Based on sequence similarity, it is predicted to have molecular function: peptidylglycine monooxygenase activity. There is experimental evidence that it is involved in the biological process: memory; multicellular organism reproduction. 7 alleles are reported. The phenotypes of these alleles are annotated with: pupa; puparium. It has 2 annotated transcripts and 2 annotated polypeptides. Protein features are: Copper type II, ascorbate-dependent monooxygenase, N-terminal; Copper type II, ascorbate-dependent monooxygenase, histidine-cluster-2 conserved site; Copper type II, ascorbate-dependent monooxygenase-like, C-terminal; PHM/PNGase F domain; Peptidyl-glycine alpha-amidating monooxygenase. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of moderate expression. Peak expression observed during late larval stages, at stages throughout the pupal period, in adult male stages. Summary of FlyAtlas Anatomical Expression Data: Two or more Affy2 ProbeSets identify exons of this gene. This is a summary of the tissue expression peaks exhibited in at least one of these ProbeSets. Expression at high levels in the following post-embryonic organs or tissues: adult head, adult eye, larval/adult central nervous system, adult crop, larval/adult hindgut, adult heart, larval/adult fat body, larval/adult salivary gland, larval trachea, adult spermathecae, adult male accessory gland, adult carcass. Expression at moderate levels in the following post-embryonic organs or tissues: larval/adult midgut, larval/adult Malpighian tubules, adult ovary, adult testis, larval carcass. Gene sequence location is 2R:19872750..19875990.
User Contributed Data
	Beta version, feedback welcome
External Summaries
Recent Updates
Description	What does this section display? This section contains items that were added to this record for each release. It currently only tracks new links between this FlyBase report and other FlyBase data classes (e.g. genes, references, stocks) or controlled vocabulary terms (e.g. GO, anatomy terms). What does this section not display? This section does not currently display links that were removed or gene model changes.
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FB2013_03
FB2013_02
All updates	Click here to see a list of all updates to this record from FB2010_08 and on.
Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map Evidence for location 60A16-60A16   Limits computationally determined from genome sequence between P{EP}TalEP489&P{EP}CG3065EP316 and P{lacW}Phmk07623&P{lacW}tsrk05633
Experimentally Determined Cytological Location
Cytogenetic map Notes References 60A12-60A16     (Kolhekar, 1997.6.3) 60A12-60B1     (Kolhekar, 1996.11.4) 60B1-60B2   (determined by in situ hybridisation)   (Spradling et al., 1999) 60B1-60B2     (Beaton, 1997.12.27) 60A12-60A16   (determined by in situ hybridisation)   (Kolhekar et al., 1997)
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\Phm 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) Phm-RA FBtr0072203  NM_057877   1563   365 Phm-RB FBtr0072202  NM_166644   1458   365
Additional Transcript Data & Comments
Reported size (kB)	1.7 (northern blot) (Kolhekar et al., 1997)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kDa) Length (aa) Theoretical pI RefSeq ID GenBank protein Phm-PA   FBpp0072112   40.6   365   6.04     NP_477225   AAF47127 Phm-PB   FBpp0072111   40.6   365   6.04     NP_726394   AAF47128
Additional Polypeptide Data & Comments
Reported size (kDa)	365 (aa); 35 (kD observed) (Kolhekar et al., 1997)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Copper type II, ascorbate-dependent monooxygenase, N-terminal (IPR000323) Peptidyl-glycine alpha-amidating monooxygenase (IPR000720) PHM/PNGase F domain (IPR008977) Copper type II, ascorbate-dependent monooxygenase, histidine-cluster-2 conserved site (IPR014783) Copper type II, ascorbate-dependent monooxygenase-like, C-terminal (IPR014784)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AE013599 AAF47127   AE013599 AAF47128   AC004642   AF006663 AAB61676   AI061858   AI108301   AI109030   AI109416   AI110169   AI113614   AI134708   AI258562   AI387807   AI388553   AI389300   AI389677   AI405461   AI517741   AI532776   AI541798   AQ025840   AW940454   AY069103 AAL39248   BF492661   BF492662   BF501910   BG636146   BI240365   BI364738   BI483815   BI568279   BI568724   BI587624   BI605907   BI605955   BI612456   BI615217   BI619053   BI625091   BI625403   BI628614   BI630483   BI633046   BI633474   BI636805   BI637190   BI639337   BI639801   BI640195   BI640245   BI641879   CA804272   CO153281   CO190631   CO195601   CO284535   CO301774   CO307465   CO308823   CO308824   CO309133   CO313393   CO315908   CO320810   CO320812   CO326682   CO344014   EC077105   EC077740   EC078750   EC083971   EC085361   EC089326   EC090122   EC200000   EC202694   EC211623   EC223000   EC228996   EC234497   EC249442   EC249614   EC259060   EC259632   EC266335   ES689983   ES692082   EV596316   EV600145   GH942652   GH943809   GH944521   GH946906   GH947139   GH947600   GH951401   GH951547   GH952110   GH953824   GH954337   GH954692   GH955054   GH955134   GH955612   GH955910   GH956505   GH957507   GH957688   GH957779   GH958148   GH959457   GH962151   GH964047   GH964312   GH965356   GH965528   GH965695   GH967064   GH967547   GH968271   GH969480   GH969565   GH971071   GH973504   GH973630   GH974605   GH975170   GH976959   GH977305   GH977670   GH977683   GH979277   GH979568   GH979786   GH981859   GH982055   GH983028   GH983479   U77425   U77426 AAB52566   U77427 AAB52567   U77428 AAB52568   U77429 AAB52569   U77430 AAB52570   U77431 AAB52571   U77432 AAB52572   U77433
UniProtKB/Swiss-Prot	O01404
UniProtKB/TrEMBL	E2QCL8
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 regulatory region FBsf0000436526 2R:19,875,348..19,875,790 evidence=Reporter construct (in vivo) (Markstein et al., 2004, Halfon, 2012.6.19)
External Data
Linkouts
Crossreferences
Expression Data
Transcript Expression
expression microarray Stage Tissue/Position (including subcellular localization) Reference adult stage   l-LNv neuron   (Park et al., 2011) in situ Stage Tissue/Position (including subcellular localization) Reference embryonic stage 1 -- 3   organism   (Fisher et al., 2012) Comment:maternally deposited embryonic stage 4 -- 6   organism | faint & ubiquitous   (Fisher et al., 2012) embryonic stage 5   mesoderm anlage   (Markstein et al., 2004) embryonic stage 7 -- 8   organism | faint & ubiquitous   (Fisher et al., 2012) embryonic stage 11 -- 12   organism | faint & ubiquitous   (Fisher et al., 2012) embryonic stage 13 -- 16   embryonic proventriculus   (Fisher et al., 2012) embryonic/larval salivary gland   (Fisher et al., 2012) embryonic/larval salivary gland body   (Fisher et al., 2012) embryonic stage 16 -- 17   embryonic/larval central nervous system   (Park et al., 2011)
Additional Descriptive Data
	Phm transcript is expressed at a moderate level in the CNS of late stage embryos. Phm transcript is also expressed in dimm-positive neurons in adults. (Park et al., 2011)
Marker for
Subcellular Localization
CV Term
Polypeptide Expression
immunolocalization Stage Tissue/Position (including subcellular localization) Reference larval stage   embryonic/larval endocrine system   (Kolhekar et al., 1997) embryonic/larval central nervous system   (Kolhekar et al., 1997) FMRFamide SE2 neuron   (Kolhekar et al., 1997) embryonic/larval digestive system   (Kolhekar et al., 1997) first instar larval stage   Tv neuron   (Allan et al., 2005) Tvb neuron   (Allan et al., 2005) neurosecretory neuron   (Allan et al., 2005) third instar larval stage   ventral nerve cord | lateral & restricted   (Hewes et al., 2006) embryonic/larval central nervous system | restricted   (Hewes et al., 2006) embryonic/larval corpus cardiacum | restricted   (Hewes et al., 2006) SP1 neuron   (Hewes et al., 2006) Tv neuron   (Hewes et al., 2006) Tvb neuron   (Hewes et al., 2006) adult stage   adult brain | restricted   (Hewes et al., 2006) neurosecretory neuron of adult brain | restricted   (Hewes et al., 2006)
Additional Descriptive Data
	Phm is expressed in a series of lateral abdominal neurons, and in some insulin-like producing cells (IPCs). (Hewes et al., 2006) Phm protein is detected throughout all levels of the larval CNS as well as in other tissues, including the endocrine glands and the gut. Staining is observed in the cell bodies and in the neuropil of the brain. Staining is also prevalent in secretory cells of the ring gland, salivary gland, and in diverse cells in all levels of the midgut. In the CNS, several strongly staining cells were identified as neuroendocrine neurons. Many Phm-positive neurons were shown to be peptidergic cells. (Kolhekar et al., 1997)
Marker for
	neurosecretory neuron
Subcellular Localization (GO Cellular Component)
CV term Evidence References
extracellular space inferred from direct assay (Findlay et al., 2008)
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: Two or more Affy2 ProbeSets identify exons of this gene. This is a summary of the tissue expression peaks exhibited in at least one of these ProbeSets. Expression at high levels in the following post-embryonic organs or tissues: adult head, adult eye, larval/adult central nervous system, adult crop, larval/adult hindgut, adult heart, larval/adult fat body, larval/adult salivary gland, larval trachea, adult spermathecae, adult male accessory gland, adult carcass. Expression at moderate levels in the following post-embryonic organs or tissues: larval/adult midgut, larval/adult Malpighian tubules, adult ovary, adult testis, larval carcass. [download data (TSV)] Guide to FlyAtlas expression level colors   No expression (0 - 9.999)   Low expression (10 - 99.999)   Moderate expression (100 - 499.999)   High level expression (500 - 999.999)   Very high expression (>999.999) 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 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    55 central nervous system, larvae L3    59 central nervous system, pupae P8    39 head, virgin 1-day female    70 head, virgin 4-day female    86 head, virgin 20-day female    113 head, mated 1-day female    77 head, mated 4-day female    81 head, mated 20-day female    102 head, mated 1-day male    114 head, mated 4-day male    131 head, mated 20-day male    151 salivary gland, larvae L3 wandering    64 salivary gland, white prepupae    126 digestive system, larvae L3 wandering    48 digestive system, 1-day adult    37 digestive system, 4-day adult    37 digestive system, 20-day adult    45 fat body, larvae L3 wandering    48 fat body, white prepupae    62 fat body, pupae P8    63 carcass, larvae L3 wandering    49 carcass, 1-day adult    48 carcass, 4-day adult    61 carcass, 20-day adult    85 ovary, virgin 4-day female    23 ovary, mated 4-day female    18 testis, mated 4-day male    56 accessory gland, mated 4-day male    91 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  (55) central nervous system, larvae L3  (59) central nervous system, pupae P8  (39) head, virgin 1-day female  (70) head, virgin 4-day female  (86) head, virgin 20-day female  (113) head, mated 1-day female  (77) head, mated 4-day female  (81) head, mated 20-day female  (102) head, mated 1-day male  (114) head, mated 4-day male  (131) head, mated 20-day male  (151) salivary gland, larvae L3 wandering  (64) salivary gland, white prepupae  (126) digestive system, larvae L3 wandering  (48) digestive system, 1-day adult  (37) digestive system, 4-day adult  (37) digestive system, 20-day adult  (45) fat body, larvae L3 wandering  (48) fat body, white prepupae  (62) fat body, pupae P8  (63) carcass, larvae L3 wandering  (49) carcass, 1-day adult  (48) carcass, 4-day adult  (61) carcass, 20-day adult  (85) ovary, virgin 4-day female    23 ovary, mated 4-day female    18 testis, mated 4-day male  (56) accessory gland, mated 4-day male  (91) Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    55 central nervous system, larvae L3    59 central nervous system, pupae P8    39 head, virgin 1-day female    70 head, virgin 4-day female    86 head, virgin 20-day female  (113) head, mated 1-day female    77 head, mated 4-day female    81 head, mated 20-day female  102 head, mated 1-day male  (114) head, mated 4-day male  (131) head, mated 20-day male  (151) salivary gland, larvae L3 wandering    64 salivary gland, white prepupae  (126) digestive system, larvae L3 wandering    48 digestive system, 1-day adult    37 digestive system, 4-day adult    37 digestive system, 20-day adult    45 fat body, larvae L3 wandering    48 fat body, white prepupae    62 fat body, pupae P8    63 carcass, larvae L3 wandering    49 carcass, 1-day adult    48 carcass, 4-day adult    61 carcass, 20-day adult    85 ovary, virgin 4-day female    23 ovary, mated 4-day female    18 testis, mated 4-day male    56 accessory gland, mated 4-day male    91 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    55 central nervous system, larvae L3    59 central nervous system, pupae P8    39 head, virgin 1-day female    70 head, virgin 4-day female    86 head, virgin 20-day female    113 head, mated 1-day female    77 head, mated 4-day female    81 head, mated 20-day female    102 head, mated 1-day male    114 head, mated 4-day male    131 head, mated 20-day male    151 salivary gland, larvae L3 wandering    64 salivary gland, white prepupae    126 digestive system, larvae L3 wandering    48 digestive system, 1-day adult    37 digestive system, 4-day adult    37 digestive system, 20-day adult    45 fat body, larvae L3 wandering    48 fat body, white prepupae    62 fat body, pupae P8    63 carcass, larvae L3 wandering    49 carcass, 1-day adult    48 carcass, 4-day adult    61 carcass, 20-day adult    85 ovary, virgin 4-day female    23 ovary, mated 4-day female    18 testis, mated 4-day male    56 accessory gland, mated 4-day male    91 Expression Level Scale  Extremely high  log, scaled to maximum expression level Tissue   Expression Level imaginal disc, larvae L3 wandering    55 central nervous system, larvae L3    59 central nervous system, pupae P8    39 head, virgin 1-day female    70 head, virgin 4-day female    86 head, virgin 20-day female    113 head, mated 1-day female    77 head, mated 4-day female    81 head, mated 20-day female    102 head, mated 1-day male    114 head, mated 4-day male    131 head, mated 20-day male    151 salivary gland, larvae L3 wandering    64 salivary gland, white prepupae    126 digestive system, larvae L3 wandering    48 digestive system, 1-day adult    37 digestive system, 4-day adult    37 digestive system, 20-day adult    45 fat body, larvae L3 wandering    48 fat body, white prepupae    62 fat body, pupae P8    63 carcass, larvae L3 wandering    49 carcass, 1-day adult    48 carcass, 4-day adult    61 carcass, 20-day adult    85 ovary, virgin 4-day female    23 ovary, mated 4-day female    18 testis, mated 4-day male    56 accessory gland, mated 4-day male    91 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  (55) central nervous system, larvae L3  (59) central nervous system, pupae P8  (39) head, virgin 1-day female  (70) head, virgin 4-day female  (86) head, virgin 20-day female  (113) head, mated 1-day female  (77) head, mated 4-day female  (81) head, mated 20-day female  (102) head, mated 1-day male  (114) head, mated 4-day male  (131) head, mated 20-day male  (151) salivary gland, larvae L3 wandering  (64) salivary gland, white prepupae  (126) digestive system, larvae L3 wandering  (48) digestive system, 1-day adult  (37) digestive system, 4-day adult  (37) digestive system, 20-day adult  (45) fat body, larvae L3 wandering  (48) fat body, white prepupae  (62) fat body, pupae P8  (63) carcass, larvae L3 wandering  (49) carcass, 1-day adult  (48) carcass, 4-day adult  (61) carcass, 20-day adult  (85) ovary, virgin 4-day female    23 ovary, mated 4-day female    18 testis, mated 4-day male  (56) accessory gland, mated 4-day male  (91) Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    55 central nervous system, larvae L3    59 central nervous system, pupae P8    39 head, virgin 1-day female    70 head, virgin 4-day female    86 head, virgin 20-day female  113 head, mated 1-day female    77 head, mated 4-day female    81 head, mated 20-day female  102 head, mated 1-day male  114 head, mated 4-day male  131 head, mated 20-day male  (151) salivary gland, larvae L3 wandering    64 salivary gland, white prepupae  126 digestive system, larvae L3 wandering    48 digestive system, 1-day adult    37 digestive system, 4-day adult    37 digestive system, 20-day adult    45 fat body, larvae L3 wandering    48 fat body, white prepupae    62 fat body, pupae P8    63 carcass, larvae L3 wandering    49 carcass, 1-day adult    48 carcass, 4-day adult    61 carcass, 20-day adult    85 ovary, virgin 4-day female    23 ovary, mated 4-day female    18 testis, mated 4-day male    56 accessory gland, mated 4-day male    91 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    55 central nervous system, larvae L3    59 central nervous system, pupae P8    39 head, virgin 1-day female    70 head, virgin 4-day female    86 head, virgin 20-day female    113 head, mated 1-day female    77 head, mated 4-day female    81 head, mated 20-day female    102 head, mated 1-day male    114 head, mated 4-day male    131 head, mated 20-day male    151 salivary gland, larvae L3 wandering    64 salivary gland, white prepupae    126 digestive system, larvae L3 wandering    48 digestive system, 1-day adult    37 digestive system, 4-day adult    37 digestive system, 20-day adult    45 fat body, larvae L3 wandering    48 fat body, white prepupae    62 fat body, pupae P8    63 carcass, larvae L3 wandering    49 carcass, 1-day adult    48 carcass, 4-day adult    61 carcass, 20-day adult    85 ovary, virgin 4-day female    23 ovary, mated 4-day female    18 testis, mated 4-day male    56 accessory gland, mated 4-day male    91 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 high expression to a trough of moderate expression. Peak expression observed during late larval stages, at stages throughout the pupal period, in adult male 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    25 embryo 02-04hr    13 embryo 04-06hr    18 embryo 06-08hr    36 embryo 08-10hr    45 embryo 10-12hr    46 embryo 12-14hr    42 embryo 14-16hr    28 embryo 16-18hr    33 embryo 18-20hr    44 embryo 20-22hr    42 embryo 22-24hr    49 larva L1    43 larva L2    39 larva L3 12hr old    40 larva L3 puffstage 1-2    56 larva L3 puffstage 3-6    70 larva L3 puffstage 7-9    79 white prepupae new    78 white prepupae 12hr    102 white prepupae 24hr    83 pupae 2d postWPP    75 pupae 3d postWPP    78 pupae 4d postWPP    53 adult male 01day    72 adult male 05day    84 adult male 30day    80 adult female 01day    39 adult female 05day    41 adult female 30day    42 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    25 embryo 02-04hr    13 embryo 04-06hr    18 embryo 06-08hr  (36) embryo 08-10hr  (45) embryo 10-12hr  (46) embryo 12-14hr  (42) embryo 14-16hr  (28) embryo 16-18hr  (33) embryo 18-20hr  (44) embryo 20-22hr  (42) embryo 22-24hr  (49) larva L1  (43) larva L2  (39) larva L3 12hr old  (40) larva L3 puffstage 1-2  (56) larva L3 puffstage 3-6  (70) larva L3 puffstage 7-9  (79) white prepupae new  (78) white prepupae 12hr  (102) white prepupae 24hr  (83) pupae 2d postWPP  (75) pupae 3d postWPP  (78) pupae 4d postWPP  (53) adult male 01day  (72) adult male 05day  (84) adult male 30day  (80) adult female 01day  (39) adult female 05day  (41) adult female 30day  (42) Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    25 embryo 02-04hr    13 embryo 04-06hr    18 embryo 06-08hr    36 embryo 08-10hr    45 embryo 10-12hr    46 embryo 12-14hr    42 embryo 14-16hr    28 embryo 16-18hr    33 embryo 18-20hr    44 embryo 20-22hr    42 embryo 22-24hr    49 larva L1    43 larva L2    39 larva L3 12hr old    40 larva L3 puffstage 1-2    56 larva L3 puffstage 3-6    70 larva L3 puffstage 7-9    79 white prepupae new    78 white prepupae 12hr  102 white prepupae 24hr    83 pupae 2d postWPP    75 pupae 3d postWPP    78 pupae 4d postWPP    53 adult male 01day    72 adult male 05day    84 adult male 30day    80 adult female 01day    39 adult female 05day    41 adult female 30day    42 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Extremely high expression Developmental Stage   Expression Level embryo 00-02hr    25 embryo 02-04hr    13 embryo 04-06hr    18 embryo 06-08hr    36 embryo 08-10hr    45 embryo 10-12hr    46 embryo 12-14hr    42 embryo 14-16hr    28 embryo 16-18hr    33 embryo 18-20hr    44 embryo 20-22hr    42 embryo 22-24hr    49 larva L1    43 larva L2    39 larva L3 12hr old    40 larva L3 puffstage 1-2    56 larva L3 puffstage 3-6    70 larva L3 puffstage 7-9    79 white prepupae new    78 white prepupae 12hr    102 white prepupae 24hr    83 pupae 2d postWPP    75 pupae 3d postWPP    78 pupae 4d postWPP    53 adult male 01day    72 adult male 05day    84 adult male 30day    80 adult female 01day    39 adult female 05day    41 adult female 30day    42 Expression Level Scale  Extremely high  log, scaled to maximum expression level Developmental Stage   Expression Level embryo 00-02hr    25 embryo 02-04hr    13 embryo 04-06hr    18 embryo 06-08hr    36 embryo 08-10hr    45 embryo 10-12hr    46 embryo 12-14hr    42 embryo 14-16hr    28 embryo 16-18hr    33 embryo 18-20hr    44 embryo 20-22hr    42 embryo 22-24hr    49 larva L1    43 larva L2    39 larva L3 12hr old    40 larva L3 puffstage 1-2    56 larva L3 puffstage 3-6    70 larva L3 puffstage 7-9    79 white prepupae new    78 white prepupae 12hr    102 white prepupae 24hr    83 pupae 2d postWPP    75 pupae 3d postWPP    78 pupae 4d postWPP    53 adult male 01day    72 adult male 05day    84 adult male 30day    80 adult female 01day    39 adult female 05day    41 adult female 30day    42 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    25 embryo 02-04hr    13 embryo 04-06hr    18 embryo 06-08hr  (36) embryo 08-10hr  (45) embryo 10-12hr  (46) embryo 12-14hr  (42) embryo 14-16hr  28 embryo 16-18hr  (33) embryo 18-20hr  (44) embryo 20-22hr  (42) embryo 22-24hr  (49) larva L1  (43) larva L2  (39) larva L3 12hr old  (40) larva L3 puffstage 1-2  (56) larva L3 puffstage 3-6  (70) larva L3 puffstage 7-9  (79) white prepupae new  (78) white prepupae 12hr  (102) white prepupae 24hr  (83) pupae 2d postWPP  (75) pupae 3d postWPP  (78) pupae 4d postWPP  (53) adult male 01day  (72) adult male 05day  (84) adult male 30day  (80) adult female 01day  (39) adult female 05day  (41) adult female 30day  (42) Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    25 embryo 02-04hr    13 embryo 04-06hr    18 embryo 06-08hr    36 embryo 08-10hr    45 embryo 10-12hr    46 embryo 12-14hr    42 embryo 14-16hr    28 embryo 16-18hr    33 embryo 18-20hr    44 embryo 20-22hr    42 embryo 22-24hr    49 larva L1    43 larva L2    39 larva L3 12hr old    40 larva L3 puffstage 1-2    56 larva L3 puffstage 3-6    70 larva L3 puffstage 7-9    79 white prepupae new    78 white prepupae 12hr  102 white prepupae 24hr    83 pupae 2d postWPP    75 pupae 3d postWPP    78 pupae 4d postWPP    53 adult male 01day    72 adult male 05day    84 adult male 30day    80 adult female 01day    39 adult female 05day    41 adult female 30day    42 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Extremely high expression Developmental Stage   Expression Level embryo 00-02hr    25 embryo 02-04hr    13 embryo 04-06hr    18 embryo 06-08hr    36 embryo 08-10hr    45 embryo 10-12hr    46 embryo 12-14hr    42 embryo 14-16hr    28 embryo 16-18hr    33 embryo 18-20hr    44 embryo 20-22hr    42 embryo 22-24hr    49 larva L1    43 larva L2    39 larva L3 12hr old    40 larva L3 puffstage 1-2    56 larva L3 puffstage 3-6    70 larva L3 puffstage 7-9    79 white prepupae new    78 white prepupae 12hr    102 white prepupae 24hr    83 pupae 2d postWPP    75 pupae 3d postWPP    78 pupae 4d postWPP    53 adult male 01day    72 adult male 05day    84 adult male 30day    80 adult female 01day    39 adult female 05day    41 adult female 30day    42 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+    147 Schneider line 2 Sg4    86 embryonic 1182-4H    130 embryonic GM2    69 embryonic Kc167    58 embryonic S1    222 embryonic S3    71 leg disc CME L1    157 wing disc CME-W2    109 wing disc ML-DmD8    72 wing disc ML-DmD9    162 wing disc ML-DmD16-c3    107 wing disc ML-DmD21    55 wing disc ML-DmD32    103 haltere disc ML-DmD17-c3    119 eye-antennal disc ML-DmD11    110 antennal disc ML-DmD20-c5    82 mixed discs ML-DmD4-c1    77 CNS ML-DmBG1-c1    146 CNS ML-DmBG2-c2    118 tumorous blood cells mbn2    94 ovary fGS/OSS    47 ovary OSC    49 ovary OSS    21 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+  (147) Schneider line 2 Sg4  (86) embryonic 1182-4H  (130) embryonic GM2  (69) embryonic Kc167  (58) embryonic S1  (222) embryonic S3  (71) leg disc CME L1  (157) wing disc CME-W2  (109) wing disc ML-DmD8  (72) wing disc ML-DmD9  (162) wing disc ML-DmD16-c3  (107) wing disc ML-DmD21  (55) wing disc ML-DmD32  (103) haltere disc ML-DmD17-c3  (119) eye-antennal disc ML-DmD11  (110) antennal disc ML-DmD20-c5  (82) mixed discs ML-DmD4-c1  (77) CNS ML-DmBG1-c1  (146) CNS ML-DmBG2-c2  (118) tumorous blood cells mbn2  (94) ovary fGS/OSS  (47) ovary OSC  (49) ovary OSS    21 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+  (147) Schneider line 2 Sg4    86 embryonic 1182-4H  (130) embryonic GM2    69 embryonic Kc167    58 embryonic S1  (222) embryonic S3    71 leg disc CME L1  (157) wing disc CME-W2  (109) wing disc ML-DmD8    72 wing disc ML-DmD9  (162) wing disc ML-DmD16-c3  107 wing disc ML-DmD21    55 wing disc ML-DmD32  103 haltere disc ML-DmD17-c3  (119) eye-antennal disc ML-DmD11  (110) antennal disc ML-DmD20-c5    82 mixed discs ML-DmD4-c1    77 CNS ML-DmBG1-c1  (146) CNS ML-DmBG2-c2  (118) tumorous blood cells mbn2    94 ovary fGS/OSS    47 ovary OSC    49 ovary OSS    21 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+    147 Schneider line 2 Sg4    86 embryonic 1182-4H    130 embryonic GM2    69 embryonic Kc167    58 embryonic S1    222 embryonic S3    71 leg disc CME L1    157 wing disc CME-W2    109 wing disc ML-DmD8    72 wing disc ML-DmD9    162 wing disc ML-DmD16-c3    107 wing disc ML-DmD21    55 wing disc ML-DmD32    103 haltere disc ML-DmD17-c3    119 eye-antennal disc ML-DmD11    110 antennal disc ML-DmD20-c5    82 mixed discs ML-DmD4-c1    77 CNS ML-DmBG1-c1    146 CNS ML-DmBG2-c2    118 tumorous blood cells mbn2    94 ovary fGS/OSS    47 ovary OSC    49 ovary OSS    21 Expression Level Scale  Extremely high  log, scaled to maximum expression level Cell Line   Expression Level Schneider line 2 S2R+    147 Schneider line 2 Sg4    86 embryonic 1182-4H    130 embryonic GM2    69 embryonic Kc167    58 embryonic S1    222 embryonic S3    71 leg disc CME L1    157 wing disc CME-W2    109 wing disc ML-DmD8    72 wing disc ML-DmD9    162 wing disc ML-DmD16-c3    107 wing disc ML-DmD21    55 wing disc ML-DmD32    103 haltere disc ML-DmD17-c3    119 eye-antennal disc ML-DmD11    110 antennal disc ML-DmD20-c5    82 mixed discs ML-DmD4-c1    77 CNS ML-DmBG1-c1    146 CNS ML-DmBG2-c2    118 tumorous blood cells mbn2    94 ovary fGS/OSS    47 ovary OSC    49 ovary OSS    21 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+  (147) Schneider line 2 Sg4  (86) embryonic 1182-4H  (130) embryonic GM2  (69) embryonic Kc167  (58) embryonic S1  (222) embryonic S3  (71) leg disc CME L1  (157) wing disc CME-W2  (109) wing disc ML-DmD8  (72) wing disc ML-DmD9  (162) wing disc ML-DmD16-c3  (107) wing disc ML-DmD21  (55) wing disc ML-DmD32  (103) haltere disc ML-DmD17-c3  (119) eye-antennal disc ML-DmD11  (110) antennal disc ML-DmD20-c5  (82) mixed discs ML-DmD4-c1  (77) CNS ML-DmBG1-c1  (146) CNS ML-DmBG2-c2  (118) tumorous blood cells mbn2  (94) ovary fGS/OSS  (47) ovary OSC  (49) ovary OSS    21 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+  (147) Schneider line 2 Sg4    86 embryonic 1182-4H  130 embryonic GM2    69 embryonic Kc167    58 embryonic S1  (222) embryonic S3    71 leg disc CME L1  (157) wing disc CME-W2  109 wing disc ML-DmD8    72 wing disc ML-DmD9  (162) wing disc ML-DmD16-c3  107 wing disc ML-DmD21    55 wing disc ML-DmD32  103 haltere disc ML-DmD17-c3  119 eye-antennal disc ML-DmD11  110 antennal disc ML-DmD20-c5    82 mixed discs ML-DmD4-c1    77 CNS ML-DmBG1-c1  (146) CNS ML-DmBG2-c2  118 tumorous blood cells mbn2    94 ovary fGS/OSS    47 ovary OSC    49 ovary OSS    21 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+    147 Schneider line 2 Sg4    86 embryonic 1182-4H    130 embryonic GM2    69 embryonic Kc167    58 embryonic S1    222 embryonic S3    71 leg disc CME L1    157 wing disc CME-W2    109 wing disc ML-DmD8    72 wing disc ML-DmD9    162 wing disc ML-DmD16-c3    107 wing disc ML-DmD21    55 wing disc ML-DmD32    103 haltere disc ML-DmD17-c3    119 eye-antennal disc ML-DmD11    110 antennal disc ML-DmD20-c5    82 mixed discs ML-DmD4-c1    77 CNS ML-DmBG1-c1    146 CNS ML-DmBG2-c2    118 tumorous blood cells mbn2    94 ovary fGS/OSS    47 ovary OSC    49 ovary OSS    21 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    25 cold shock, 4-day adult    21 heat shock, 4-day adult    31 Cadmium 50 mM 6 hrs, larvae L3    30 Cadmium 50 mM 12 hrs, larvae L3    46 Cadmium 50 mM 48 hrs, 4-day adult    34 Cadmium 100 mM 48 hrs, 4-day adult    28 Copper 0.5 mM 12 hrs, larvae L3    18 Copper 15 mM 48 hrs, 4-day adult    19 Zinc 5 mM 12 hrs, larvae L3    24 Zinc 4.5 mM 48 hrs, 4-day adult    39 Ethanol 2.5% 3 hrs, larvae L3    39 Ethanol 5% 3 hrs, larvae L3    29 Ethanol 10% 3 hrs, larvae L3    32 Caffeine 1.5 mg/ml 4 hrs, larvae L3    34 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    32 Caffeine 25 mg/ml 48 hrs, 4-day adult    21 Paraquat 5 mM 48 hrs, 4-day adult    51 Paraquat 10 mM 48 hrs, 4-day adult    54 Rotenone 2 μg 12 hrs, larvae L3    30 Rotenone 8 μg 12 hrs, larvae L3    29 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  Linear, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    25 cold shock, 4-day adult    21 heat shock, 4-day adult  (31) Cadmium 50 mM 6 hrs, larvae L3  (30) Cadmium 50 mM 12 hrs, larvae L3  (46) Cadmium 50 mM 48 hrs, 4-day adult  (34) Cadmium 100 mM 48 hrs, 4-day adult  (28) Copper 0.5 mM 12 hrs, larvae L3    18 Copper 15 mM 48 hrs, 4-day adult    19 Zinc 5 mM 12 hrs, larvae L3    24 Zinc 4.5 mM 48 hrs, 4-day adult  (39) Ethanol 2.5% 3 hrs, larvae L3  (39) Ethanol 5% 3 hrs, larvae L3  (29) Ethanol 10% 3 hrs, larvae L3  (32) Caffeine 1.5 mg/ml 4 hrs, larvae L3  (34) Caffeine 2.5 mg/ml 48 hrs, 4-day adult  (32) Caffeine 25 mg/ml 48 hrs, 4-day adult    21 Paraquat 5 mM 48 hrs, 4-day adult  (51) Paraquat 10 mM 48 hrs, 4-day adult  (54) Rotenone 2 μg 12 hrs, larvae L3  (30) Rotenone 8 μg 12 hrs, larvae L3  (29) Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    25 cold shock, 4-day adult    21 heat shock, 4-day adult    31 Cadmium 50 mM 6 hrs, larvae L3    30 Cadmium 50 mM 12 hrs, larvae L3    46 Cadmium 50 mM 48 hrs, 4-day adult    34 Cadmium 100 mM 48 hrs, 4-day adult    28 Copper 0.5 mM 12 hrs, larvae L3    18 Copper 15 mM 48 hrs, 4-day adult    19 Zinc 5 mM 12 hrs, larvae L3    24 Zinc 4.5 mM 48 hrs, 4-day adult    39 Ethanol 2.5% 3 hrs, larvae L3    39 Ethanol 5% 3 hrs, larvae L3    29 Ethanol 10% 3 hrs, larvae L3    32 Caffeine 1.5 mg/ml 4 hrs, larvae L3    34 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    32 Caffeine 25 mg/ml 48 hrs, 4-day adult    21 Paraquat 5 mM 48 hrs, 4-day adult    51 Paraquat 10 mM 48 hrs, 4-day adult    54 Rotenone 2 μg 12 hrs, larvae L3    30 Rotenone 8 μg 12 hrs, larvae L3    29 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    25 cold shock, 4-day adult    21 heat shock, 4-day adult    31 Cadmium 50 mM 6 hrs, larvae L3    30 Cadmium 50 mM 12 hrs, larvae L3    46 Cadmium 50 mM 48 hrs, 4-day adult    34 Cadmium 100 mM 48 hrs, 4-day adult    28 Copper 0.5 mM 12 hrs, larvae L3    18 Copper 15 mM 48 hrs, 4-day adult    19 Zinc 5 mM 12 hrs, larvae L3    24 Zinc 4.5 mM 48 hrs, 4-day adult    39 Ethanol 2.5% 3 hrs, larvae L3    39 Ethanol 5% 3 hrs, larvae L3    29 Ethanol 10% 3 hrs, larvae L3    32 Caffeine 1.5 mg/ml 4 hrs, larvae L3    34 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    32 Caffeine 25 mg/ml 48 hrs, 4-day adult    21 Paraquat 5 mM 48 hrs, 4-day adult    51 Paraquat 10 mM 48 hrs, 4-day adult    54 Rotenone 2 μg 12 hrs, larvae L3    30 Rotenone 8 μg 12 hrs, larvae L3    29 Expression Level Scale  Extremely high  log, scaled to maximum expression level Treatment   Expression Level extended cold, 4-day adult    25 cold shock, 4-day adult    21 heat shock, 4-day adult    31 Cadmium 50 mM 6 hrs, larvae L3    30 Cadmium 50 mM 12 hrs, larvae L3    46 Cadmium 50 mM 48 hrs, 4-day adult    34 Cadmium 100 mM 48 hrs, 4-day adult    28 Copper 0.5 mM 12 hrs, larvae L3    18 Copper 15 mM 48 hrs, 4-day adult    19 Zinc 5 mM 12 hrs, larvae L3    24 Zinc 4.5 mM 48 hrs, 4-day adult    39 Ethanol 2.5% 3 hrs, larvae L3    39 Ethanol 5% 3 hrs, larvae L3    29 Ethanol 10% 3 hrs, larvae L3    32 Caffeine 1.5 mg/ml 4 hrs, larvae L3    34 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    32 Caffeine 25 mg/ml 48 hrs, 4-day adult    21 Paraquat 5 mM 48 hrs, 4-day adult    51 Paraquat 10 mM 48 hrs, 4-day adult    54 Rotenone 2 μg 12 hrs, larvae L3    30 Rotenone 8 μg 12 hrs, larvae L3    29 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  log, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    25 cold shock, 4-day adult    21 heat shock, 4-day adult  31 Cadmium 50 mM 6 hrs, larvae L3  30 Cadmium 50 mM 12 hrs, larvae L3  (46) Cadmium 50 mM 48 hrs, 4-day adult  (34) Cadmium 100 mM 48 hrs, 4-day adult  28 Copper 0.5 mM 12 hrs, larvae L3    18 Copper 15 mM 48 hrs, 4-day adult    19 Zinc 5 mM 12 hrs, larvae L3    24 Zinc 4.5 mM 48 hrs, 4-day adult  (39) Ethanol 2.5% 3 hrs, larvae L3  (39) Ethanol 5% 3 hrs, larvae L3  29 Ethanol 10% 3 hrs, larvae L3  32 Caffeine 1.5 mg/ml 4 hrs, larvae L3  (34) Caffeine 2.5 mg/ml 48 hrs, 4-day adult  32 Caffeine 25 mg/ml 48 hrs, 4-day adult    21 Paraquat 5 mM 48 hrs, 4-day adult  (51) Paraquat 10 mM 48 hrs, 4-day adult  (54) Rotenone 2 μg 12 hrs, larvae L3  30 Rotenone 8 μg 12 hrs, larvae L3  29 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    25 cold shock, 4-day adult    21 heat shock, 4-day adult    31 Cadmium 50 mM 6 hrs, larvae L3    30 Cadmium 50 mM 12 hrs, larvae L3    46 Cadmium 50 mM 48 hrs, 4-day adult    34 Cadmium 100 mM 48 hrs, 4-day adult    28 Copper 0.5 mM 12 hrs, larvae L3    18 Copper 15 mM 48 hrs, 4-day adult    19 Zinc 5 mM 12 hrs, larvae L3    24 Zinc 4.5 mM 48 hrs, 4-day adult    39 Ethanol 2.5% 3 hrs, larvae L3    39 Ethanol 5% 3 hrs, larvae L3    29 Ethanol 10% 3 hrs, larvae L3    32 Caffeine 1.5 mg/ml 4 hrs, larvae L3    34 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    32 Caffeine 25 mg/ml 48 hrs, 4-day adult    21 Paraquat 5 mM 48 hrs, 4-day adult    51 Paraquat 10 mM 48 hrs, 4-day adult    54 Rotenone 2 μg 12 hrs, larvae L3    30 Rotenone 8 μg 12 hrs, larvae L3    29 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    25 cold shock, 4-day adult    21 heat shock, 4-day adult    31 Cadmium 50 mM 6 hrs, larvae L3    30 Cadmium 50 mM 12 hrs, larvae L3    46 Cadmium 50 mM 48 hrs, 4-day adult    34 Cadmium 100 mM 48 hrs, 4-day adult    28 Copper 0.5 mM 12 hrs, larvae L3    18 Copper 15 mM 48 hrs, 4-day adult    19 Zinc 5 mM 12 hrs, larvae L3    24 Zinc 4.5 mM 48 hrs, 4-day adult    39 Ethanol 2.5% 3 hrs, larvae L3    39 Ethanol 5% 3 hrs, larvae L3    29 Ethanol 10% 3 hrs, larvae L3    32 Caffeine 1.5 mg/ml 4 hrs, larvae L3    34 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    32 Caffeine 25 mg/ml 48 hrs, 4-day adult    21 Paraquat 5 mM 48 hrs, 4-day adult    51 Paraquat 10 mM 48 hrs, 4-day adult    54 Rotenone 2 μg 12 hrs, larvae L3    30 Rotenone 8 μg 12 hrs, larvae L3    29 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_25 mE1_20_mRNA_expression_cluster_15
External Data & Images
Linkouts	BDGP expression data • GH12243 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0019948 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG3832-RA;CG3832-RB FlyExpress - Embryonic expression images (BDGP data) • Show all FlyExpress processed images for Phm Stages(s) 1-3 Stages(s) 7-8 Stages(s) 11-12 Stages(s) 13-16
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele lethal | embryonic stage | partially | recessive Phmk07623 lethal | larval stage | partially | recessive Phmk07623 lethal | recessive Phmk07623 PhmP(29) viable PhmR2 Other Phenotypes Allele memory defective, with Scer\GAL4Mef2.247 PhmGD506 memory defective, with Scer\GAL4nemy-NP0335 PhmGD506 memory defective, with Scer\GAL4OK66 PhmGD506 Phenotype manifest in Allele mouthpart | supernumerary Phmk07623 pupa, with PhmA5.hs PhmP(29) pupa, with PhmP(29) PhmA5.hs puparium, with PhmA5.hs PhmP(29) puparium, with PhmP(29) PhmA5.hs
Classical Alleles ( 3 )
For All Classical Alleles Show
Allele of Phm Class Mutagen Stocks Known lesion Phmk07623 hypomorphic allele - genetic evidence P-element activity 2 Yes PhmP(29) loss of function allele Delta2-3 0 Yes PhmR2 P-element activity 0 Yes
Alleles Carried on Transgenic Constructs ( 4 )
For All Alleles Carried on Transgenic Constructs Show
Allele of Phm Class Mutagen Stocks Known lesion PhmGD506 in vitro construct - RNAi in vitro construct - regulatory fusion 2 Yes PhmKK112513 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes PhmA5.hs in vitro construct - regulatory fusion 0 Yes PhmScer\UAS.cTA in vitro construct - regulatory fusion 0 Yes
Aneuploid Aberrations
Disrupted in	Df(2R)BSC601 (Christensen et al., 2008.9.3) Df(2R)BSC652 (Christensen et al., 2008.10.20) Df(2R)BSC770 (Christensen et al., 2009.2.28) Df(2R)bwVDe2LPxKR (Spradling et al., 1999, Beaton, 1997.12.27) Df(2R)Exel6080 (Ryder, 2004.4.26) Df(2R)Exel7182 (Ryder, 2004.4.26) Df(2R)Exel9024 (Ryder, 2004.4.26) Df(2R)G10-7-5 (Kolhekar et al., 1997) Df(2R)or-BR6 (Kolhekar et al., 1997) Df(2R)or-BR11 (Spradling et al., 1999, BDGP Project Members, 1994-1999, Kolhekar et al., 1997) Df(2R)PhmP(29) (Jiang et al., 2000)
Not disrupted in	Df(2R)bwVDe2LPxKR (BDGP Project Members, 1994-1999) Df(2R)bw-S46 (Spradling et al., 1999, BDGP Project Members, 1994-1999, Kolhekar et al., 1997) Df(2R)egl2 (Kolhekar et al., 1997) LS(2)ltG16 (Kolhekar et al., 1997) T(Y;2)A160 (Kolhekar et al., 1997)
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data reporter construct P{Phm-lacZ.485} No heat-shock construct P{hs-Phm.A5} NA UAS construct P{GD506} NA P{KK112513} NA P{UAS-Phm.T} NA
Insertions
	Type of insertions Name Expression data insertion of enhancer trap P{lacW}Phmk07623 No
Gene Ontology: Function, Process & Cellular Component ( 9 unique terms )
Terms Based on Experimental Evidence ( 3 terms )
Molecular Function ( 0 terms)
Biological Process
CV term Evidence References
memory inferred from mutant phenotype (Iliadi et al., 2008) multicellular organism reproduction inferred from expression pattern (Findlay et al., 2008)
Cellular Component
CV term Evidence References
extracellular space inferred from direct assay (Findlay et al., 2008)
Terms Based on Predictions or Assertions ( 6 terms )
Molecular Function
CV term Evidence References
copper ion binding inferred from electronic annotation with InterPro:IPR000323, InterPro:IPR000720 (FlyBase Curators et al., 2004-) peptidylglycine monooxygenase activity inferred from sequence or structural similarity with NCBI_gi:4505603 (FlyBase, 1992-) non-traceable author statement (Kolhekar, 1996.11.4)
Biological Process
CV term Evidence References
oxidation-reduction process inferred from electronic annotation with InterPro:IPR000323, InterPro:IPR000720, InterPro:IPR014783, InterPro:IPR014784 (FlyBase Curators et al., 2004-) peptide amidation non-traceable author statement (Kolhekar, 1996.11.4) peptide metabolic process inferred from electronic annotation with InterPro:IPR000720 (FlyBase Curators et al., 2004-)
Cellular Component
CV term Evidence References
membrane inferred from electronic annotation with InterPro:IPR000720 (FlyBase Curators et al., 2004-)
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 Phm allele Gene References
External Data
Linkouts	BioGRID - A database of protein and genetic interactions • 63409 DroID - A comprehensive database of gene and protein interactions. • FBgn0019948 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 37823 SignaLink - A protein-protein and protein-miRNA interaction database with multi-layered structure and multiple confidence scores. • O01404
Orthologs
OrthoDB Orthologs (35) - 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 EOG6614PZ Dipteran inclusive ortholog search EOG64MZ1P Insect inclusive ortholog search EOG6DBS9C Arthropod inclusive ortholog search EOG6MGQQ1 Metazoa inclusive ortholog search EOG6HMX42
Orthologs in Drosophila Species (EOG6614PZ)
Organism Common Name Gene AAA Syntenic Ortholog Multiple Dmel Genes in this Orthologous Group Drosophila melanogaster fruit fly  Dmel\Phm     Drosophila simulans   Dsim\GD24986 Y   Drosophila sechellia   Dsec\GM15482 Y   Drosophila erecta   Dere\GG19969 Y   Drosophila yakuba   Dyak\GE11501 Y   Drosophila ananassae   Dana\GF12045 Y   Drosophila pseudoobscura pseudoobscura   Dpse\GA17718 Y   Drosophila persimilis   Dper\GL10437 Y   Drosophila willistoni   Dwil\GK10749 Y   Drosophila virilis   Dvir\GJ21893 Y   Drosophila mojavensis   Dmoj\GI20691 Y   Drosophila grimshawi   Dgri\GH21703 Y
Orthologs in non-Drosophila Dipterans (EOG64MZ1P)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Aedes aegypti Yellow fever mosquito  Aaeg\AAEL001394   Anopheles gambiae Malaria mosquito  Agam\AGAP007420   Culex quinquefasciatus Southern house mosquito  Cqui\CPIJ000277
Orthologs in non-Dipteran Insects (EOG6DBS9C)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Apis mellifera Western honey bee  Amel\Phm   Nasonia vitripennis Parasitic wasp  Nvit\Nasvi2EG035257   Nasonia vitripennis Parasitic wasp  Nvit\Nasvi2EG027343   Acromyrmex echinatior Panamanian leafcutter ant  Aech\AECH20250   Atta cephalotes Leafcutter ant  Acep\ACEP11054   Camponotus floridanus Florida carpenter ant  Cflo\CFLO22030   Harpegnathos saltator Jerdons jumping ant  Hsal\HSAL19070   Linepithema humile Argentine ant  Lhum\LH23644   Pogonomyrmex barbatus Red harvester ant  Pbar\PB23989   Solenopsis invicta Red fire ant  Sinv\SINV19048   Acyrthosiphon pisum Pea aphid  Apim\ACYPI002608   Bombyx mori Silkmoth  Bmor\BGIBMGA002587   Pediculus humanus Human body louse  Phum\PHUM593160   Tribolium castaneum Red flour beetle  Tcas\GLEAN_07292
Orthologs in non-Insect Arthropods (EOG6MGQQ1)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Daphnia pulex Water flea  Dpux\JGI_V11_307337   Daphnia pulex Water flea  Dpux\JGI_V11_339668   Ixodes scapularis Deer tick  Isca\ISCW024679   Ixodes scapularis Deer tick  Isca\ISCW021825
Orthologs in non-Arthropod Metazoa (EOG6HMX42)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Caenorhabditis elegans Nematode  Cele\Y71G12B.4   Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_024080gn
Human Orthologs (0)
Gene OMIM HGNC
AAA Orthologs (11) based on analysis using Dmel annotation version 4.3
Organism Gene Drosophila simulans Dsim\GD24986 Drosophila sechellia Dsec\GM15482 Drosophila erecta Dere\GG19969 Drosophila yakuba Dyak\GE11501 Drosophila ananassae Dana\GF12045 Drosophila pseudoobscura pseudoobscura Dpse\GA17718 Drosophila persimilis Dper\GL10437 Drosophila willistoni Dwil\GK10749 Drosophila virilis Dvir\GJ21893 Drosophila mojavensis Dmoj\GI20691 Drosophila grimshawi Dgri\GH21703
Stocks & Reagents
Stocks Listed in FlyBase ( 5 )
Bloomington	12198 y1 w67c23; P{lacW}Phmk07623/CyO
Kyoto	111444 yd2 w1118 P{ey-FLP.N}2 P{GMR-lacZ.C(38.1)}TPN1; P{neoFRT}42D P{lacW}Phmk07623 /CyO y+
VDRC	v104028 P{KK112513}VIE-260B v51058 w1118; P{GD506}v51058 v52052 w1118; P{GD506}v52052
Genomic Clones ( 1 )
	BACR28M05 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 128 )
	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	GH12243
Other clones
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	AT17489 GH02987 GH07111 GH07527 GH08606 GH09669 GH09986 GH18467 GH19501 GH20439 GH20914 GH25467 GH28795 LP01784 RE37193 RE49911 RE66764 RH28348 RH39690 RH40408 RH41328 RH44793 RH50018 RH57107 RH59536 RH64919 RH65816 RH71920 RH71978 SD04387 SD06974 SD13745 SD18630 SD19134 SD21896 SD22481 SD23005 SD23056 SD25530 SD27014
Other clones	15779 53460 54541 55260 55560 58798 107070 121666 149118 156434 156649 160124 183035 183037 214443.74 214467.68 522241 AT01123 CK01.8C.D11 Dmel_neb_002460_0827_0976 Dmel_neb_014308_0893_1360 EC40644 EK048906 EK166243 EK182136 EK232512 EK254628 EK259444 EK259445 EK260402 EK262959 EK288313 EK288317 EN01637 EP04436 EP18523 ESG0112d.B21_D06 RP004041580 RP004050921 RP004052619 RP004058096 RP004077042 RP004089169 RP004093521 RP004102775 RP004104464 RP004109900 RP004116513 RP004123654 RP004148369 RP004161047 RP004165069 RP004207937 RP004209066 RP004212805 RP004215084 RP004215571 RP004225219 RP004226937 RP004240518 RP004246000 RP004247561 RP004249523 RP004252449 RP004263528 RP004283143 RP004283608 RP004297222 RP004305553 RP004348600 RP004359820 RP004378058 RP004380674 RP004418364 RP004439500 RP004440474 RP004457099 RP004466179 RP004472424 RP004489559 RP004491555 RP004492243 RP004505022 RP004508610 RP004527069 RP004558353 SD27572
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0019948 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 37823
Antibody Information
	polyclonal (Kolhekar et al., 1997)
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of	Source for identity of: Phm CG3832 (Wang, 1999.11)
Source for database merge of
Additional comments
Other Comments
	Phm is required for peptide α-amidating activity throughout the life of Drosophila. (Jiang et al., 2000)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_057877 NM_166644 RefSeq (Proteins) • NP_477225 NP_726394 DDBJ / EMBL / GenBank • AAB52566 AAB52567 AAB52568 AAB52569 AAB52570 AAB52571 AAB52572 AAB61676 AAF47127 AAF47128 AAL39248 AC004642 AF006663 AI134708 AQ025840 AW940454 AY069103 U77425 U77426 U77427 U77428 U77429 U77430 U77431 U77432 U77433 Entrez Gene - A searchable database of RefSeq genes. • 37823 UniProtKB/Swiss-Prot • O01404 UniProtKB/TrEMBL • E2QCL8
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • Copper type II, ascorbate-dependent monooxygenase, N-terminal (IPR000323) Peptidyl-glycine alpha-amidating monooxygenase (IPR000720) PHM/PNGase F domain (IPR008977) Copper type II, ascorbate-dependent monooxygenase, histidine-cluster-2 conserved site (IPR014783) Copper type II, ascorbate-dependent monooxygenase-like, C-terminal (IPR014784) BDGP expression data - Patterns of gene expression in Drosophila embryogenesis • GH12243
Linkouts
	BioGRID - A database of protein and genetic interactions • 63409 DroID - A comprehensive database of gene and protein interactions. • FBgn0019948 DRSC - Results from RNAi screens. • FBgn0019948 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0019948 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG3832-RA;CG3832-RB FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0019948 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 37823 Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution • /hjmuller/pephym1.htm InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 37823 modMine - Data generated by the modENCODE project. • FBgn0019948 SignaLink - A protein-protein and protein-miRNA interaction database with multi-layered structure and multiple confidence scores. • O01404
Synonyms & Secondary IDs ( 9 )
Reported As
Symbol Synonym	CG3832 (Kang et al., 2002, Keleman et al., 2009.8.5) dPHM (Kolhekar, 1997.6.3, Kolhekar, 1996.11.4, Kolhekar, 1996.11.4, Kolhekar, 1996.11.4, Kolhekar, 1996.11.4, Kolhekar, 1996.11.4, Kolhekar, 1996.11.4, Kolhekar, 1996.11.4, Kolhekar, 1996.11.4, Kolhekar, 1996.11.4, O'Brien and Taghert, 1998, Taghert et al., 1997, Kolhekar et al., 1997, Han et al., 2004) PHM (Park et al., 2005, Park et al., 2004, Hewes et al., 2003, Taghert et al., 2001, Jiang et al., 2000, Gu et al., 2006, Suster et al., 2003, Park et al., 2008, Iliadi et al., 2008, Shang et al., 2008, Han et al., 2004, Jansen et al., 2009) Phm (Zeitlinger et al., 2007, Hewes et al., 2006, Christensen et al., 2008.9.3, Markstein et al., 2004, Christensen et al., 2008.10.20, Park et al., 2011, Christensen et al., 2009.2.28, Telonis-Scott et al., 2009, Gauthier and Hewes, 2006)
Name Synonym	Peptidylglycine-alpha-hydroxylating monooxygenase (Suster et al., 2003) Peptidylglycine-α-hydroxylating monooxygenase (Kolhekar et al., 1997, Gauthier and Hewes, 2006) peptidylglycine α-hydroxylating monooxygenase (Park et al., 2008) peptidylglycine-α-hydroxylating monooxygenase (Jansen et al., 2009) Peptidyl gycine α hydroxylating monooxygenase (Kang et al., 2002)
Secondary FlyBase IDs
References ( 63 )
Generate a list of	All references relating to this gene ( 63 )
List References by type	Research paper  ( 27 ) Supplementary material  ( 5 ) Personal communication to FlyBase  ( 11 ) Abstract  ( 5 ) FlyBase analysis  ( 2 ) DNA/RNA sequence record  ( 10 ) Curated genome annotation  ( 2 ) Website  ( 1 )
Recent research papers ( 3 )
	Eade et al., 2012, PLoS Genet. 8(2): e1002501 Developmental transcriptional networks are required to maintain neuronal subtype identity in the mature nervous system. [FBrf0217668] Baycin-Hizal et al., 2011, J. Proteome Res. 10(6): 2777--2784 GlycoFly: A Database of Drosophila N-linked Glycoproteins Identified Using SPEG-MS Techniques. [FBrf0213834] Park et al., 2011, Curr. Biol. 21(18): 1515--1524 Molecular organization of Drosophila neuroendocrine cells by dimmed. [FBrf0216231] Show all research papers ...