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Gene Dmel\Rab39

General Information
Symbol	Dmel\Rab39	Species	D. melanogaster
Name	Rab39	Annotation symbol	CG12156
Feature type	protein_coding_gene	FlyBase ID	FBgn0029959
Gene Model Status	Current	Stock availability	9 publicly available
Also Known As	DmRab39
Genomic Location
Chromosome (arm)	X	Recombination map
Cytogenetic map	7B7-7B7	Sequence location	X:7,628,956..7,630,789 [+]
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 Rab39 is referred to in FlyBase by the symbol Dmel\Rab39 (CG12156, FBgn0029959). It is a protein_coding_gene from Drosophila melanogaster. Based on sequence similarity, it is predicted to have molecular function: GTPase activity; GTP binding. An electronic pipeline based on InterPro domains suggests that it is involved in the biological process: protein transport; small GTPase mediated signal transduction. 7 alleles are reported. The phenotype of these alleles is annotated with: mesothoracic tergum. It has 2 annotated transcripts and 2 annotated polypeptides. Protein features are: Small GTP-binding protein domain; Small GTPase superfamily; Small GTPase superfamily, Rab type. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of moderate expression. Peak expression observed at stages throughout embryogenesis, during late larval stages, at stages throughout the pupal period, in stages of adults of both sexes. 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 Malpighian tubules. Expression at moderate levels in the following post-embryonic organs or tissues: adult head, adult eye, larval/adult central nervous system, adult crop, larval/adult midgut, larval/adult hindgut, adult Malpighian tubules, adult heart, larval/adult fat body, larval/adult salivary gland, larval trachea, adult female reproductive system, adult male accessory gland, larval/adult carcass. Comments on Affy2 ProbeSet: ProbeSet 1628482_at completely aligns to an exonic region of the only FlyBase-annotated transcript isoform of Rab39. Gene sequence location is X:7628956..7630789.
User Contributed Data
	Beta version, feedback welcome
Recent Updates
Description	What does this section display? This section contains items that were added to this record for each release. It currently only tracks new links between this FlyBase report and other FlyBase data classes (e.g. genes, references, stocks) or controlled vocabulary terms (e.g. GO, anatomy terms). What does this section not display? This section does not currently display links that were removed or gene model changes.
Update Feed	Click the icon below to subscribe to this FlyBase record and receive updates automatically through your feed reader.
FB2013_03	Controlled Vocabulary Terms synapse neuronal cell body
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 7B7-7B7   Limits computationally determined from genome sequence between P{EP}CHES-1-likeEP1453 and P{EP}EP1209
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\Rab39 for information on other features To submit a correction to a gene model please use the Contact FlyBase form
Comments on Gene Model
	Low-frequency RNA-Seq exon junction(s) not annotated. Gene model reviewed during 5.46
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) Rab39-RA FBtr0071072  NM_132177   1129   218 Rab39-RB FBtr0307272  NM_001258639   1406   218
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 Rab39-PA   FBpp0071030   24.7   218   6.16     NP_572405   AAF46271 Rab39-PB   FBpp0298273   24.7   218   6.16     NP_001245568   AFH07282
Additional Polypeptide Data & Comments
Reported size (kDa)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Small GTPase superfamily (IPR001806) Small GTPase superfamily, Rab type (IPR003579) Small GTP-binding protein domain (IPR005225) P-loop containing nucleoside triphosphate hydrolase (IPR027417)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AE014298 AAF46271   AE014298 AFH07282   AI402550   AY071340 AAL48962   BE975358   BG633184   BI240737   BI632127   BP557819   BP557820   BT044331   CA805766   CO186108   CO194053   CO268831   CO269200   CO269219   CO276162   CO277017   CO295978   CO342362   CO342997   EC057508   EC071042   EC076899   EC080201   EC082895   EC204203   EC232213   EC243085   EC243087   EC247600   EC250644   EC252269   EC259448   EL870174   EL870175   EL870176   EL870177   EL870178   EL870179   EL870180   EV591326   GH762096
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL	Q9W3Q0 Q8SYS5
Mapped Features
Mapped Features have been reorganized, please see this article for details. Additional mapped features and mutations can be found on GBrowse or related reports. Type Symbol & Location Additional Notes References
External Data
Linkouts
Crossreferences
Expression Data
Transcript Expression
in situ Stage Tissue/Position (including subcellular localization) Reference embryonic stage 1 -- 3   organism   (Fisher et al., 2012) Comment:maternally deposited embryonic stage 4 -- 6   organism | ubiquitous   (Fisher et al., 2012) embryonic stage 7 -- 8   organism | ubiquitous   (Fisher et al., 2012) embryonic stage 9 -- 10   organism | ubiquitous   (Fisher et al., 2012) embryonic stage 11 -- 12   organism | faint & ubiquitous   (Fisher et al., 2012) organism | ubiquitous   (Fisher et al., 2012) embryonic stage 13 -- 16   organism | faint & ubiquitous   (Fisher et al., 2012) 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
neuronal cell body inferred from direct assay (Chan et al., 2011, Jin et al., 2012) synapse inferred from direct assay (Jin et al., 2012)
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 Malpighian tubules. Expression at moderate levels in the following post-embryonic organs or tissues: adult head, adult eye, larval/adult central nervous system, adult crop, larval/adult midgut, larval/adult hindgut, adult Malpighian tubules, adult heart, larval/adult fat body, larval/adult salivary gland, larval trachea, adult female reproductive system, adult male accessory gland, 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    183.425 Larval Midgut    153.3 Larval Hindgut    163.4 Larval Malpighian Tubules    579.4 Larval Fat Body    148.1 Larval Salivary Gland    105.9 Larval Trachea    135.325 Larval Carcass    137 Adult Head    268.2 Adult Eye    318.75 Adult Brain    254.1 Adult Thoracic-Abdominal Ganglion    202.2 Adult Crop    323.1 Adult Midgut    170.9 Adult Hindgut    276.6 Adult Malpighian Tubules    230.6 Adult Fat Body    343.2 Adult Salivary Gland    187.4 Adult Heart    330.75 Adult VirginFemale Spermatheca    382.9 Adult InseminatedFemale Spermatheca    175.4 Adult Ovary    241.4 Adult Testis    56.7 Adult Male Accessory Gland    110.7 Adult Carcass    291.3 Expression Level Scale  None   Low   Moderate   High  Linear, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    183.425 Larval Midgut    153.3 Larval Hindgut    163.4 Larval Malpighian Tubules  (579.4) Larval Fat Body    148.1 Larval Salivary Gland    105.9 Larval Trachea    135.325 Larval Carcass    137 Adult Head    268.2 Adult Eye    318.75 Adult Brain    254.1 Adult Thoracic-Abdominal Ganglion    202.2 Adult Crop    323.1 Adult Midgut    170.9 Adult Hindgut    276.6 Adult Malpighian Tubules    230.6 Adult Fat Body    343.2 Adult Salivary Gland    187.4 Adult Heart    330.75 Adult VirginFemale Spermatheca    382.9 Adult InseminatedFemale Spermatheca    175.4 Adult Ovary    241.4 Adult Testis    56.7 Adult Male Accessory Gland    110.7 Adult Carcass    291.3 Expression Level Scale  None   Low   Moderate   High  Linear, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    183.425 Larval Midgut    153.3 Larval Hindgut    163.4 Larval Malpighian Tubules    579.4 Larval Fat Body    148.1 Larval Salivary Gland    105.9 Larval Trachea    135.325 Larval Carcass    137 Adult Head    268.2 Adult Eye    318.75 Adult Brain    254.1 Adult Thoracic-Abdominal Ganglion    202.2 Adult Crop    323.1 Adult Midgut    170.9 Adult Hindgut    276.6 Adult Malpighian Tubules    230.6 Adult Fat Body    343.2 Adult Salivary Gland    187.4 Adult Heart    330.75 Adult VirginFemale Spermatheca    382.9 Adult InseminatedFemale Spermatheca    175.4 Adult Ovary    241.4 Adult Testis    56.7 Adult Male Accessory Gland    110.7 Adult Carcass    291.3 Expression Level Scale  None   Low   Moderate   High   Very high  Linear, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    183.425 Larval Midgut    153.3 Larval Hindgut    163.4 Larval Malpighian Tubules    579.4 Larval Fat Body    148.1 Larval Salivary Gland    105.9 Larval Trachea    135.325 Larval Carcass    137 Adult Head    268.2 Adult Eye    318.75 Adult Brain    254.1 Adult Thoracic-Abdominal Ganglion    202.2 Adult Crop    323.1 Adult Midgut    170.9 Adult Hindgut    276.6 Adult Malpighian Tubules    230.6 Adult Fat Body    343.2 Adult Salivary Gland    187.4 Adult Heart    330.75 Adult VirginFemale Spermatheca    382.9 Adult InseminatedFemale Spermatheca    175.4 Adult Ovary    241.4 Adult Testis    56.7 Adult Male Accessory Gland    110.7 Adult Carcass    291.3 Expression Level Scale  Very high  log, scaled to maximum expression level Tissue   Expression Level Larval Central Nervous System    183.425 Larval Midgut    153.3 Larval Hindgut    163.4 Larval Malpighian Tubules    579.4 Larval Fat Body    148.1 Larval Salivary Gland    105.9 Larval Trachea    135.325 Larval Carcass    137 Adult Head    268.2 Adult Eye    318.75 Adult Brain    254.1 Adult Thoracic-Abdominal Ganglion    202.2 Adult Crop    323.1 Adult Midgut    170.9 Adult Hindgut    276.6 Adult Malpighian Tubules    230.6 Adult Fat Body    343.2 Adult Salivary Gland    187.4 Adult Heart    330.75 Adult VirginFemale Spermatheca    382.9 Adult InseminatedFemale Spermatheca    175.4 Adult Ovary    241.4 Adult Testis    56.7 Adult Male Accessory Gland    110.7 Adult Carcass    291.3 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    183.425 Larval Midgut    153.3 Larval Hindgut    163.4 Larval Malpighian Tubules  579.4 Larval Fat Body    148.1 Larval Salivary Gland    105.9 Larval Trachea    135.325 Larval Carcass    137 Adult Head    268.2 Adult Eye    318.75 Adult Brain    254.1 Adult Thoracic-Abdominal Ganglion    202.2 Adult Crop    323.1 Adult Midgut    170.9 Adult Hindgut    276.6 Adult Malpighian Tubules    230.6 Adult Fat Body    343.2 Adult Salivary Gland    187.4 Adult Heart    330.75 Adult VirginFemale Spermatheca    382.9 Adult InseminatedFemale Spermatheca    175.4 Adult Ovary    241.4 Adult Testis    56.7 Adult Male Accessory Gland    110.7 Adult Carcass    291.3 Expression Level Scale  None   Low   Moderate   High  log, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    183.425 Larval Midgut    153.3 Larval Hindgut    163.4 Larval Malpighian Tubules    579.4 Larval Fat Body    148.1 Larval Salivary Gland    105.9 Larval Trachea    135.325 Larval Carcass    137 Adult Head    268.2 Adult Eye    318.75 Adult Brain    254.1 Adult Thoracic-Abdominal Ganglion    202.2 Adult Crop    323.1 Adult Midgut    170.9 Adult Hindgut    276.6 Adult Malpighian Tubules    230.6 Adult Fat Body    343.2 Adult Salivary Gland    187.4 Adult Heart    330.75 Adult VirginFemale Spermatheca    382.9 Adult InseminatedFemale Spermatheca    175.4 Adult Ovary    241.4 Adult Testis    56.7 Adult Male Accessory Gland    110.7 Adult Carcass    291.3 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    183.425 Larval Midgut    153.3 Larval Hindgut    163.4 Larval Malpighian Tubules    579.4 Larval Fat Body    148.1 Larval Salivary Gland    105.9 Larval Trachea    135.325 Larval Carcass    137 Adult Head    268.2 Adult Eye    318.75 Adult Brain    254.1 Adult Thoracic-Abdominal Ganglion    202.2 Adult Crop    323.1 Adult Midgut    170.9 Adult Hindgut    276.6 Adult Malpighian Tubules    230.6 Adult Fat Body    343.2 Adult Salivary Gland    187.4 Adult Heart    330.75 Adult VirginFemale Spermatheca    382.9 Adult InseminatedFemale Spermatheca    175.4 Adult Ovary    241.4 Adult Testis    56.7 Adult Male Accessory Gland    110.7 Adult Carcass    291.3 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    268.2   NA  Eye    318.75   NA  Brain    254.1   183.425  Central Nervous System    NA   NA  Thoracic-Abdominal Ganglion    202.2   NA  Crop    323.1   153.3  Midgut    170.9   163.4  Hindgut    276.6   579.4  Malpighian Tubules    230.6   148.1  Fat Body    343.2   105.9  Salivary Gland    187.4   NA  Heart    330.75   135.325  Trachea    NA   NA  VirginFemale Spermatheca    382.9   NA  InseminatedFemale Spermatheca    175.4   NA  Ovary    241.4   NA  Testis    56.7   NA  Male Accessory Gland    110.7   137  Carcass    291.3 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    11 central nervous system, larvae L3    17 central nervous system, pupae P8    28 head, virgin 1-day female    17 head, virgin 4-day female    16 head, virgin 20-day female    20 head, mated 1-day female    12 head, mated 4-day female    15 head, mated 20-day female    15 head, mated 1-day male    17 head, mated 4-day male    24 head, mated 20-day male    26 salivary gland, larvae L3 wandering    5 salivary gland, white prepupae    7 digestive system, larvae L3 wandering    29 digestive system, 1-day adult    16 digestive system, 4-day adult    10 digestive system, 20-day adult    15 fat body, larvae L3 wandering    4 fat body, white prepupae    9 fat body, pupae P8    12 carcass, larvae L3 wandering    11 carcass, 1-day adult    18 carcass, 4-day adult    15 carcass, 20-day adult    13 ovary, virgin 4-day female    27 ovary, mated 4-day female    14 testis, mated 4-day male    4 accessory gland, mated 4-day male    4 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering    11 central nervous system, larvae L3    17 central nervous system, pupae P8  (28) head, virgin 1-day female    17 head, virgin 4-day female    16 head, virgin 20-day female    20 head, mated 1-day female    12 head, mated 4-day female    15 head, mated 20-day female    15 head, mated 1-day male    17 head, mated 4-day male    24 head, mated 20-day male  26 salivary gland, larvae L3 wandering    5 salivary gland, white prepupae    7 digestive system, larvae L3 wandering  (29) digestive system, 1-day adult    16 digestive system, 4-day adult    10 digestive system, 20-day adult    15 fat body, larvae L3 wandering    4 fat body, white prepupae    9 fat body, pupae P8    12 carcass, larvae L3 wandering    11 carcass, 1-day adult    18 carcass, 4-day adult    15 carcass, 20-day adult    13 ovary, virgin 4-day female  (27) ovary, mated 4-day female    14 testis, mated 4-day male    4 accessory gland, mated 4-day male    4 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    11 central nervous system, larvae L3    17 central nervous system, pupae P8    28 head, virgin 1-day female    17 head, virgin 4-day female    16 head, virgin 20-day female    20 head, mated 1-day female    12 head, mated 4-day female    15 head, mated 20-day female    15 head, mated 1-day male    17 head, mated 4-day male    24 head, mated 20-day male    26 salivary gland, larvae L3 wandering    5 salivary gland, white prepupae    7 digestive system, larvae L3 wandering    29 digestive system, 1-day adult    16 digestive system, 4-day adult    10 digestive system, 20-day adult    15 fat body, larvae L3 wandering    4 fat body, white prepupae    9 fat body, pupae P8    12 carcass, larvae L3 wandering    11 carcass, 1-day adult    18 carcass, 4-day adult    15 carcass, 20-day adult    13 ovary, virgin 4-day female    27 ovary, mated 4-day female    14 testis, mated 4-day male    4 accessory gland, mated 4-day male    4 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Extremely high expression Tissue   Expression Level imaginal disc, larvae L3 wandering    11 central nervous system, larvae L3    17 central nervous system, pupae P8    28 head, virgin 1-day female    17 head, virgin 4-day female    16 head, virgin 20-day female    20 head, mated 1-day female    12 head, mated 4-day female    15 head, mated 20-day female    15 head, mated 1-day male    17 head, mated 4-day male    24 head, mated 20-day male    26 salivary gland, larvae L3 wandering    5 salivary gland, white prepupae    7 digestive system, larvae L3 wandering    29 digestive system, 1-day adult    16 digestive system, 4-day adult    10 digestive system, 20-day adult    15 fat body, larvae L3 wandering    4 fat body, white prepupae    9 fat body, pupae P8    12 carcass, larvae L3 wandering    11 carcass, 1-day adult    18 carcass, 4-day adult    15 carcass, 20-day adult    13 ovary, virgin 4-day female    27 ovary, mated 4-day female    14 testis, mated 4-day male    4 accessory gland, mated 4-day male    4 Expression Level Scale  Extremely high  log, scaled to maximum expression level Tissue   Expression Level imaginal disc, larvae L3 wandering    11 central nervous system, larvae L3    17 central nervous system, pupae P8    28 head, virgin 1-day female    17 head, virgin 4-day female    16 head, virgin 20-day female    20 head, mated 1-day female    12 head, mated 4-day female    15 head, mated 20-day female    15 head, mated 1-day male    17 head, mated 4-day male    24 head, mated 20-day male    26 salivary gland, larvae L3 wandering    5 salivary gland, white prepupae    7 digestive system, larvae L3 wandering    29 digestive system, 1-day adult    16 digestive system, 4-day adult    10 digestive system, 20-day adult    15 fat body, larvae L3 wandering    4 fat body, white prepupae    9 fat body, pupae P8    12 carcass, larvae L3 wandering    11 carcass, 1-day adult    18 carcass, 4-day adult    15 carcass, 20-day adult    13 ovary, virgin 4-day female    27 ovary, mated 4-day female    14 testis, mated 4-day male    4 accessory gland, mated 4-day male    4 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering    11 central nervous system, larvae L3    17 central nervous system, pupae P8  28 head, virgin 1-day female    17 head, virgin 4-day female    16 head, virgin 20-day female    20 head, mated 1-day female    12 head, mated 4-day female    15 head, mated 20-day female    15 head, mated 1-day male    17 head, mated 4-day male    24 head, mated 20-day male  26 salivary gland, larvae L3 wandering    5 salivary gland, white prepupae    7 digestive system, larvae L3 wandering  29 digestive system, 1-day adult    16 digestive system, 4-day adult    10 digestive system, 20-day adult    15 fat body, larvae L3 wandering    4 fat body, white prepupae    9 fat body, pupae P8    12 carcass, larvae L3 wandering    11 carcass, 1-day adult    18 carcass, 4-day adult    15 carcass, 20-day adult    13 ovary, virgin 4-day female  27 ovary, mated 4-day female    14 testis, mated 4-day male    4 accessory gland, mated 4-day male    4 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    11 central nervous system, larvae L3    17 central nervous system, pupae P8    28 head, virgin 1-day female    17 head, virgin 4-day female    16 head, virgin 20-day female    20 head, mated 1-day female    12 head, mated 4-day female    15 head, mated 20-day female    15 head, mated 1-day male    17 head, mated 4-day male    24 head, mated 20-day male    26 salivary gland, larvae L3 wandering    5 salivary gland, white prepupae    7 digestive system, larvae L3 wandering    29 digestive system, 1-day adult    16 digestive system, 4-day adult    10 digestive system, 20-day adult    15 fat body, larvae L3 wandering    4 fat body, white prepupae    9 fat body, pupae P8    12 carcass, larvae L3 wandering    11 carcass, 1-day adult    18 carcass, 4-day adult    15 carcass, 20-day adult    13 ovary, virgin 4-day female    27 ovary, mated 4-day female    14 testis, mated 4-day male    4 accessory gland, mated 4-day male    4 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Extremely high expression Tissue   Expression Level imaginal disc, larvae L3 wandering    11 central nervous system, larvae L3    17 central nervous system, pupae P8    28 head, virgin 1-day female    17 head, virgin 4-day female    16 head, virgin 20-day female    20 head, mated 1-day female    12 head, mated 4-day female    15 head, mated 20-day female    15 head, mated 1-day male    17 head, mated 4-day male    24 head, mated 20-day male    26 salivary gland, larvae L3 wandering    5 salivary gland, white prepupae    7 digestive system, larvae L3 wandering    29 digestive system, 1-day adult    16 digestive system, 4-day adult    10 digestive system, 20-day adult    15 fat body, larvae L3 wandering    4 fat body, white prepupae    9 fat body, pupae P8    12 carcass, larvae L3 wandering    11 carcass, 1-day adult    18 carcass, 4-day adult    15 carcass, 20-day adult    13 ovary, virgin 4-day female    27 ovary, mated 4-day female    14 testis, mated 4-day male    4 accessory gland, mated 4-day male    4 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  Heatmap Tissue   Expression Level imaginal disc, larvae L3 wandering     central nervous system, larvae L3     central nervous system, pupae P8     head, virgin 1-day female     head, virgin 4-day female     head, virgin 20-day female     head, mated 1-day female     head, mated 4-day female     head, mated 20-day female     head, mated 1-day male     head, mated 4-day male     head, mated 20-day male     salivary gland, larvae L3 wandering     salivary gland, white prepupae     digestive system, larvae L3 wandering     digestive system, 1-day adult     digestive system, 4-day adult     digestive system, 20-day adult     fat body, larvae L3 wandering     fat body, white prepupae     fat body, pupae P8     carcass, larvae L3 wandering     carcass, 1-day adult     carcass, 4-day adult     carcass, 20-day adult     ovary, virgin 4-day female     ovary, mated 4-day female     testis, mated 4-day male     accessory gland, mated 4-day male
modENCODE Development RNA-Seq
modENCODE Temporal Expression Data (modENCODE_mRNA-Seq_U)    Styles Linear Logarithmic Heatmap    Scales gene max expression Moderate expression bin max High expression bin max Extremely high expression bin max Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of moderate expression. Peak expression observed at stages throughout embryogenesis, during late larval stages, at stages throughout the pupal period, in stages of adults of both sexes. [download data (TSV)] Guide to modENCODE expression level colors   No/Extremely low expression (0 - 0)   Very low expression (1 - 3)   Low expression (4 - 10)   Moderate expression (11 - 25)   Moderately high expression (26 - 50)   High expression (51 - 100)   Very high expression (101 - 1000)   Extremely high expression (>1000) Linear, scaled to maximum expression level Developmental Stage   Expression Level embryo 00-02hr    22 embryo 02-04hr    19 embryo 04-06hr    43 embryo 06-08hr    26 embryo 08-10hr    18 embryo 10-12hr    17 embryo 12-14hr    19 embryo 14-16hr    17 embryo 16-18hr    21 embryo 18-20hr    16 embryo 20-22hr    13 embryo 22-24hr    17 larva L1    12 larva L2    8 larva L3 12hr old    8 larva L3 puffstage 1-2    17 larva L3 puffstage 3-6    21 larva L3 puffstage 7-9    27 white prepupae new    26 white prepupae 12hr    20 white prepupae 24hr    16 pupae 2d postWPP    22 pupae 3d postWPP    21 pupae 4d postWPP    17 adult male 01day    24 adult male 05day    18 adult male 30day    16 adult female 01day    22 adult female 05day    21 adult female 30day    20 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    22 embryo 02-04hr    19 embryo 04-06hr  (43) embryo 06-08hr  26 embryo 08-10hr    18 embryo 10-12hr    17 embryo 12-14hr    19 embryo 14-16hr    17 embryo 16-18hr    21 embryo 18-20hr    16 embryo 20-22hr    13 embryo 22-24hr    17 larva L1    12 larva L2    8 larva L3 12hr old    8 larva L3 puffstage 1-2    17 larva L3 puffstage 3-6    21 larva L3 puffstage 7-9  (27) white prepupae new  26 white prepupae 12hr    20 white prepupae 24hr    16 pupae 2d postWPP    22 pupae 3d postWPP    21 pupae 4d postWPP    17 adult male 01day    24 adult male 05day    18 adult male 30day    16 adult female 01day    22 adult female 05day    21 adult female 30day    20 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    22 embryo 02-04hr    19 embryo 04-06hr    43 embryo 06-08hr    26 embryo 08-10hr    18 embryo 10-12hr    17 embryo 12-14hr    19 embryo 14-16hr    17 embryo 16-18hr    21 embryo 18-20hr    16 embryo 20-22hr    13 embryo 22-24hr    17 larva L1    12 larva L2    8 larva L3 12hr old    8 larva L3 puffstage 1-2    17 larva L3 puffstage 3-6    21 larva L3 puffstage 7-9    27 white prepupae new    26 white prepupae 12hr    20 white prepupae 24hr    16 pupae 2d postWPP    22 pupae 3d postWPP    21 pupae 4d postWPP    17 adult male 01day    24 adult male 05day    18 adult male 30day    16 adult female 01day    22 adult female 05day    21 adult female 30day    20 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Extremely high expression Developmental Stage   Expression Level embryo 00-02hr    22 embryo 02-04hr    19 embryo 04-06hr    43 embryo 06-08hr    26 embryo 08-10hr    18 embryo 10-12hr    17 embryo 12-14hr    19 embryo 14-16hr    17 embryo 16-18hr    21 embryo 18-20hr    16 embryo 20-22hr    13 embryo 22-24hr    17 larva L1    12 larva L2    8 larva L3 12hr old    8 larva L3 puffstage 1-2    17 larva L3 puffstage 3-6    21 larva L3 puffstage 7-9    27 white prepupae new    26 white prepupae 12hr    20 white prepupae 24hr    16 pupae 2d postWPP    22 pupae 3d postWPP    21 pupae 4d postWPP    17 adult male 01day    24 adult male 05day    18 adult male 30day    16 adult female 01day    22 adult female 05day    21 adult female 30day    20 Expression Level Scale  Extremely high  log, scaled to maximum expression level Developmental Stage   Expression Level embryo 00-02hr    22 embryo 02-04hr    19 embryo 04-06hr    43 embryo 06-08hr    26 embryo 08-10hr    18 embryo 10-12hr    17 embryo 12-14hr    19 embryo 14-16hr    17 embryo 16-18hr    21 embryo 18-20hr    16 embryo 20-22hr    13 embryo 22-24hr    17 larva L1    12 larva L2    8 larva L3 12hr old    8 larva L3 puffstage 1-2    17 larva L3 puffstage 3-6    21 larva L3 puffstage 7-9    27 white prepupae new    26 white prepupae 12hr    20 white prepupae 24hr    16 pupae 2d postWPP    22 pupae 3d postWPP    21 pupae 4d postWPP    17 adult male 01day    24 adult male 05day    18 adult male 30day    16 adult female 01day    22 adult female 05day    21 adult female 30day    20 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  log, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    22 embryo 02-04hr    19 embryo 04-06hr  (43) embryo 06-08hr  26 embryo 08-10hr    18 embryo 10-12hr    17 embryo 12-14hr    19 embryo 14-16hr    17 embryo 16-18hr    21 embryo 18-20hr    16 embryo 20-22hr    13 embryo 22-24hr    17 larva L1    12 larva L2    8 larva L3 12hr old    8 larva L3 puffstage 1-2    17 larva L3 puffstage 3-6    21 larva L3 puffstage 7-9  27 white prepupae new  26 white prepupae 12hr    20 white prepupae 24hr    16 pupae 2d postWPP    22 pupae 3d postWPP    21 pupae 4d postWPP    17 adult male 01day    24 adult male 05day    18 adult male 30day    16 adult female 01day    22 adult female 05day    21 adult female 30day    20 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    22 embryo 02-04hr    19 embryo 04-06hr    43 embryo 06-08hr    26 embryo 08-10hr    18 embryo 10-12hr    17 embryo 12-14hr    19 embryo 14-16hr    17 embryo 16-18hr    21 embryo 18-20hr    16 embryo 20-22hr    13 embryo 22-24hr    17 larva L1    12 larva L2    8 larva L3 12hr old    8 larva L3 puffstage 1-2    17 larva L3 puffstage 3-6    21 larva L3 puffstage 7-9    27 white prepupae new    26 white prepupae 12hr    20 white prepupae 24hr    16 pupae 2d postWPP    22 pupae 3d postWPP    21 pupae 4d postWPP    17 adult male 01day    24 adult male 05day    18 adult male 30day    16 adult female 01day    22 adult female 05day    21 adult female 30day    20 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Extremely high expression Developmental Stage   Expression Level embryo 00-02hr    22 embryo 02-04hr    19 embryo 04-06hr    43 embryo 06-08hr    26 embryo 08-10hr    18 embryo 10-12hr    17 embryo 12-14hr    19 embryo 14-16hr    17 embryo 16-18hr    21 embryo 18-20hr    16 embryo 20-22hr    13 embryo 22-24hr    17 larva L1    12 larva L2    8 larva L3 12hr old    8 larva L3 puffstage 1-2    17 larva L3 puffstage 3-6    21 larva L3 puffstage 7-9    27 white prepupae new    26 white prepupae 12hr    20 white prepupae 24hr    16 pupae 2d postWPP    22 pupae 3d postWPP    21 pupae 4d postWPP    17 adult male 01day    24 adult male 05day    18 adult male 30day    16 adult female 01day    22 adult female 05day    21 adult female 30day    20 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  Heatmap Developmental Stage   Expression Level embryo 00-02hr     embryo 02-04hr     embryo 04-06hr     embryo 06-08hr     embryo 08-10hr     embryo 10-12hr     embryo 12-14hr     embryo 14-16hr     embryo 16-18hr     embryo 18-20hr     embryo 20-22hr     embryo 22-24hr     larva L1     larva L2     larva L3 12hr old     larva L3 puffstage 1-2     larva L3 puffstage 3-6     larva L3 puffstage 7-9     white prepupae new     white prepupae 12hr     white prepupae 24hr     pupae 2d postWPP     pupae 3d postWPP     pupae 4d postWPP     adult male 01day     adult male 05day     adult male 30day     adult female 01day     adult female 05day     adult female 30day     modENCODE Temporal Expression Data (Graveley et al., 2011)
modENCODE Cell Lines RNA-Seq
modENCODE Cell Line Expression Data (modENCODE_mRNA-Seq_cell.A) (modENCODE_mRNA-Seq_cell.B)    Styles Linear Logarithmic Heatmap    Scales gene max expression Moderate expression bin max High expression bin max Extremely high expression bin max [download data (TSV)] Guide to modENCODE expression level colors   No/Extremely low expression (0 - 0)   Very low expression (1 - 3)   Low expression (4 - 10)   Moderate expression (11 - 25)   Moderately high expression (26 - 50)   High expression (51 - 100)   Very high expression (101 - 1000)   Extremely high expression (>1000) Linear, scaled to maximum expression level Cell Line   Expression Level Schneider line 2 S2R+    37 Schneider line 2 Sg4    21 embryonic 1182-4H    22 embryonic GM2    64 embryonic Kc167    30 embryonic S1    23 embryonic S3    36 leg disc CME L1    15 wing disc CME-W2    34 wing disc ML-DmD8    25 wing disc ML-DmD9    17 wing disc ML-DmD16-c3    17 wing disc ML-DmD21    18 wing disc ML-DmD32    16 haltere disc ML-DmD17-c3    34 eye-antennal disc ML-DmD11    15 antennal disc ML-DmD20-c5    23 mixed discs ML-DmD4-c1    27 CNS ML-DmBG1-c1    17 CNS ML-DmBG2-c2    35 tumorous blood cells mbn2    62 ovary fGS/OSS    15 ovary OSC    14 ovary OSS    6 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  Linear, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+  (37) Schneider line 2 Sg4    21 embryonic 1182-4H    22 embryonic GM2  (64) embryonic Kc167  (30) embryonic S1    23 embryonic S3  (36) leg disc CME L1    15 wing disc CME-W2  (34) wing disc ML-DmD8    25 wing disc ML-DmD9    17 wing disc ML-DmD16-c3    17 wing disc ML-DmD21    18 wing disc ML-DmD32    16 haltere disc ML-DmD17-c3  (34) eye-antennal disc ML-DmD11    15 antennal disc ML-DmD20-c5    23 mixed discs ML-DmD4-c1  (27) CNS ML-DmBG1-c1    17 CNS ML-DmBG2-c2  (35) tumorous blood cells mbn2  (62) ovary fGS/OSS    15 ovary OSC    14 ovary OSS    6 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    37 Schneider line 2 Sg4    21 embryonic 1182-4H    22 embryonic GM2    64 embryonic Kc167    30 embryonic S1    23 embryonic S3    36 leg disc CME L1    15 wing disc CME-W2    34 wing disc ML-DmD8    25 wing disc ML-DmD9    17 wing disc ML-DmD16-c3    17 wing disc ML-DmD21    18 wing disc ML-DmD32    16 haltere disc ML-DmD17-c3    34 eye-antennal disc ML-DmD11    15 antennal disc ML-DmD20-c5    23 mixed discs ML-DmD4-c1    27 CNS ML-DmBG1-c1    17 CNS ML-DmBG2-c2    35 tumorous blood cells mbn2    62 ovary fGS/OSS    15 ovary OSC    14 ovary OSS    6 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+    37 Schneider line 2 Sg4    21 embryonic 1182-4H    22 embryonic GM2    64 embryonic Kc167    30 embryonic S1    23 embryonic S3    36 leg disc CME L1    15 wing disc CME-W2    34 wing disc ML-DmD8    25 wing disc ML-DmD9    17 wing disc ML-DmD16-c3    17 wing disc ML-DmD21    18 wing disc ML-DmD32    16 haltere disc ML-DmD17-c3    34 eye-antennal disc ML-DmD11    15 antennal disc ML-DmD20-c5    23 mixed discs ML-DmD4-c1    27 CNS ML-DmBG1-c1    17 CNS ML-DmBG2-c2    35 tumorous blood cells mbn2    62 ovary fGS/OSS    15 ovary OSC    14 ovary OSS    6 Expression Level Scale  Extremely high  log, scaled to maximum expression level Cell Line   Expression Level Schneider line 2 S2R+    37 Schneider line 2 Sg4    21 embryonic 1182-4H    22 embryonic GM2    64 embryonic Kc167    30 embryonic S1    23 embryonic S3    36 leg disc CME L1    15 wing disc CME-W2    34 wing disc ML-DmD8    25 wing disc ML-DmD9    17 wing disc ML-DmD16-c3    17 wing disc ML-DmD21    18 wing disc ML-DmD32    16 haltere disc ML-DmD17-c3    34 eye-antennal disc ML-DmD11    15 antennal disc ML-DmD20-c5    23 mixed discs ML-DmD4-c1    27 CNS ML-DmBG1-c1    17 CNS ML-DmBG2-c2    35 tumorous blood cells mbn2    62 ovary fGS/OSS    15 ovary OSC    14 ovary OSS    6 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  log, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+  (37) Schneider line 2 Sg4    21 embryonic 1182-4H    22 embryonic GM2  (64) embryonic Kc167  30 embryonic S1    23 embryonic S3  (36) leg disc CME L1    15 wing disc CME-W2  (34) wing disc ML-DmD8    25 wing disc ML-DmD9    17 wing disc ML-DmD16-c3    17 wing disc ML-DmD21    18 wing disc ML-DmD32    16 haltere disc ML-DmD17-c3  (34) eye-antennal disc ML-DmD11    15 antennal disc ML-DmD20-c5    23 mixed discs ML-DmD4-c1  27 CNS ML-DmBG1-c1    17 CNS ML-DmBG2-c2  (35) tumorous blood cells mbn2  (62) ovary fGS/OSS    15 ovary OSC    14 ovary OSS    6 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    37 Schneider line 2 Sg4    21 embryonic 1182-4H    22 embryonic GM2    64 embryonic Kc167    30 embryonic S1    23 embryonic S3    36 leg disc CME L1    15 wing disc CME-W2    34 wing disc ML-DmD8    25 wing disc ML-DmD9    17 wing disc ML-DmD16-c3    17 wing disc ML-DmD21    18 wing disc ML-DmD32    16 haltere disc ML-DmD17-c3    34 eye-antennal disc ML-DmD11    15 antennal disc ML-DmD20-c5    23 mixed discs ML-DmD4-c1    27 CNS ML-DmBG1-c1    17 CNS ML-DmBG2-c2    35 tumorous blood cells mbn2    62 ovary fGS/OSS    15 ovary OSC    14 ovary OSS    6 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+    37 Schneider line 2 Sg4    21 embryonic 1182-4H    22 embryonic GM2    64 embryonic Kc167    30 embryonic S1    23 embryonic S3    36 leg disc CME L1    15 wing disc CME-W2    34 wing disc ML-DmD8    25 wing disc ML-DmD9    17 wing disc ML-DmD16-c3    17 wing disc ML-DmD21    18 wing disc ML-DmD32    16 haltere disc ML-DmD17-c3    34 eye-antennal disc ML-DmD11    15 antennal disc ML-DmD20-c5    23 mixed discs ML-DmD4-c1    27 CNS ML-DmBG1-c1    17 CNS ML-DmBG2-c2    35 tumorous blood cells mbn2    62 ovary fGS/OSS    15 ovary OSC    14 ovary OSS    6 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    6 cold shock, 4-day adult    4 heat shock, 4-day adult    9 Cadmium 50 mM 6 hrs, larvae L3    10 Cadmium 50 mM 12 hrs, larvae L3    19 Cadmium 50 mM 48 hrs, 4-day adult    10 Cadmium 100 mM 48 hrs, 4-day adult    18 Copper 0.5 mM 12 hrs, larvae L3    5 Copper 15 mM 48 hrs, 4-day adult    30 Zinc 5 mM 12 hrs, larvae L3    5 Zinc 4.5 mM 48 hrs, 4-day adult    18 Ethanol 2.5% 3 hrs, larvae L3    15 Ethanol 5% 3 hrs, larvae L3    16 Ethanol 10% 3 hrs, larvae L3    9 Caffeine 1.5 mg/ml 4 hrs, larvae L3    17 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    21 Caffeine 25 mg/ml 48 hrs, 4-day adult    7 Paraquat 5 mM 48 hrs, 4-day adult    18 Paraquat 10 mM 48 hrs, 4-day adult    14 Rotenone 2 μg 12 hrs, larvae L3    15 Rotenone 8 μg 12 hrs, larvae L3    8 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    6 cold shock, 4-day adult    4 heat shock, 4-day adult    9 Cadmium 50 mM 6 hrs, larvae L3    10 Cadmium 50 mM 12 hrs, larvae L3    19 Cadmium 50 mM 48 hrs, 4-day adult    10 Cadmium 100 mM 48 hrs, 4-day adult    18 Copper 0.5 mM 12 hrs, larvae L3    5 Copper 15 mM 48 hrs, 4-day adult  (30) Zinc 5 mM 12 hrs, larvae L3    5 Zinc 4.5 mM 48 hrs, 4-day adult    18 Ethanol 2.5% 3 hrs, larvae L3    15 Ethanol 5% 3 hrs, larvae L3    16 Ethanol 10% 3 hrs, larvae L3    9 Caffeine 1.5 mg/ml 4 hrs, larvae L3    17 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    21 Caffeine 25 mg/ml 48 hrs, 4-day adult    7 Paraquat 5 mM 48 hrs, 4-day adult    18 Paraquat 10 mM 48 hrs, 4-day adult    14 Rotenone 2 μg 12 hrs, larvae L3    15 Rotenone 8 μg 12 hrs, larvae L3    8 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    6 cold shock, 4-day adult    4 heat shock, 4-day adult    9 Cadmium 50 mM 6 hrs, larvae L3    10 Cadmium 50 mM 12 hrs, larvae L3    19 Cadmium 50 mM 48 hrs, 4-day adult    10 Cadmium 100 mM 48 hrs, 4-day adult    18 Copper 0.5 mM 12 hrs, larvae L3    5 Copper 15 mM 48 hrs, 4-day adult    30 Zinc 5 mM 12 hrs, larvae L3    5 Zinc 4.5 mM 48 hrs, 4-day adult    18 Ethanol 2.5% 3 hrs, larvae L3    15 Ethanol 5% 3 hrs, larvae L3    16 Ethanol 10% 3 hrs, larvae L3    9 Caffeine 1.5 mg/ml 4 hrs, larvae L3    17 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    21 Caffeine 25 mg/ml 48 hrs, 4-day adult    7 Paraquat 5 mM 48 hrs, 4-day adult    18 Paraquat 10 mM 48 hrs, 4-day adult    14 Rotenone 2 μg 12 hrs, larvae L3    15 Rotenone 8 μg 12 hrs, larvae L3    8 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Extremely high expression Treatment   Expression Level extended cold, 4-day adult    6 cold shock, 4-day adult    4 heat shock, 4-day adult    9 Cadmium 50 mM 6 hrs, larvae L3    10 Cadmium 50 mM 12 hrs, larvae L3    19 Cadmium 50 mM 48 hrs, 4-day adult    10 Cadmium 100 mM 48 hrs, 4-day adult    18 Copper 0.5 mM 12 hrs, larvae L3    5 Copper 15 mM 48 hrs, 4-day adult    30 Zinc 5 mM 12 hrs, larvae L3    5 Zinc 4.5 mM 48 hrs, 4-day adult    18 Ethanol 2.5% 3 hrs, larvae L3    15 Ethanol 5% 3 hrs, larvae L3    16 Ethanol 10% 3 hrs, larvae L3    9 Caffeine 1.5 mg/ml 4 hrs, larvae L3    17 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    21 Caffeine 25 mg/ml 48 hrs, 4-day adult    7 Paraquat 5 mM 48 hrs, 4-day adult    18 Paraquat 10 mM 48 hrs, 4-day adult    14 Rotenone 2 μg 12 hrs, larvae L3    15 Rotenone 8 μg 12 hrs, larvae L3    8 Expression Level Scale  Extremely high  log, scaled to maximum expression level Treatment   Expression Level extended cold, 4-day adult    6 cold shock, 4-day adult    4 heat shock, 4-day adult    9 Cadmium 50 mM 6 hrs, larvae L3    10 Cadmium 50 mM 12 hrs, larvae L3    19 Cadmium 50 mM 48 hrs, 4-day adult    10 Cadmium 100 mM 48 hrs, 4-day adult    18 Copper 0.5 mM 12 hrs, larvae L3    5 Copper 15 mM 48 hrs, 4-day adult    30 Zinc 5 mM 12 hrs, larvae L3    5 Zinc 4.5 mM 48 hrs, 4-day adult    18 Ethanol 2.5% 3 hrs, larvae L3    15 Ethanol 5% 3 hrs, larvae L3    16 Ethanol 10% 3 hrs, larvae L3    9 Caffeine 1.5 mg/ml 4 hrs, larvae L3    17 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    21 Caffeine 25 mg/ml 48 hrs, 4-day adult    7 Paraquat 5 mM 48 hrs, 4-day adult    18 Paraquat 10 mM 48 hrs, 4-day adult    14 Rotenone 2 μg 12 hrs, larvae L3    15 Rotenone 8 μg 12 hrs, larvae L3    8 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    6 cold shock, 4-day adult    4 heat shock, 4-day adult    9 Cadmium 50 mM 6 hrs, larvae L3    10 Cadmium 50 mM 12 hrs, larvae L3    19 Cadmium 50 mM 48 hrs, 4-day adult    10 Cadmium 100 mM 48 hrs, 4-day adult    18 Copper 0.5 mM 12 hrs, larvae L3    5 Copper 15 mM 48 hrs, 4-day adult  30 Zinc 5 mM 12 hrs, larvae L3    5 Zinc 4.5 mM 48 hrs, 4-day adult    18 Ethanol 2.5% 3 hrs, larvae L3    15 Ethanol 5% 3 hrs, larvae L3    16 Ethanol 10% 3 hrs, larvae L3    9 Caffeine 1.5 mg/ml 4 hrs, larvae L3    17 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    21 Caffeine 25 mg/ml 48 hrs, 4-day adult    7 Paraquat 5 mM 48 hrs, 4-day adult    18 Paraquat 10 mM 48 hrs, 4-day adult    14 Rotenone 2 μg 12 hrs, larvae L3    15 Rotenone 8 μg 12 hrs, larvae L3    8 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    6 cold shock, 4-day adult    4 heat shock, 4-day adult    9 Cadmium 50 mM 6 hrs, larvae L3    10 Cadmium 50 mM 12 hrs, larvae L3    19 Cadmium 50 mM 48 hrs, 4-day adult    10 Cadmium 100 mM 48 hrs, 4-day adult    18 Copper 0.5 mM 12 hrs, larvae L3    5 Copper 15 mM 48 hrs, 4-day adult    30 Zinc 5 mM 12 hrs, larvae L3    5 Zinc 4.5 mM 48 hrs, 4-day adult    18 Ethanol 2.5% 3 hrs, larvae L3    15 Ethanol 5% 3 hrs, larvae L3    16 Ethanol 10% 3 hrs, larvae L3    9 Caffeine 1.5 mg/ml 4 hrs, larvae L3    17 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    21 Caffeine 25 mg/ml 48 hrs, 4-day adult    7 Paraquat 5 mM 48 hrs, 4-day adult    18 Paraquat 10 mM 48 hrs, 4-day adult    14 Rotenone 2 μg 12 hrs, larvae L3    15 Rotenone 8 μg 12 hrs, larvae L3    8 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Extremely high expression Treatment   Expression Level extended cold, 4-day adult    6 cold shock, 4-day adult    4 heat shock, 4-day adult    9 Cadmium 50 mM 6 hrs, larvae L3    10 Cadmium 50 mM 12 hrs, larvae L3    19 Cadmium 50 mM 48 hrs, 4-day adult    10 Cadmium 100 mM 48 hrs, 4-day adult    18 Copper 0.5 mM 12 hrs, larvae L3    5 Copper 15 mM 48 hrs, 4-day adult    30 Zinc 5 mM 12 hrs, larvae L3    5 Zinc 4.5 mM 48 hrs, 4-day adult    18 Ethanol 2.5% 3 hrs, larvae L3    15 Ethanol 5% 3 hrs, larvae L3    16 Ethanol 10% 3 hrs, larvae L3    9 Caffeine 1.5 mg/ml 4 hrs, larvae L3    17 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    21 Caffeine 25 mg/ml 48 hrs, 4-day adult    7 Paraquat 5 mM 48 hrs, 4-day adult    18 Paraquat 10 mM 48 hrs, 4-day adult    14 Rotenone 2 μg 12 hrs, larvae L3    15 Rotenone 8 μg 12 hrs, larvae L3    8 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  Heatmap Treatment   Expression Level extended cold, 4-day adult     cold shock, 4-day adult     heat shock, 4-day adult     Cadmium 50 mM 6 hrs, larvae L3     Cadmium 50 mM 12 hrs, larvae L3     Cadmium 50 mM 48 hrs, 4-day adult     Cadmium 100 mM 48 hrs, 4-day adult     Copper 0.5 mM 12 hrs, larvae L3     Copper 15 mM 48 hrs, 4-day adult     Zinc 5 mM 12 hrs, larvae L3     Zinc 4.5 mM 48 hrs, 4-day adult     Ethanol 2.5% 3 hrs, larvae L3     Ethanol 5% 3 hrs, larvae L3     Ethanol 10% 3 hrs, larvae L3     Caffeine 1.5 mg/ml 4 hrs, larvae L3     Caffeine 2.5 mg/ml 48 hrs, 4-day adult     Caffeine 25 mg/ml 48 hrs, 4-day adult     Paraquat 5 mM 48 hrs, 4-day adult     Paraquat 10 mM 48 hrs, 4-day adult     Rotenone 2 μg 12 hrs, larvae L3     Rotenone 8 μg 12 hrs, larvae L3
Expression Clusters
	A cluster of genes with similar mRNA expression dynamics across development. (The modENCODE Consortium, 2010, Graveley et al., 2011) mE2_34_mRNA_expression_cluster_27 mE1_20_mRNA_expression_cluster_09
External Data & Images
Linkouts	BDGP expression data • FI07418 RE37651 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0029959 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG12156-RA
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele viable, with Scer\GAL4pnr-MD237 Rab39GD7507 Other Phenotypes Allele visible, with Scer\GAL4pnr-MD237 Rab39GD7507 Phenotype manifest in Allele mesothoracic tergum, with Scer\GAL4pnr-MD237 Rab39GD7507
Classical Alleles ( 1 )
For All Classical Alleles Show
Allele of Rab39 Class Mutagen Stocks Known lesion Rab39GG01805 P-element activity 1 --
Alleles Carried on Transgenic Constructs ( 6 )
For All Alleles Carried on Transgenic Constructs Show
Allele of Rab39 Class Mutagen Stocks Known lesion Rab39GD7507 in vitro construct - RNAi in vitro construct - regulatory fusion 2 Yes Rab39Q69L.Scer\UAS.P\T.T:Avic\GFP-YFP in vitro construct - amino acid replacement in vitro construct - regulatory fusion in vitro construct - coding region fusion 2 Yes Rab39S23N.Scer\UAS.T:Avic\GFP-YFP in vitro construct - amino acid replacement in vitro construct - regulatory fusion in vitro construct - coding region fusion 2 Yes Rab39JF01973 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes Rab39Scer\UAS.P\T.T:Avic\GFP-YFP in vitro construct - regulatory fusion in vitro construct - coding region fusion 1 Yes Rab39NIG.12156R in vitro construct - RNAi in vitro construct - regulatory fusion 0 Yes
Aneuploid Aberrations
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{GD7507} NA P{NIG.12156R} NA P{TRiP.JF01973} NA P{UASp-YFP.Rab39.Q69L} NA P{UASp-YFP.Rab39} NA P{UAST-YFP.Rab39.S23N} NA GAL4 construct PBac{I-SceI(FRT.Rab39-GAL4.ATG(loxP.3xP3-RFP))} No
Insertions
	Type of insertions Name Expression data insertion of mobile activating element P{Mae-UAS.6.11}Rab39GG01805 NA
Gene Ontology: Function, Process & Cellular Component ( 7 unique terms )
Terms Based on Experimental Evidence ( 2 terms )
Molecular Function ( 0 terms)
Biological Process ( 0 terms)
Cellular Component
CV term Evidence References
neuronal cell body inferred from direct assay (Chan et al., 2011, Jin et al., 2012) synapse inferred from direct assay (Jin et al., 2012)
Terms Based on Predictions or Assertions ( 5 terms )
Molecular Function
CV term Evidence References
GTPase activity inferred from sequence or structural similarity (Armstrong, 2000) GTP binding inferred from sequence or structural similarity with UniProtKB:P53994 (FlyBase, 1992-)
Biological Process
CV term Evidence References
protein transport inferred from electronic annotation with InterPro:IPR003579 (FlyBase Curators et al., 2004-) small GTPase mediated signal transduction inferred from electronic annotation with InterPro:IPR001806, InterPro:IPR003579 (FlyBase Curators et al., 2004-)
Cellular Component
CV term Evidence References
vesicle inferred from sequence or structural similarity with Rab11 (Curators, 2008--)
Sequence Ontology: Class of Gene
	nuclear_gene   protein_coding_gene
Interactions & Pathways
Summary of Physical Interactions
protein-protein
Interacting group Assay References
Rab39 - CG10934 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rab39 - CG1907 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rab39 - CG8368 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rab39 - Mpcp experimental knowledge based (Guruharsha et al., 2011) Rab39 - Optix anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rab39 - Sac1 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rab39 - Socs44A anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rab39 - colt anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Rab39 - ine anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23)
Summary of Genetic Interactions
Interacts with	Please look at the allele data for full details of the genetic interactions Rab39 allele Gene References
External Data
Linkouts	DroID - A comprehensive database of gene and protein interactions. • FBgn0029959 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 31684
Orthologs
OrthoDB Orthologs (45) - 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 EOG6PRTB0 Dipteran inclusive ortholog search EOG6BK5CW Insect inclusive ortholog search EOG6KSNFX Arthropod inclusive ortholog search EOG6F1VK6 Metazoa inclusive ortholog search EOG693GCB
Orthologs in Drosophila Species (EOG6PRTB0)
Organism Common Name Gene AAA Syntenic Ortholog Multiple Dmel Genes in this Orthologous Group Drosophila melanogaster fruit fly  Dmel\Rab39     Drosophila simulans   Dsim\GD16855 Y   Drosophila sechellia   Dsec\GM17535 Y   Drosophila erecta   Dere\GG19656 Y   Drosophila yakuba   Dyak\GE15730 Y   Drosophila ananassae   Dana\GF21025 Y   Drosophila pseudoobscura pseudoobscura   Dpse\GA11442 Y   Drosophila persimilis   Dper\GL14723 Y   Drosophila willistoni   Dwil\GK25784 Y   Drosophila virilis   Dvir\GJ15895 Y   Drosophila mojavensis   Dmoj\GI16205 Y   Drosophila grimshawi   Dgri\GH12582 Y
Orthologs in non-Drosophila Dipterans (EOG6BK5CW)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Aedes aegypti Yellow fever mosquito  Aaeg\AAEL008959   Anopheles gambiae Malaria mosquito  Agam\AGAP000433   Culex quinquefasciatus Southern house mosquito  Cqui\CPIJ008104
Orthologs in non-Dipteran Insects (EOG6KSNFX)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Apis mellifera Western honey bee  Amel\Rab39   Nasonia vitripennis Parasitic wasp  Nvit\Nasvi2EG014254   Acromyrmex echinatior Panamanian leafcutter ant  Aech\AECH21889   Atta cephalotes Leafcutter ant  Acep\ACEP26678   Camponotus floridanus Florida carpenter ant  Cflo\CFLO17504   Harpegnathos saltator Jerdons jumping ant  Hsal\HSAL16744   Linepithema humile Argentine ant  Lhum\LH19517   Pogonomyrmex barbatus Red harvester ant  Pbar\PB15975   Solenopsis invicta Red fire ant  Sinv\SINV16378   Acyrthosiphon pisum Pea aphid  Apim\ACYPI004401   Bombyx mori Silkmoth  Bmor\BGIBMGA011280   Pediculus humanus Human body louse  Phum\PHUM080090   Tribolium castaneum Red flour beetle  Tcas\TC005229
Orthologs in non-Insect Arthropods (EOG6F1VK6)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Daphnia pulex Water flea  Dpux\JGI_V11_222118   Ixodes scapularis Deer tick  Isca\ISCW020939
Orthologs in non-Arthropod Metazoa (EOG693GCB)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Caenorhabditis elegans Nematode  Cele\rab-39   Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_002252gn   Danio rerio Zebrafish  Drer\CH211-245H7.3   Danio rerio Zebrafish  Drer\rab39b   Danio rerio Zebrafish  Drer\zgc:112009   Danio rerio Zebrafish  Drer\zgc:165464   Xenopus tropicalis Western clawed frog  Xtro\ENSXETG00000032443   Gallus gallus Domestic chicken  Ggal\LOC428212   Gallus gallus Domestic chicken  Ggal\RAB39B   Gallus gallus Domestic chicken  Ggal\RAB39   Mus musculus House mouse  Mmus\Rab39b   Mus musculus House mouse  Mmus\Rab39   Rattus norvegicus Norway rat  Rnor\Rab39_predicted   Homo sapiens Human  Hsap\RAB39A   Homo sapiens Human  Hsap\RAB39B
Human Orthologs (2)
Gene OMIM HGNC Hsap\RAB39A     Hsap\RAB39B
AAA Orthologs (11) based on analysis using Dmel annotation version 4.3
Organism Gene Drosophila simulans Dsim\GD16855 Drosophila sechellia Dsec\GM17535 Drosophila erecta Dere\GG19656 Drosophila yakuba Dyak\GE15730 Drosophila ananassae Dana\GF21025 Drosophila pseudoobscura pseudoobscura Dpse\GA11442 Drosophila persimilis Dper\GL14723 Drosophila willistoni Dwil\GK25784 Drosophila virilis Dvir\GJ15895 Drosophila mojavensis Dmoj\GI16205 Drosophila grimshawi Dgri\GH12582
Stocks & Reagents
Stocks Listed in FlyBase ( 9 )
Bloomington	9825 y1 w*; P{UASp-YFP.Rab39}13 25953 y1 v1; P{TRiP.JF01973}attP2 9822 y1 w* P{UASp-YFP.Rab39.Q69L}02 9823 y1 w*; P{UASp-YFP.Rab39.Q69L}14 23247 y1 w*; P{UAST-YFP.Rab39.S23N}04 9824 y1 w*; P{UAST-YFP.Rab39.S23N}Ir76b05 18353 y1 w67c23 P{Mae-UAS.6.11}Rab39GG01805
VDRC	v31665 w1118; P{GD7507}v31665 v31666 w1118; P{GD7507}v31666/CyO
Genomic Clones ( 1 )
	BACR26L11 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 36 )
	Please Note This section lists cDNAs and ESTs that fall within the genomic extent of the gene model, which may include cDNAs and ESTs of genes within introns, or of overlapping genes. Please see GBrowse for alignment of the cDNAs and ESTs to the gene model.
cDNA Clones, Fully Sequenced
BDGP DGC clones	RE37651
Other clones	FI07418
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	SD25728
Other clones	1313 80013 119067 164784 190147 214313.16 214479.13 bs41g03 CK01.15D.G11 CK01.29D.E8 CK01.121C.B12 CK01.123B.D9 CK01.123B.F6 CK01.145D.A6 Dmel_neb_012587_0360_2125 EC37332 EK015926 EK092840 EK093855 EK093913 EK119835 EK122638 EK212430 EP14559 EP15908 ESG0119c.B21_F09 FGM311D06 GH21792 IP02277 IP02278 IP02279 IP02280 RP001030009
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0029959 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 31684
Antibody Information
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of
Source for database merge of
Additional comments
Other Comments
	dsRNA has been made from templates generated with primers directed against this gene. (Kouranti et al., 2006) dsRNA made from templates generated with primers directed against this gene tested in RNAi screen for effects on Kc167 and S2R+ cell morphology. (Kiger et al., 2003)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_132177 NM_001258639 RefSeq (Proteins) • NP_572405 NP_001245568 DDBJ / EMBL / GenBank • AAF46271 AAL48962 AFH07282 AY071340 BI240737 Entrez Gene - A searchable database of RefSeq genes. • 31684 UniProtKB/TrEMBL • Q8SYS5 Q9W3Q0
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • Small GTPase superfamily (IPR001806) Small GTPase superfamily, Rab type (IPR003579) Small GTP-binding protein domain (IPR005225) P-loop containing nucleoside triphosphate hydrolase (IPR027417) BDGP expression data - Patterns of gene expression in Drosophila embryogenesis • FI07418 RE37651
Linkouts
	DroID - A comprehensive database of gene and protein interactions. • FBgn0029959 DRSC - Results from RNAi screens. • FBgn0029959 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0029959 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG12156-RA FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0029959 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 31684 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 31684 modMine - Data generated by the modENCODE project. • FBgn0029959
Synonyms & Secondary IDs ( 6 )
Reported As
Symbol Synonym	24640395 (Rojas et al., 2012) AAF46271 (Armstrong, 2000) CG12156 (Zhang et al., 2007, Sinka et al., 2008, Perkins et al., 1.15.2009, Colicelli, 2004) DmRab39 (Pereira-Leal and Seabra, 2001, Pereira-Leal and Seabra, 2001) Rab39 (Kouranti et al., 2006, Zhang et al., 2007, Zhang et al., 2007, Sinka et al., 2008, Engström et al., 2007, Japanese National Institute of Genetics, 2012.5.21) rab39 (Chan et al., 2011, Jin et al., 2012)
Name Synonym	Rab39
Secondary FlyBase IDs
References ( 33 )
Generate a list of	All references relating to this gene ( 33 )
List References by type	Research paper  ( 10 ) Supplementary material  ( 8 ) Review  ( 2 ) Personal communication to FlyBase  ( 5 ) FlyBase analysis  ( 2 ) Stock list  ( 2 ) Website  ( 1 ) Curated genome annotation  ( 2 )
Recent research papers ( 3 )
	Jin et al., 2012, PLoS ONE 7(7): e40912 Similarities of Drosophila rab GTPases Based on Expression Profiling: Completion and Analysis of the rab-Gal4 Kit. [FBrf0219021] Chan et al., 2011, Curr. Biol. 21(20): 1704--1715 Systematic discovery of rab GTPases with synaptic functions in Drosophila. [FBrf0216517] Uytterhoeven et al., 2011, Cell 145(1): 117--132 Loss of skywalker reveals synaptic endosomes as sorting stations for synaptic vesicle proteins. [FBrf0213384] Show all research papers ...
Recent reviews (0)
	All reviews listed in FlyBase were published before 2011 Show reviews ...