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Gene Dmel\CG9548

General Information
Symbol	Dmel\CG9548	Species	D. melanogaster
Name		Annotation symbol	CG9548
Feature type	protein_coding_gene	FlyBase ID	FBgn0031822
Gene Model Status	Current	Stock availability	4 publicly available
Genomic Location
Chromosome (arm)	2L	Recombination map
Cytogenetic map	26D9-26D9	Sequence location	2L:6,490,155..6,490,843 [-]
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	This gene is referred to in FlyBase by the symbol Dmel\CG9548 (FBgn0031822). It is a protein_coding_gene from Drosophila melanogaster. Its molecular function is unknown. It is reported to be involved in the biological process: mRNA splicing, via spliceosome. 3 alleles are reported. No phenotypic data is available. It has one annotated transcript and one annotated polypeptide. Protein features are: PHF5-like. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of very high expression to a trough of moderate expression. Peak expression observed within 00-12 hour embryonic stages. Summary of FlyAtlas Anatomical Expression Data: Nearly all larval and adult tissues/organs expressed at moderate levels. Expression at high levels in the following post-embryonic organs or tissues: larval central nervous system, adult ovary. Expression at moderate levels in the following post-embryonic organs or tissues: adult head, adult eye, adult brain, adult crop, larval/adult midgut, larval/adult hindgut, larval/adult Malpighian tubules, adult heart, larval/adult fat body, larval salivary gland, larval trachea, adult spermathecae, adult male reproductive system, larval/adult carcass. Comments on Affy2 ProbeSet: ProbeSet 1634320_at completely aligns to an exonic region of the only FlyBase-annotated transcript isoform of CG9548. Gene sequence location is 2L:6490155..6490843.
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
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 26D9-26D9   Limits computationally determined from genome sequence between P{EP}Sec61αEP2180 and P{lacW}Ate1k10809
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\CG9548 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 5.50
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) CG9548-RA FBtr0079264  NM_135194   483   111
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 CG9548-PA   FBpp0078894   12.5   111   8.29     NP_609038   AAF52393
Additional Polypeptide Data & Comments
Reported size (kDa)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • PHF5-like (IPR005345)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AE014134 AAF52393   AY128489 AAM75082   BI570453   BP546741   BT044121   CO267066   CO303978   CO306621   CO312018   CO321796   CO335799   EC073504   EC210289   EC223281   EC225431   EC236936   EC248325   EC265939   EL879966   EL882203   EV577820   EV578197   EV599640   GH951889   GH983008
UniProtKB/Swiss-Prot	Q9VMC8
UniProtKB/TrEMBL
Mapped Features
Mapped Features have been reorganized, please see this article for details. Additional mapped features and mutations can be found on GBrowse or related reports. Type Symbol & Location Additional Notes References
External Data
Linkouts
Crossreferences
Expression Data
Transcript Expression
in situ Stage Tissue/Position (including subcellular localization) Reference embryonic stage 1 -- 3   organism   (Fisher et al., 2012) Comment:maternally deposited embryonic stage 4 -- 6   organism | ubiquitous   (Fisher et al., 2012) embryonic stage 7 -- 8   organism | ubiquitous   (Fisher et al., 2012) embryonic stage 9 -- 10   organism | ubiquitous   (Fisher et al., 2012) embryonic stage 11 -- 12   organism | ubiquitous   (Fisher et al., 2012) embryonic stage 13 -- 16   organism | ubiquitous   (Fisher et al., 2012)
Additional Descriptive Data
Marker for
Subcellular Localization
CV Term
Polypeptide Expression
Additional Descriptive Data
Marker for
Subcellular Localization (GO Cellular Component)
CV term Evidence References
catalytic step 2 spliceosome inferred from direct assay (Herold et al., 2009) precatalytic spliceosome inferred from direct assay (Herold et al., 2009)
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools
Reference	See Gelbart and Emmert, 2010.10.13 for analysis details and data files for all genes.
FlyAtlas Anatomy Microarray
FlyAtlas Anatomical Expression Data (FlyAtlas-RNA.adult) (FlyAtlas-RNA.larva)    Styles Linear Logarithmic Heatmap Back-to-back    Scales gene max expression Moderate expression bin max High level expression bin max Very high expression bin max Summary of FlyAtlas Anatomical Expression Data: Nearly all larval and adult tissues/organs expressed at moderate levels. Expression at high levels in the following post-embryonic organs or tissues: larval central nervous system, adult ovary. Expression at moderate levels in the following post-embryonic organs or tissues: adult head, adult eye, adult brain, adult crop, larval/adult midgut, larval/adult hindgut, larval/adult Malpighian tubules, adult heart, larval/adult fat body, larval salivary gland, larval trachea, adult spermathecae, adult male reproductive system, larval/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    615.8 Larval Midgut    128.9 Larval Hindgut    175.5 Larval Malpighian Tubules    170.1 Larval Fat Body    166 Larval Salivary Gland    334.4 Larval Trachea    274.025 Larval Carcass    245.525 Adult Head    107.5 Adult Eye    167.9 Adult Brain    108.4 Adult Thoracic-Abdominal Ganglion    98.9 Adult Crop    152.1 Adult Midgut    179.6 Adult Hindgut    133.5 Adult Malpighian Tubules    160.7 Adult Fat Body    121.4 Adult Salivary Gland    88 Adult Heart    134.3 Adult VirginFemale Spermatheca    111.8 Adult InseminatedFemale Spermatheca    107.4 Adult Ovary    610.5 Adult Testis    272.3 Adult Male Accessory Gland    135 Adult Carcass    112.1 Expression Level Scale  None   Low   Moderate   High  Linear, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System  (615.8) Larval Midgut    128.9 Larval Hindgut    175.5 Larval Malpighian Tubules    170.1 Larval Fat Body    166 Larval Salivary Gland    334.4 Larval Trachea    274.025 Larval Carcass    245.525 Adult Head    107.5 Adult Eye    167.9 Adult Brain    108.4 Adult Thoracic-Abdominal Ganglion    98.9 Adult Crop    152.1 Adult Midgut    179.6 Adult Hindgut    133.5 Adult Malpighian Tubules    160.7 Adult Fat Body    121.4 Adult Salivary Gland    88 Adult Heart    134.3 Adult VirginFemale Spermatheca    111.8 Adult InseminatedFemale Spermatheca    107.4 Adult Ovary  (610.5) Adult Testis    272.3 Adult Male Accessory Gland    135 Adult Carcass    112.1 Expression Level Scale  None   Low   Moderate   High  Linear, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    615.8 Larval Midgut    128.9 Larval Hindgut    175.5 Larval Malpighian Tubules    170.1 Larval Fat Body    166 Larval Salivary Gland    334.4 Larval Trachea    274.025 Larval Carcass    245.525 Adult Head    107.5 Adult Eye    167.9 Adult Brain    108.4 Adult Thoracic-Abdominal Ganglion    98.9 Adult Crop    152.1 Adult Midgut    179.6 Adult Hindgut    133.5 Adult Malpighian Tubules    160.7 Adult Fat Body    121.4 Adult Salivary Gland    88 Adult Heart    134.3 Adult VirginFemale Spermatheca    111.8 Adult InseminatedFemale Spermatheca    107.4 Adult Ovary    610.5 Adult Testis    272.3 Adult Male Accessory Gland    135 Adult Carcass    112.1 Expression Level Scale  None   Low   Moderate   High   Very high  Linear, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    615.8 Larval Midgut    128.9 Larval Hindgut    175.5 Larval Malpighian Tubules    170.1 Larval Fat Body    166 Larval Salivary Gland    334.4 Larval Trachea    274.025 Larval Carcass    245.525 Adult Head    107.5 Adult Eye    167.9 Adult Brain    108.4 Adult Thoracic-Abdominal Ganglion    98.9 Adult Crop    152.1 Adult Midgut    179.6 Adult Hindgut    133.5 Adult Malpighian Tubules    160.7 Adult Fat Body    121.4 Adult Salivary Gland    88 Adult Heart    134.3 Adult VirginFemale Spermatheca    111.8 Adult InseminatedFemale Spermatheca    107.4 Adult Ovary    610.5 Adult Testis    272.3 Adult Male Accessory Gland    135 Adult Carcass    112.1 Expression Level Scale  Very high  log, scaled to maximum expression level Tissue   Expression Level Larval Central Nervous System    615.8 Larval Midgut    128.9 Larval Hindgut    175.5 Larval Malpighian Tubules    170.1 Larval Fat Body    166 Larval Salivary Gland    334.4 Larval Trachea    274.025 Larval Carcass    245.525 Adult Head    107.5 Adult Eye    167.9 Adult Brain    108.4 Adult Thoracic-Abdominal Ganglion    98.9 Adult Crop    152.1 Adult Midgut    179.6 Adult Hindgut    133.5 Adult Malpighian Tubules    160.7 Adult Fat Body    121.4 Adult Salivary Gland    88 Adult Heart    134.3 Adult VirginFemale Spermatheca    111.8 Adult InseminatedFemale Spermatheca    107.4 Adult Ovary    610.5 Adult Testis    272.3 Adult Male Accessory Gland    135 Adult Carcass    112.1 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System  615.8 Larval Midgut    128.9 Larval Hindgut    175.5 Larval Malpighian Tubules    170.1 Larval Fat Body    166 Larval Salivary Gland    334.4 Larval Trachea    274.025 Larval Carcass    245.525 Adult Head    107.5 Adult Eye    167.9 Adult Brain    108.4 Adult Thoracic-Abdominal Ganglion    98.9 Adult Crop    152.1 Adult Midgut    179.6 Adult Hindgut    133.5 Adult Malpighian Tubules    160.7 Adult Fat Body    121.4 Adult Salivary Gland    88 Adult Heart    134.3 Adult VirginFemale Spermatheca    111.8 Adult InseminatedFemale Spermatheca    107.4 Adult Ovary  610.5 Adult Testis    272.3 Adult Male Accessory Gland    135 Adult Carcass    112.1 Expression Level Scale  None   Low   Moderate   High  log, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    615.8 Larval Midgut    128.9 Larval Hindgut    175.5 Larval Malpighian Tubules    170.1 Larval Fat Body    166 Larval Salivary Gland    334.4 Larval Trachea    274.025 Larval Carcass    245.525 Adult Head    107.5 Adult Eye    167.9 Adult Brain    108.4 Adult Thoracic-Abdominal Ganglion    98.9 Adult Crop    152.1 Adult Midgut    179.6 Adult Hindgut    133.5 Adult Malpighian Tubules    160.7 Adult Fat Body    121.4 Adult Salivary Gland    88 Adult Heart    134.3 Adult VirginFemale Spermatheca    111.8 Adult InseminatedFemale Spermatheca    107.4 Adult Ovary    610.5 Adult Testis    272.3 Adult Male Accessory Gland    135 Adult Carcass    112.1 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    615.8 Larval Midgut    128.9 Larval Hindgut    175.5 Larval Malpighian Tubules    170.1 Larval Fat Body    166 Larval Salivary Gland    334.4 Larval Trachea    274.025 Larval Carcass    245.525 Adult Head    107.5 Adult Eye    167.9 Adult Brain    108.4 Adult Thoracic-Abdominal Ganglion    98.9 Adult Crop    152.1 Adult Midgut    179.6 Adult Hindgut    133.5 Adult Malpighian Tubules    160.7 Adult Fat Body    121.4 Adult Salivary Gland    88 Adult Heart    134.3 Adult VirginFemale Spermatheca    111.8 Adult InseminatedFemale Spermatheca    107.4 Adult Ovary    610.5 Adult Testis    272.3 Adult Male Accessory Gland    135 Adult Carcass    112.1 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    107.5   NA  Eye    167.9   NA  Brain    108.4   615.8  Central Nervous System    NA   NA  Thoracic-Abdominal Ganglion    98.9   NA  Crop    152.1   128.9  Midgut    179.6   175.5  Hindgut    133.5   170.1  Malpighian Tubules    160.7   166  Fat Body    121.4   334.4  Salivary Gland    88   NA  Heart    134.3   274.025  Trachea    NA   NA  VirginFemale Spermatheca    111.8   NA  InseminatedFemale Spermatheca    107.4   NA  Ovary    610.5   NA  Testis    272.3   NA  Male Accessory Gland    135   245.525  Carcass    112.1 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    32 central nervous system, larvae L3    24 central nervous system, pupae P8    7 head, virgin 1-day female    2 head, virgin 4-day female    2 head, virgin 20-day female    1 head, mated 1-day female    2 head, mated 4-day female    2 head, mated 20-day female    2 head, mated 1-day male    2 head, mated 4-day male    4 head, mated 20-day male    3 salivary gland, larvae L3 wandering    1 salivary gland, white prepupae    3 digestive system, larvae L3 wandering    6 digestive system, 1-day adult    4 digestive system, 4-day adult    5 digestive system, 20-day adult    5 fat body, larvae L3 wandering    1 fat body, white prepupae    4 fat body, pupae P8    0 carcass, larvae L3 wandering    12 carcass, 1-day adult    2 carcass, 4-day adult    5 carcass, 20-day adult    3 ovary, virgin 4-day female    31 ovary, mated 4-day female    23 testis, mated 4-day male    12 accessory gland, mated 4-day male    7 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering  (32) central nervous system, larvae L3    24 central nervous system, pupae P8    7 head, virgin 1-day female    2 head, virgin 4-day female    2 head, virgin 20-day female    1 head, mated 1-day female    2 head, mated 4-day female    2 head, mated 20-day female    2 head, mated 1-day male    2 head, mated 4-day male    4 head, mated 20-day male    3 salivary gland, larvae L3 wandering    1 salivary gland, white prepupae    3 digestive system, larvae L3 wandering    6 digestive system, 1-day adult    4 digestive system, 4-day adult    5 digestive system, 20-day adult    5 fat body, larvae L3 wandering    1 fat body, white prepupae    4 fat body, pupae P8    0 carcass, larvae L3 wandering    12 carcass, 1-day adult    2 carcass, 4-day adult    5 carcass, 20-day adult    3 ovary, virgin 4-day female  (31) ovary, mated 4-day female    23 testis, mated 4-day male    12 accessory gland, mated 4-day male    7 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    32 central nervous system, larvae L3    24 central nervous system, pupae P8    7 head, virgin 1-day female    2 head, virgin 4-day female    2 head, virgin 20-day female    1 head, mated 1-day female    2 head, mated 4-day female    2 head, mated 20-day female    2 head, mated 1-day male    2 head, mated 4-day male    4 head, mated 20-day male    3 salivary gland, larvae L3 wandering    1 salivary gland, white prepupae    3 digestive system, larvae L3 wandering    6 digestive system, 1-day adult    4 digestive system, 4-day adult    5 digestive system, 20-day adult    5 fat body, larvae L3 wandering    1 fat body, white prepupae    4 fat body, pupae P8    0 carcass, larvae L3 wandering    12 carcass, 1-day adult    2 carcass, 4-day adult    5 carcass, 20-day adult    3 ovary, virgin 4-day female    31 ovary, mated 4-day female    23 testis, mated 4-day male    12 accessory gland, mated 4-day male    7 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    32 central nervous system, larvae L3    24 central nervous system, pupae P8    7 head, virgin 1-day female    2 head, virgin 4-day female    2 head, virgin 20-day female    1 head, mated 1-day female    2 head, mated 4-day female    2 head, mated 20-day female    2 head, mated 1-day male    2 head, mated 4-day male    4 head, mated 20-day male    3 salivary gland, larvae L3 wandering    1 salivary gland, white prepupae    3 digestive system, larvae L3 wandering    6 digestive system, 1-day adult    4 digestive system, 4-day adult    5 digestive system, 20-day adult    5 fat body, larvae L3 wandering    1 fat body, white prepupae    4 fat body, pupae P8    0 carcass, larvae L3 wandering    12 carcass, 1-day adult    2 carcass, 4-day adult    5 carcass, 20-day adult    3 ovary, virgin 4-day female    31 ovary, mated 4-day female    23 testis, mated 4-day male    12 accessory gland, mated 4-day male    7 Expression Level Scale  Extremely high  log, scaled to maximum expression level Tissue   Expression Level imaginal disc, larvae L3 wandering    32 central nervous system, larvae L3    24 central nervous system, pupae P8    7 head, virgin 1-day female    2 head, virgin 4-day female    2 head, virgin 20-day female    1 head, mated 1-day female    2 head, mated 4-day female    2 head, mated 20-day female    2 head, mated 1-day male    2 head, mated 4-day male    4 head, mated 20-day male    3 salivary gland, larvae L3 wandering    1 salivary gland, white prepupae    3 digestive system, larvae L3 wandering    6 digestive system, 1-day adult    4 digestive system, 4-day adult    5 digestive system, 20-day adult    5 fat body, larvae L3 wandering    1 fat body, white prepupae    4 fat body, pupae P8    0 carcass, larvae L3 wandering    12 carcass, 1-day adult    2 carcass, 4-day adult    5 carcass, 20-day adult    3 ovary, virgin 4-day female    31 ovary, mated 4-day female    23 testis, mated 4-day male    12 accessory gland, mated 4-day male    7 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering  32 central nervous system, larvae L3    24 central nervous system, pupae P8    7 head, virgin 1-day female    2 head, virgin 4-day female    2 head, virgin 20-day female    1 head, mated 1-day female    2 head, mated 4-day female    2 head, mated 20-day female    2 head, mated 1-day male    2 head, mated 4-day male    4 head, mated 20-day male    3 salivary gland, larvae L3 wandering    1 salivary gland, white prepupae    3 digestive system, larvae L3 wandering    6 digestive system, 1-day adult    4 digestive system, 4-day adult    5 digestive system, 20-day adult    5 fat body, larvae L3 wandering    1 fat body, white prepupae    4 fat body, pupae P8    0 carcass, larvae L3 wandering    12 carcass, 1-day adult    2 carcass, 4-day adult    5 carcass, 20-day adult    3 ovary, virgin 4-day female  31 ovary, mated 4-day female    23 testis, mated 4-day male    12 accessory gland, mated 4-day male    7 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    32 central nervous system, larvae L3    24 central nervous system, pupae P8    7 head, virgin 1-day female    2 head, virgin 4-day female    2 head, virgin 20-day female    1 head, mated 1-day female    2 head, mated 4-day female    2 head, mated 20-day female    2 head, mated 1-day male    2 head, mated 4-day male    4 head, mated 20-day male    3 salivary gland, larvae L3 wandering    1 salivary gland, white prepupae    3 digestive system, larvae L3 wandering    6 digestive system, 1-day adult    4 digestive system, 4-day adult    5 digestive system, 20-day adult    5 fat body, larvae L3 wandering    1 fat body, white prepupae    4 fat body, pupae P8    0 carcass, larvae L3 wandering    12 carcass, 1-day adult    2 carcass, 4-day adult    5 carcass, 20-day adult    3 ovary, virgin 4-day female    31 ovary, mated 4-day female    23 testis, mated 4-day male    12 accessory gland, mated 4-day male    7 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    32 central nervous system, larvae L3    24 central nervous system, pupae P8    7 head, virgin 1-day female    2 head, virgin 4-day female    2 head, virgin 20-day female    1 head, mated 1-day female    2 head, mated 4-day female    2 head, mated 20-day female    2 head, mated 1-day male    2 head, mated 4-day male    4 head, mated 20-day male    3 salivary gland, larvae L3 wandering    1 salivary gland, white prepupae    3 digestive system, larvae L3 wandering    6 digestive system, 1-day adult    4 digestive system, 4-day adult    5 digestive system, 20-day adult    5 fat body, larvae L3 wandering    1 fat body, white prepupae    4 fat body, pupae P8    0 carcass, larvae L3 wandering    12 carcass, 1-day adult    2 carcass, 4-day adult    5 carcass, 20-day adult    3 ovary, virgin 4-day female    31 ovary, mated 4-day female    23 testis, mated 4-day male    12 accessory gland, mated 4-day male    7 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 very high expression to a trough of moderate expression. Peak expression observed within 00-12 hour embryonic 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    134 embryo 02-04hr    175 embryo 04-06hr    189 embryo 06-08hr    147 embryo 08-10hr    120 embryo 10-12hr    95 embryo 12-14hr    62 embryo 14-16hr    47 embryo 16-18hr    39 embryo 18-20hr    26 embryo 20-22hr    30 embryo 22-24hr    34 larva L1    29 larva L2    44 larva L3 12hr old    27 larva L3 puffstage 1-2    26 larva L3 puffstage 3-6    32 larva L3 puffstage 7-9    39 white prepupae new    34 white prepupae 12hr    38 white prepupae 24hr    46 pupae 2d postWPP    35 pupae 3d postWPP    21 pupae 4d postWPP    17 adult male 01day    19 adult male 05day    26 adult male 30day    20 adult female 01day    33 adult female 05day    65 adult female 30day    66 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr  (134) embryo 02-04hr  (175) embryo 04-06hr  (189) embryo 06-08hr  (147) embryo 08-10hr  (120) embryo 10-12hr  (95) embryo 12-14hr  (62) embryo 14-16hr  (47) embryo 16-18hr  (39) embryo 18-20hr  26 embryo 20-22hr  (30) embryo 22-24hr  (34) larva L1  (29) larva L2  (44) larva L3 12hr old  (27) larva L3 puffstage 1-2  26 larva L3 puffstage 3-6  (32) larva L3 puffstage 7-9  (39) white prepupae new  (34) white prepupae 12hr  (38) white prepupae 24hr  (46) pupae 2d postWPP  (35) pupae 3d postWPP    21 pupae 4d postWPP    17 adult male 01day    19 adult male 05day  26 adult male 30day    20 adult female 01day  (33) adult female 05day  (65) adult female 30day  (66) Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr  (134) embryo 02-04hr  (175) embryo 04-06hr  (189) embryo 06-08hr  (147) embryo 08-10hr  (120) embryo 10-12hr    95 embryo 12-14hr    62 embryo 14-16hr    47 embryo 16-18hr    39 embryo 18-20hr    26 embryo 20-22hr    30 embryo 22-24hr    34 larva L1    29 larva L2    44 larva L3 12hr old    27 larva L3 puffstage 1-2    26 larva L3 puffstage 3-6    32 larva L3 puffstage 7-9    39 white prepupae new    34 white prepupae 12hr    38 white prepupae 24hr    46 pupae 2d postWPP    35 pupae 3d postWPP    21 pupae 4d postWPP    17 adult male 01day    19 adult male 05day    26 adult male 30day    20 adult female 01day    33 adult female 05day    65 adult female 30day    66 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    134 embryo 02-04hr    175 embryo 04-06hr    189 embryo 06-08hr    147 embryo 08-10hr    120 embryo 10-12hr    95 embryo 12-14hr    62 embryo 14-16hr    47 embryo 16-18hr    39 embryo 18-20hr    26 embryo 20-22hr    30 embryo 22-24hr    34 larva L1    29 larva L2    44 larva L3 12hr old    27 larva L3 puffstage 1-2    26 larva L3 puffstage 3-6    32 larva L3 puffstage 7-9    39 white prepupae new    34 white prepupae 12hr    38 white prepupae 24hr    46 pupae 2d postWPP    35 pupae 3d postWPP    21 pupae 4d postWPP    17 adult male 01day    19 adult male 05day    26 adult male 30day    20 adult female 01day    33 adult female 05day    65 adult female 30day    66 Expression Level Scale  Extremely high  log, scaled to maximum expression level Developmental Stage   Expression Level embryo 00-02hr    134 embryo 02-04hr    175 embryo 04-06hr    189 embryo 06-08hr    147 embryo 08-10hr    120 embryo 10-12hr    95 embryo 12-14hr    62 embryo 14-16hr    47 embryo 16-18hr    39 embryo 18-20hr    26 embryo 20-22hr    30 embryo 22-24hr    34 larva L1    29 larva L2    44 larva L3 12hr old    27 larva L3 puffstage 1-2    26 larva L3 puffstage 3-6    32 larva L3 puffstage 7-9    39 white prepupae new    34 white prepupae 12hr    38 white prepupae 24hr    46 pupae 2d postWPP    35 pupae 3d postWPP    21 pupae 4d postWPP    17 adult male 01day    19 adult male 05day    26 adult male 30day    20 adult female 01day    33 adult female 05day    65 adult female 30day    66 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr  (134) embryo 02-04hr  (175) embryo 04-06hr  (189) embryo 06-08hr  (147) embryo 08-10hr  (120) embryo 10-12hr  (95) embryo 12-14hr  (62) embryo 14-16hr  (47) embryo 16-18hr  (39) embryo 18-20hr  26 embryo 20-22hr  30 embryo 22-24hr  (34) larva L1  29 larva L2  (44) larva L3 12hr old  27 larva L3 puffstage 1-2  26 larva L3 puffstage 3-6  32 larva L3 puffstage 7-9  (39) white prepupae new  (34) white prepupae 12hr  (38) white prepupae 24hr  (46) pupae 2d postWPP  (35) pupae 3d postWPP    21 pupae 4d postWPP    17 adult male 01day    19 adult male 05day  26 adult male 30day    20 adult female 01day  (33) adult female 05day  (65) adult female 30day  (66) Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr  134 embryo 02-04hr  (175) embryo 04-06hr  (189) embryo 06-08hr  (147) embryo 08-10hr  120 embryo 10-12hr    95 embryo 12-14hr    62 embryo 14-16hr    47 embryo 16-18hr    39 embryo 18-20hr    26 embryo 20-22hr    30 embryo 22-24hr    34 larva L1    29 larva L2    44 larva L3 12hr old    27 larva L3 puffstage 1-2    26 larva L3 puffstage 3-6    32 larva L3 puffstage 7-9    39 white prepupae new    34 white prepupae 12hr    38 white prepupae 24hr    46 pupae 2d postWPP    35 pupae 3d postWPP    21 pupae 4d postWPP    17 adult male 01day    19 adult male 05day    26 adult male 30day    20 adult female 01day    33 adult female 05day    65 adult female 30day    66 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    134 embryo 02-04hr    175 embryo 04-06hr    189 embryo 06-08hr    147 embryo 08-10hr    120 embryo 10-12hr    95 embryo 12-14hr    62 embryo 14-16hr    47 embryo 16-18hr    39 embryo 18-20hr    26 embryo 20-22hr    30 embryo 22-24hr    34 larva L1    29 larva L2    44 larva L3 12hr old    27 larva L3 puffstage 1-2    26 larva L3 puffstage 3-6    32 larva L3 puffstage 7-9    39 white prepupae new    34 white prepupae 12hr    38 white prepupae 24hr    46 pupae 2d postWPP    35 pupae 3d postWPP    21 pupae 4d postWPP    17 adult male 01day    19 adult male 05day    26 adult male 30day    20 adult female 01day    33 adult female 05day    65 adult female 30day    66 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+    50 Schneider line 2 Sg4    34 embryonic 1182-4H    17 embryonic GM2    18 embryonic Kc167    14 embryonic S1    65 embryonic S3    41 leg disc CME L1    20 wing disc CME-W2    21 wing disc ML-DmD8    18 wing disc ML-DmD9    17 wing disc ML-DmD16-c3    9 wing disc ML-DmD21    33 wing disc ML-DmD32    10 haltere disc ML-DmD17-c3    31 eye-antennal disc ML-DmD11    20 antennal disc ML-DmD20-c5    24 mixed discs ML-DmD4-c1    11 CNS ML-DmBG1-c1    20 CNS ML-DmBG2-c2    9 tumorous blood cells mbn2    29 ovary fGS/OSS    8 ovary OSC    8 ovary OSS    17 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  Linear, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+  (50) Schneider line 2 Sg4  (34) embryonic 1182-4H    17 embryonic GM2    18 embryonic Kc167    14 embryonic S1  (65) embryonic S3  (41) leg disc CME L1    20 wing disc CME-W2    21 wing disc ML-DmD8    18 wing disc ML-DmD9    17 wing disc ML-DmD16-c3    9 wing disc ML-DmD21  (33) wing disc ML-DmD32    10 haltere disc ML-DmD17-c3  (31) eye-antennal disc ML-DmD11    20 antennal disc ML-DmD20-c5    24 mixed discs ML-DmD4-c1    11 CNS ML-DmBG1-c1    20 CNS ML-DmBG2-c2    9 tumorous blood cells mbn2  (29) ovary fGS/OSS    8 ovary OSC    8 ovary OSS    17 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    50 Schneider line 2 Sg4    34 embryonic 1182-4H    17 embryonic GM2    18 embryonic Kc167    14 embryonic S1    65 embryonic S3    41 leg disc CME L1    20 wing disc CME-W2    21 wing disc ML-DmD8    18 wing disc ML-DmD9    17 wing disc ML-DmD16-c3    9 wing disc ML-DmD21    33 wing disc ML-DmD32    10 haltere disc ML-DmD17-c3    31 eye-antennal disc ML-DmD11    20 antennal disc ML-DmD20-c5    24 mixed discs ML-DmD4-c1    11 CNS ML-DmBG1-c1    20 CNS ML-DmBG2-c2    9 tumorous blood cells mbn2    29 ovary fGS/OSS    8 ovary OSC    8 ovary OSS    17 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+    50 Schneider line 2 Sg4    34 embryonic 1182-4H    17 embryonic GM2    18 embryonic Kc167    14 embryonic S1    65 embryonic S3    41 leg disc CME L1    20 wing disc CME-W2    21 wing disc ML-DmD8    18 wing disc ML-DmD9    17 wing disc ML-DmD16-c3    9 wing disc ML-DmD21    33 wing disc ML-DmD32    10 haltere disc ML-DmD17-c3    31 eye-antennal disc ML-DmD11    20 antennal disc ML-DmD20-c5    24 mixed discs ML-DmD4-c1    11 CNS ML-DmBG1-c1    20 CNS ML-DmBG2-c2    9 tumorous blood cells mbn2    29 ovary fGS/OSS    8 ovary OSC    8 ovary OSS    17 Expression Level Scale  Extremely high  log, scaled to maximum expression level Cell Line   Expression Level Schneider line 2 S2R+    50 Schneider line 2 Sg4    34 embryonic 1182-4H    17 embryonic GM2    18 embryonic Kc167    14 embryonic S1    65 embryonic S3    41 leg disc CME L1    20 wing disc CME-W2    21 wing disc ML-DmD8    18 wing disc ML-DmD9    17 wing disc ML-DmD16-c3    9 wing disc ML-DmD21    33 wing disc ML-DmD32    10 haltere disc ML-DmD17-c3    31 eye-antennal disc ML-DmD11    20 antennal disc ML-DmD20-c5    24 mixed discs ML-DmD4-c1    11 CNS ML-DmBG1-c1    20 CNS ML-DmBG2-c2    9 tumorous blood cells mbn2    29 ovary fGS/OSS    8 ovary OSC    8 ovary OSS    17 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  log, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+  (50) Schneider line 2 Sg4  (34) embryonic 1182-4H    17 embryonic GM2    18 embryonic Kc167    14 embryonic S1  (65) embryonic S3  (41) leg disc CME L1    20 wing disc CME-W2    21 wing disc ML-DmD8    18 wing disc ML-DmD9    17 wing disc ML-DmD16-c3    9 wing disc ML-DmD21  (33) wing disc ML-DmD32    10 haltere disc ML-DmD17-c3  31 eye-antennal disc ML-DmD11    20 antennal disc ML-DmD20-c5    24 mixed discs ML-DmD4-c1    11 CNS ML-DmBG1-c1    20 CNS ML-DmBG2-c2    9 tumorous blood cells mbn2  29 ovary fGS/OSS    8 ovary OSC    8 ovary OSS    17 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    50 Schneider line 2 Sg4    34 embryonic 1182-4H    17 embryonic GM2    18 embryonic Kc167    14 embryonic S1    65 embryonic S3    41 leg disc CME L1    20 wing disc CME-W2    21 wing disc ML-DmD8    18 wing disc ML-DmD9    17 wing disc ML-DmD16-c3    9 wing disc ML-DmD21    33 wing disc ML-DmD32    10 haltere disc ML-DmD17-c3    31 eye-antennal disc ML-DmD11    20 antennal disc ML-DmD20-c5    24 mixed discs ML-DmD4-c1    11 CNS ML-DmBG1-c1    20 CNS ML-DmBG2-c2    9 tumorous blood cells mbn2    29 ovary fGS/OSS    8 ovary OSC    8 ovary OSS    17 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+    50 Schneider line 2 Sg4    34 embryonic 1182-4H    17 embryonic GM2    18 embryonic Kc167    14 embryonic S1    65 embryonic S3    41 leg disc CME L1    20 wing disc CME-W2    21 wing disc ML-DmD8    18 wing disc ML-DmD9    17 wing disc ML-DmD16-c3    9 wing disc ML-DmD21    33 wing disc ML-DmD32    10 haltere disc ML-DmD17-c3    31 eye-antennal disc ML-DmD11    20 antennal disc ML-DmD20-c5    24 mixed discs ML-DmD4-c1    11 CNS ML-DmBG1-c1    20 CNS ML-DmBG2-c2    9 tumorous blood cells mbn2    29 ovary fGS/OSS    8 ovary OSC    8 ovary OSS    17 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    5 cold shock, 4-day adult    8 heat shock, 4-day adult    16 Cadmium 50 mM 6 hrs, larvae L3    15 Cadmium 50 mM 12 hrs, larvae L3    14 Cadmium 50 mM 48 hrs, 4-day adult    13 Cadmium 100 mM 48 hrs, 4-day adult    19 Copper 0.5 mM 12 hrs, larvae L3    3 Copper 15 mM 48 hrs, 4-day adult    21 Zinc 5 mM 12 hrs, larvae L3    3 Zinc 4.5 mM 48 hrs, 4-day adult    4 Ethanol 2.5% 3 hrs, larvae L3    31 Ethanol 5% 3 hrs, larvae L3    9 Ethanol 10% 3 hrs, larvae L3    7 Caffeine 1.5 mg/ml 4 hrs, larvae L3    5 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    18 Caffeine 25 mg/ml 48 hrs, 4-day adult    6 Paraquat 5 mM 48 hrs, 4-day adult    18 Paraquat 10 mM 48 hrs, 4-day adult    17 Rotenone 2 μg 12 hrs, larvae L3    11 Rotenone 8 μg 12 hrs, larvae L3    11 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    5 cold shock, 4-day adult    8 heat shock, 4-day adult    16 Cadmium 50 mM 6 hrs, larvae L3    15 Cadmium 50 mM 12 hrs, larvae L3    14 Cadmium 50 mM 48 hrs, 4-day adult    13 Cadmium 100 mM 48 hrs, 4-day adult    19 Copper 0.5 mM 12 hrs, larvae L3    3 Copper 15 mM 48 hrs, 4-day adult    21 Zinc 5 mM 12 hrs, larvae L3    3 Zinc 4.5 mM 48 hrs, 4-day adult    4 Ethanol 2.5% 3 hrs, larvae L3  (31) Ethanol 5% 3 hrs, larvae L3    9 Ethanol 10% 3 hrs, larvae L3    7 Caffeine 1.5 mg/ml 4 hrs, larvae L3    5 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    18 Caffeine 25 mg/ml 48 hrs, 4-day adult    6 Paraquat 5 mM 48 hrs, 4-day adult    18 Paraquat 10 mM 48 hrs, 4-day adult    17 Rotenone 2 μg 12 hrs, larvae L3    11 Rotenone 8 μg 12 hrs, larvae L3    11 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    5 cold shock, 4-day adult    8 heat shock, 4-day adult    16 Cadmium 50 mM 6 hrs, larvae L3    15 Cadmium 50 mM 12 hrs, larvae L3    14 Cadmium 50 mM 48 hrs, 4-day adult    13 Cadmium 100 mM 48 hrs, 4-day adult    19 Copper 0.5 mM 12 hrs, larvae L3    3 Copper 15 mM 48 hrs, 4-day adult    21 Zinc 5 mM 12 hrs, larvae L3    3 Zinc 4.5 mM 48 hrs, 4-day adult    4 Ethanol 2.5% 3 hrs, larvae L3    31 Ethanol 5% 3 hrs, larvae L3    9 Ethanol 10% 3 hrs, larvae L3    7 Caffeine 1.5 mg/ml 4 hrs, larvae L3    5 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    18 Caffeine 25 mg/ml 48 hrs, 4-day adult    6 Paraquat 5 mM 48 hrs, 4-day adult    18 Paraquat 10 mM 48 hrs, 4-day adult    17 Rotenone 2 μg 12 hrs, larvae L3    11 Rotenone 8 μg 12 hrs, larvae L3    11 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    5 cold shock, 4-day adult    8 heat shock, 4-day adult    16 Cadmium 50 mM 6 hrs, larvae L3    15 Cadmium 50 mM 12 hrs, larvae L3    14 Cadmium 50 mM 48 hrs, 4-day adult    13 Cadmium 100 mM 48 hrs, 4-day adult    19 Copper 0.5 mM 12 hrs, larvae L3    3 Copper 15 mM 48 hrs, 4-day adult    21 Zinc 5 mM 12 hrs, larvae L3    3 Zinc 4.5 mM 48 hrs, 4-day adult    4 Ethanol 2.5% 3 hrs, larvae L3    31 Ethanol 5% 3 hrs, larvae L3    9 Ethanol 10% 3 hrs, larvae L3    7 Caffeine 1.5 mg/ml 4 hrs, larvae L3    5 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    18 Caffeine 25 mg/ml 48 hrs, 4-day adult    6 Paraquat 5 mM 48 hrs, 4-day adult    18 Paraquat 10 mM 48 hrs, 4-day adult    17 Rotenone 2 μg 12 hrs, larvae L3    11 Rotenone 8 μg 12 hrs, larvae L3    11 Expression Level Scale  Extremely high  log, scaled to maximum expression level Treatment   Expression Level extended cold, 4-day adult    5 cold shock, 4-day adult    8 heat shock, 4-day adult    16 Cadmium 50 mM 6 hrs, larvae L3    15 Cadmium 50 mM 12 hrs, larvae L3    14 Cadmium 50 mM 48 hrs, 4-day adult    13 Cadmium 100 mM 48 hrs, 4-day adult    19 Copper 0.5 mM 12 hrs, larvae L3    3 Copper 15 mM 48 hrs, 4-day adult    21 Zinc 5 mM 12 hrs, larvae L3    3 Zinc 4.5 mM 48 hrs, 4-day adult    4 Ethanol 2.5% 3 hrs, larvae L3    31 Ethanol 5% 3 hrs, larvae L3    9 Ethanol 10% 3 hrs, larvae L3    7 Caffeine 1.5 mg/ml 4 hrs, larvae L3    5 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    18 Caffeine 25 mg/ml 48 hrs, 4-day adult    6 Paraquat 5 mM 48 hrs, 4-day adult    18 Paraquat 10 mM 48 hrs, 4-day adult    17 Rotenone 2 μg 12 hrs, larvae L3    11 Rotenone 8 μg 12 hrs, larvae L3    11 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    5 cold shock, 4-day adult    8 heat shock, 4-day adult    16 Cadmium 50 mM 6 hrs, larvae L3    15 Cadmium 50 mM 12 hrs, larvae L3    14 Cadmium 50 mM 48 hrs, 4-day adult    13 Cadmium 100 mM 48 hrs, 4-day adult    19 Copper 0.5 mM 12 hrs, larvae L3    3 Copper 15 mM 48 hrs, 4-day adult    21 Zinc 5 mM 12 hrs, larvae L3    3 Zinc 4.5 mM 48 hrs, 4-day adult    4 Ethanol 2.5% 3 hrs, larvae L3  31 Ethanol 5% 3 hrs, larvae L3    9 Ethanol 10% 3 hrs, larvae L3    7 Caffeine 1.5 mg/ml 4 hrs, larvae L3    5 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    18 Caffeine 25 mg/ml 48 hrs, 4-day adult    6 Paraquat 5 mM 48 hrs, 4-day adult    18 Paraquat 10 mM 48 hrs, 4-day adult    17 Rotenone 2 μg 12 hrs, larvae L3    11 Rotenone 8 μg 12 hrs, larvae L3    11 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    5 cold shock, 4-day adult    8 heat shock, 4-day adult    16 Cadmium 50 mM 6 hrs, larvae L3    15 Cadmium 50 mM 12 hrs, larvae L3    14 Cadmium 50 mM 48 hrs, 4-day adult    13 Cadmium 100 mM 48 hrs, 4-day adult    19 Copper 0.5 mM 12 hrs, larvae L3    3 Copper 15 mM 48 hrs, 4-day adult    21 Zinc 5 mM 12 hrs, larvae L3    3 Zinc 4.5 mM 48 hrs, 4-day adult    4 Ethanol 2.5% 3 hrs, larvae L3    31 Ethanol 5% 3 hrs, larvae L3    9 Ethanol 10% 3 hrs, larvae L3    7 Caffeine 1.5 mg/ml 4 hrs, larvae L3    5 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    18 Caffeine 25 mg/ml 48 hrs, 4-day adult    6 Paraquat 5 mM 48 hrs, 4-day adult    18 Paraquat 10 mM 48 hrs, 4-day adult    17 Rotenone 2 μg 12 hrs, larvae L3    11 Rotenone 8 μg 12 hrs, larvae L3    11 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    5 cold shock, 4-day adult    8 heat shock, 4-day adult    16 Cadmium 50 mM 6 hrs, larvae L3    15 Cadmium 50 mM 12 hrs, larvae L3    14 Cadmium 50 mM 48 hrs, 4-day adult    13 Cadmium 100 mM 48 hrs, 4-day adult    19 Copper 0.5 mM 12 hrs, larvae L3    3 Copper 15 mM 48 hrs, 4-day adult    21 Zinc 5 mM 12 hrs, larvae L3    3 Zinc 4.5 mM 48 hrs, 4-day adult    4 Ethanol 2.5% 3 hrs, larvae L3    31 Ethanol 5% 3 hrs, larvae L3    9 Ethanol 10% 3 hrs, larvae L3    7 Caffeine 1.5 mg/ml 4 hrs, larvae L3    5 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    18 Caffeine 25 mg/ml 48 hrs, 4-day adult    6 Paraquat 5 mM 48 hrs, 4-day adult    18 Paraquat 10 mM 48 hrs, 4-day adult    17 Rotenone 2 μg 12 hrs, larvae L3    11 Rotenone 8 μg 12 hrs, larvae L3    11 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_17 mE1_20_mRNA_expression_cluster_03
External Data & Images
Linkouts	BDGP expression data • FI02869 RH02789 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0031822 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG9548-RA
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele lethal | pupal stage, with Scer\GAL4pnr-MD237 CG9548GD12559 Phenotype manifest in Allele
Classical Alleles ( 0 )
For All Classical Alleles Show
Allele of CG9548 Class Mutagen Stocks Known lesion
Alleles Carried on Transgenic Constructs ( 3 )
For All Alleles Carried on Transgenic Constructs Show
Allele of CG9548 Class Mutagen Stocks Known lesion CG9548GD12559 in vitro construct - RNAi in vitro construct - regulatory fusion 2 Yes CG9548HMS00335 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes CG9548KK108965 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes
Aneuploid Aberrations
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{GD12559} NA P{KK108965} NA P{TRiP.HMS00335} NA
Insertions
	Type of insertions Name Expression data
Gene Ontology: Function, Process & Cellular Component ( 3 unique terms )
Terms Based on Experimental Evidence ( 2 terms )
Molecular Function ( 0 terms)
Biological Process ( 0 terms)
Cellular Component
CV term Evidence References
catalytic step 2 spliceosome inferred from direct assay (Herold et al., 2009) precatalytic spliceosome inferred from direct assay (Herold et al., 2009)
Terms Based on Predictions or Assertions ( 1 term )
Molecular Function ( 0 terms)
Biological Process
CV term Evidence References
mRNA splicing, via spliceosome inferred by curator from GO:0071011|GO:0071013 (Herold et al., 2009)
Cellular Component ( 0 terms)
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 CG9548 allele Gene References
External Data
Linkouts	DroID - A comprehensive database of gene and protein interactions. • FBgn0031822 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 33909
Orthologs
OrthoDB Orthologs (39) - 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 EOG6ZKK6Z Dipteran inclusive ortholog search EOG67M27C Insect inclusive ortholog search EOG686797 Arthropod inclusive ortholog search EOG6N2Z5N Metazoa inclusive ortholog search EOG6K3ZRR
Orthologs in Drosophila Species (EOG6ZKK6Z)
Organism Common Name Gene AAA Syntenic Ortholog Multiple Dmel Genes in this Orthologous Group Drosophila melanogaster fruit fly  Dmel\CG9548     Drosophila simulans   Dsim\GD22570 Y   Drosophila sechellia   Dsec\GM17932 Y   Drosophila erecta   Dere\GG23616 Y   Drosophila yakuba   Dyak\GE18435 Y   Drosophila ananassae   Dana\GF15704 Y   Drosophila pseudoobscura pseudoobscura   Dpse\GA21871 Y   Drosophila persimilis   Dper\GL26100 Y   Drosophila willistoni   Dwil\GK18690 Y   Drosophila virilis   Dvir\GJ17895 Y   Drosophila mojavensis   Dmoj\GI17286 Y   Drosophila grimshawi   Dgri\GH13247 Y
Orthologs in non-Drosophila Dipterans (EOG67M27C)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Aedes aegypti Yellow fever mosquito  Aaeg\AAEL003695   Anopheles gambiae Malaria mosquito  Agam\AGAP009905   Culex quinquefasciatus Southern house mosquito  Cqui\CPIJ801811
Orthologs in non-Dipteran Insects (EOG686797)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Apis mellifera Western honey bee  Amel\GB51735   Nasonia vitripennis Parasitic wasp  Nvit\Nasvi2EG012590   Acromyrmex echinatior Panamanian leafcutter ant  Aech\AECH12562   Atta cephalotes Leafcutter ant  Acep\ACEP14584   Camponotus floridanus Florida carpenter ant  Cflo\CFLO14475   Harpegnathos saltator Jerdons jumping ant  Hsal\HSAL20027   Linepithema humile Argentine ant  Lhum\LH17581   Pogonomyrmex barbatus Red harvester ant  Pbar\PB20253   Solenopsis invicta Red fire ant  Sinv\SINV13047   Acyrthosiphon pisum Pea aphid  Apim\ACYPI009324   Bombyx mori Silkmoth  Bmor\BGIBMGA009855   Pediculus humanus Human body louse  Phum\PHUM300840   Tribolium castaneum Red flour beetle  Tcas\TC008542
Orthologs in non-Insect Arthropods (EOG6N2Z5N)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Daphnia pulex Water flea  Dpux\SOX18   Daphnia pulex Water flea  Dpux\matK   Ixodes scapularis Deer tick  Isca\ISCW018236
Orthologs in non-Arthropod Metazoa (EOG6K3ZRR)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Caenorhabditis elegans Nematode  Cele\phf-5   Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_027966gn   Danio rerio Zebrafish  Drer\phf5a   Xenopus tropicalis Western clawed frog  Xtro\phf5a   Gallus gallus Domestic chicken  Ggal\PHF5A   Mus musculus House mouse  Mmus\Phf5a   Rattus norvegicus Norway rat  Rnor\Phf5a   Homo sapiens Human  Hsap\PHF5A
Human Orthologs (1)
Gene OMIM HGNC Hsap\PHF5A
AAA Orthologs (11) based on analysis using Dmel annotation version 4.3
Organism Gene Drosophila simulans Dsim\GD22570 Drosophila sechellia Dsec\GM17932 Drosophila erecta Dere\GG23616 Drosophila yakuba Dyak\GE18435 Drosophila ananassae Dana\GF15704 Drosophila pseudoobscura pseudoobscura Dpse\GA21871 Drosophila persimilis Dper\GL26100 Drosophila willistoni Dwil\GK18690 Drosophila virilis Dvir\GJ17895 Drosophila mojavensis Dmoj\GI17286 Drosophila grimshawi Dgri\GH13247
Stocks & Reagents
Stocks Listed in FlyBase ( 4 )
Bloomington	32344 y1 sc* v1; P{TRiP.HMS00335}attP2
VDRC	v106102 P{KK108965}VIE-260B v35454 w1118; P{GD12559}v35454 v35453 w1118; P{GD12559}v35453/TM3
Genomic Clones ( 1 )
	BACR37F23 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 17 )
	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	RH02789
Other clones	FI02869
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones
Other clones	44072 Dmel_dig_017045_0599_0611 Dmel_dig_019076_0650_0781 Dmel_neb_012585_0896_2903 EK148617 EK186412 EK227709 EK243323 EK251607 EN11230 FGH109F04 IP09840 IP11969 RP004152088 RP004213994
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0031822 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 33909
Antibody Information
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of
Source for database merge of	Source for merge of: CG9548 BcDNA:RH02789 (FlyBase, 1996-)
Additional comments	Source for merge of CG9548 BcDNA:RH02789 was a shared cDNA (date:030728). (FlyBase, 1996-)
Other Comments
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_135194 RefSeq (Proteins) • NP_609038 DDBJ / EMBL / GenBank • AAF52393 AAM75082 AY128489 BI570453 Entrez Gene - A searchable database of RefSeq genes. • 33909 UniProtKB/Swiss-Prot • Q9VMC8
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • PHF5-like (IPR005345) BDGP expression data - Patterns of gene expression in Drosophila embryogenesis • FI02869 RH02789
Linkouts
	DroID - A comprehensive database of gene and protein interactions. • FBgn0031822 DRSC - Results from RNAi screens. • FBgn0031822 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0031822 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG9548-RA FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0031822 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 33909 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 33909 modMine - Data generated by the modENCODE project. • FBgn0031822
Synonyms & Secondary IDs ( 2 )
Reported As
Symbol Synonym	BcDNA:RH02789   CG9548 (Mack et al., 2006, Keleman et al., 2009.8.5, Herold et al., 2009, Zhou et al., 2008, Ni et al., 2010.12.1)
Name Synonym
Secondary FlyBase IDs
	FBgn0062970
References ( 14 )
Research paper	Weber et al., 2012, PLoS ONE 7(4): e34745 Genome-Wide Association Analysis of Oxidative Stress Resistance in Drosophila melanogaster. [FBrf0218073] Blanco et al., 2010, BMC Dev. Biol. 10: 94 Gene expression following induction of regeneration in Drosophila wing imaginal discs. Expression profile of regenerating wing discs. [FBrf0211812] Herold et al., 2009, Mol. Cell. Biol. 29(1): 281--301 Conservation of the protein composition and electron microscopy structure of Drosophila melanogaster and human spliceosomal complexes. [FBrf0207172] Zhou et al., 2008, Mol. Cell 32(4): 592--599 Comparative analysis of argonaute-dependent small RNA pathways in Drosophila. [FBrf0206362] Mack et al., 2006, Proc. Natl. Acad. Sci. U.S.A. 103(27): 10358--10363 Mating-responsive genes in reproductive tissues of female Drosophila melanogaster. [FBrf0194111]
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] Mummery-Widmer et al., 2009, Nature 458(7241): Supplementary Table 2 - Genome-wide bristle screen results. [FBrf0214518]
Personal communication to FlyBase	Ni et al., 2010.12.1, A genome-scale shRNA resource for transgenic RNAi in Drosophila. A genome-scale shRNA resource for transgenic RNAi in Drosophila. [FBrf0212437] 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] Dickson et al., 2007.7.18, RNAi construct and insertion data submitted by the Vienna Drosophila RNAi Center RNAi construct and insertion data submitted by the Vienna Drosophila RNAi Center [FBrf0200327] BDGP Project Members, 2000-, Berkeley Drosophila Genome Project. (Computer file) Berkeley Drosophila Genome Project. (Computer file) [FBrf0125078]
FlyBase analysis	FlyBase, 1996-, FlyBase inference based on genome sequence analysis. FlyBase inference based on genome sequence analysis. [FBrf0104946]
Website	Fisher et al., 2012, BDGP insitu homepage BDGP insitu homepage [FBrf0219073]