Gene Dmel\Pde9

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General Information

Symbol

Dmel\Pde9

Species

D. melanogaster

Name

Phosphodiesterase 9

Annotation symbol

CG42276

Feature type

protein_coding_gene

FlyBase ID

FBgn0259171

Gene Model Status

Current

Stock availability

7 publicly available

Also Known As

CG32648

Genomic Location

Chromosome (arm)

Recombination map

Cytogenetic map

11C4-11D1

Sequence location

X:12,679,596..12,790,864 [-]

Genomic Maps

Select View:

Summary Information

Automatically generated summary

See sections below for more information

The gene Phosphodiesterase 9 is referred to in FlyBase by the symbol Dmel\Pde9 (CG42276, FBgn0259171). It is a protein_coding_gene from Drosophila melanogaster. Based on sequence similarity, it is predicted to have molecular function: 3',5'-cyclic-nucleotide phosphodiesterase activity; 3',5'-cyclic-GMP phosphodiesterase activity. There is experimental evidence that it is involved in the biological process: neurogenesis. 8 alleles are reported. The phenotype of these alleles is annotated with: mesothoracic tergum. It has 4 annotated transcripts and 4 annotated polypeptides. Protein features are: 3'5'-cyclic nucleotide phosphodiesterase; 3'5'-cyclic nucleotide phosphodiesterase, catalytic domain; 3'5'-cyclic nucleotide phosphodiesterase, conserved site; HD/PDEase domain. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderate expression to a trough of very low expression. Peak expression observed within 06-24 hour embryonic stages, at stages throughout the larval period, at stages throughout the pupal period, in adult male stages. Summary of FlyAtlas Anatomical Expression Data: Two or more Affy2 ProbeSets identify exons of this gene. This is a summary of the tissue expression peaks exhibited in at least one of these ProbeSets. Expression in all larval and adult organs/tissues ranges from low to undetected. Expression at moderate levels in the following post-embryonic organs or tissues: adult thoracico-abdominal ganglion. Gene sequence location is X:12679596..12790864.

User Contributed Data

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Recent Updates

Description

What does this section display?

This section contains items that were added to this record for each release. It currently only tracks new links between this FlyBase report and other FlyBase data classes (e.g. genes, references, stocks) or controlled vocabulary terms (e.g. GO, anatomy terms).

What does this section not display?

This section does not currently display links that were removed or gene model changes.

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FB2013_03

FB2013_02

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Detailed Mapping Data

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

11C4-11D1

Limits computationally determined from genome sequence between P{EP}EP1461 and P{EP}CG1640^EP1626

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\Pde9 for information on other features

To submit a correction to a gene model please use the Contact FlyBase form

Comments on Gene Model

Stop-codon suppression (UGA) postulated; FBrf0216884.

Gene model reviewed during 5.44

gene_with_stop_codon_read_through ; SO:0000697

Gene model reviewed during 5.40

Low-frequency RNA-Seq exon junction(s) not annotated.

Gene model reviewed during 5.46

Tissue-specific extension of 3' UTRs observed during later stages (FBrf0218523, FBrf0219848); all variants may not be annotated

Gene merge based on EST/cDNA data

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Associated CDS (aa)

Pde9-RB

FBtr0299635

NM_132606

6083

1526

Pde9-RD

FBtr0330395

NM_167340

6083

1623

Pde9-RE

FBtr0333524

NM_001272566

6444

1526

Pde9-RF

FBtr0333525

NM_001272567

11660

1526

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

Pde9-PB

FBpp0288910

162.8

1526

6.14

NP_572834

AAG22348

Pde9-PD

FBpp0303421

173.8

1623

5.45

NP_727644

AAF48205

Pde9-PE

FBpp0305704

162.8

1526

6.14

NP_001259495

AGB95337

Pde9-PF

FBpp0305705

162.8

1526

6.14

NP_001259496

AGB95338

Additional Polypeptide Data & Comments

Reported size (kDa)

Comments

External Data

Linkouts

Crossreferences

InterPro domains - A database of protein families, domains, and functional sites

•

3'5'-cyclic nucleotide phosphodiesterase, catalytic domain (IPR002073)

HD/PDEase domain (IPR003607)

3'5'-cyclic nucleotide phosphodiesterase (IPR023088)

3'5'-cyclic nucleotide phosphodiesterase, conserved site (IPR023174)

Sequences Consistent with the Gene Model

DDBJ /
EMBL /
GenBank

DNA sequence

Protein sequence

Name

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

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

mass spectroscopy

Stage

Tissue/Position (including subcellular localization)

Reference

day 5 of adulthood & male -- day 7 of adulthood & male

spermatozoon

(Wasbrough et al., 2010)

Additional Descriptive Data

Marker for

Subcellular Localization (GO Cellular Component)

CV term

Evidence

References

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

Reference

See Gelbart and Emmert, 2010.10.13 for analysis details and data files for all genes.

FlyAtlas Anatomy Microarray

FlyAtlas Anatomical Expression Data

(FlyAtlas-RNA.adult)

(FlyAtlas-RNA.larva)

	Styles
	Linear
	Logarithmic
	Heatmap
	Back-to-back
	Scales
	gene max expression
	Moderate expression bin max
	High level expression bin max
	Very high expression bin max

Summary of FlyAtlas Anatomical Expression Data: Two or more Affy2 ProbeSets identify exons of this gene. This is a summary of the tissue expression peaks exhibited in at least one of these ProbeSets. Expression in all larval and adult organs/tissues ranges from low to undetected. Expression at moderate levels in the following post-embryonic organs or tissues: adult thoracico-abdominal ganglion.
[download data (TSV)]

Guide to FlyAtlas expression level colors
	No expression (0 - 9.999)
	Low expression (10 - 99.999)
	Moderate expression (100 - 499.999)
	High level expression (500 - 999.999)
	Very high expression (>999.999)

Heatmap
Tissue		Expression Level
Larval Central Nervous System
Larval Midgut
Larval Hindgut
Larval Malpighian Tubules
Larval Fat Body
Larval Salivary Gland
Larval Trachea
Larval Carcass
Adult Head
Adult Eye
Adult Brain
Adult Thoracic-Abdominal Ganglion
Adult Crop
Adult Midgut
Adult Hindgut
Adult Malpighian Tubules
Adult Fat Body
Adult Salivary Gland
Adult Heart
Adult VirginFemale Spermatheca
Adult InseminatedFemale Spermatheca
Adult Ovary
Adult Testis
Adult Male Accessory Gland
Adult Carcass

FlyAtlas Anatomical Expression Data (Chintapalli et al., 2007)

modENCODE Anatomy RNA-Seq

modENCODE Tissue Expression Data

(modENCODE_mRNA-Seq_tissues)

	Styles
	Linear
	Logarithmic
	Heatmap
	Scales
	gene max expression
	Moderate expression bin max
	High expression bin max
	Extremely high expression bin max

[download data (TSV)]

Guide to modENCODE expression level colors
	No/Extremely low expression (0 - 0)
	Very low expression (1 - 3)
	Low expression (4 - 10)
	Moderate expression (11 - 25)
	Moderately high expression (26 - 50)
	High expression (51 - 100)
	Very high expression (101 - 1000)
	Extremely high expression (>1000)

Linear, scaled to maximum expression level
Tissue		Expression Level
imaginal disc, larvae L3 wandering		2
central nervous system, larvae L3		10
central nervous system, pupae P8		37
head, virgin 1-day female		12
head, virgin 4-day female		14
head, virgin 20-day female		5
head, mated 1-day female		15
head, mated 4-day female		12
head, mated 20-day female		6
head, mated 1-day male		17
head, mated 4-day male		21
head, mated 20-day male		15
salivary gland, larvae L3 wandering		0
salivary gland, white prepupae		1
digestive system, larvae L3 wandering		2
digestive system, 1-day adult		2
digestive system, 4-day adult		2
digestive system, 20-day adult		2
fat body, larvae L3 wandering		4
fat body, white prepupae		5
fat body, pupae P8		6
carcass, larvae L3 wandering		2
carcass, 1-day adult		2
carcass, 4-day adult		2
carcass, 20-day adult		2
ovary, virgin 4-day female		0
ovary, mated 4-day female		0
testis, mated 4-day male		1
accessory gland, mated 4-day male		1
Expression Level Scale		Very low Low Moderate Moderately high

Linear, scaled to Moderate expression
Tissue		Expression Level
imaginal disc, larvae L3 wandering		2
central nervous system, larvae L3		10
central nervous system, pupae P8		(37)
head, virgin 1-day female		12
head, virgin 4-day female		14
head, virgin 20-day female		5
head, mated 1-day female		15
head, mated 4-day female		12
head, mated 20-day female		6
head, mated 1-day male		17
head, mated 4-day male		21
head, mated 20-day male		15
salivary gland, larvae L3 wandering		0
salivary gland, white prepupae		1
digestive system, larvae L3 wandering		2
digestive system, 1-day adult		2
digestive system, 4-day adult		2
digestive system, 20-day adult		2
fat body, larvae L3 wandering		4
fat body, white prepupae		5
fat body, pupae P8		6
carcass, larvae L3 wandering		2
carcass, 1-day adult		2
carcass, 4-day adult		2
carcass, 20-day adult		2
ovary, virgin 4-day female		0
ovary, mated 4-day female		0
testis, mated 4-day male		1
accessory gland, mated 4-day male		1
Expression Level Scale		Very low Low Moderate Moderately high

Linear, scaled to High expression
Tissue		Expression Level
imaginal disc, larvae L3 wandering		2
central nervous system, larvae L3		10
central nervous system, pupae P8		37
head, virgin 1-day female		12
head, virgin 4-day female		14
head, virgin 20-day female		5
head, mated 1-day female		15
head, mated 4-day female		12
head, mated 20-day female		6
head, mated 1-day male		17
head, mated 4-day male		21
head, mated 20-day male		15
salivary gland, larvae L3 wandering		0
salivary gland, white prepupae		1
digestive system, larvae L3 wandering		2
digestive system, 1-day adult		2
digestive system, 4-day adult		2
digestive system, 20-day adult		2
fat body, larvae L3 wandering		4
fat body, white prepupae		5
fat body, pupae P8		6
carcass, larvae L3 wandering		2
carcass, 1-day adult		2
carcass, 4-day adult		2
carcass, 20-day adult		2
ovary, virgin 4-day female		0
ovary, mated 4-day female		0
testis, mated 4-day male		1
accessory gland, mated 4-day male		1
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		2
central nervous system, larvae L3		10
central nervous system, pupae P8		37
head, virgin 1-day female		12
head, virgin 4-day female		14
head, virgin 20-day female		5
head, mated 1-day female		15
head, mated 4-day female		12
head, mated 20-day female		6
head, mated 1-day male		17
head, mated 4-day male		21
head, mated 20-day male		15
salivary gland, larvae L3 wandering		0
salivary gland, white prepupae		1
digestive system, larvae L3 wandering		2
digestive system, 1-day adult		2
digestive system, 4-day adult		2
digestive system, 20-day adult		2
fat body, larvae L3 wandering		4
fat body, white prepupae		5
fat body, pupae P8		6
carcass, larvae L3 wandering		2
carcass, 1-day adult		2
carcass, 4-day adult		2
carcass, 20-day adult		2
ovary, virgin 4-day female		0
ovary, mated 4-day female		0
testis, mated 4-day male		1
accessory gland, mated 4-day male		1
Expression Level Scale		Extremely high

log, scaled to maximum expression level
Tissue		Expression Level
imaginal disc, larvae L3 wandering		2
central nervous system, larvae L3		10
central nervous system, pupae P8		37
head, virgin 1-day female		12
head, virgin 4-day female		14
head, virgin 20-day female		5
head, mated 1-day female		15
head, mated 4-day female		12
head, mated 20-day female		6
head, mated 1-day male		17
head, mated 4-day male		21
head, mated 20-day male		15
salivary gland, larvae L3 wandering		0
salivary gland, white prepupae		1
digestive system, larvae L3 wandering		2
digestive system, 1-day adult		2
digestive system, 4-day adult		2
digestive system, 20-day adult		2
fat body, larvae L3 wandering		4
fat body, white prepupae		5
fat body, pupae P8		6
carcass, larvae L3 wandering		2
carcass, 1-day adult		2
carcass, 4-day adult		2
carcass, 20-day adult		2
ovary, virgin 4-day female		0
ovary, mated 4-day female		0
testis, mated 4-day male		1
accessory gland, mated 4-day male		1
Expression Level Scale		Very low Low Moderate Moderately high High

log, scaled to Moderate expression
Tissue		Expression Level
imaginal disc, larvae L3 wandering		2
central nervous system, larvae L3		10
central nervous system, pupae P8		(37)
head, virgin 1-day female		12
head, virgin 4-day female		14
head, virgin 20-day female		5
head, mated 1-day female		15
head, mated 4-day female		12
head, mated 20-day female		6
head, mated 1-day male		17
head, mated 4-day male		21
head, mated 20-day male		15
salivary gland, larvae L3 wandering		0
salivary gland, white prepupae		1
digestive system, larvae L3 wandering		2
digestive system, 1-day adult		2
digestive system, 4-day adult		2
digestive system, 20-day adult		2
fat body, larvae L3 wandering		4
fat body, white prepupae		5
fat body, pupae P8		6
carcass, larvae L3 wandering		2
carcass, 1-day adult		2
carcass, 4-day adult		2
carcass, 20-day adult		2
ovary, virgin 4-day female		0
ovary, mated 4-day female		0
testis, mated 4-day male		1
accessory gland, mated 4-day male		1
Expression Level Scale		Very low Low Moderate Moderately high

log, scaled to High expression
Tissue		Expression Level
imaginal disc, larvae L3 wandering		2
central nervous system, larvae L3		10
central nervous system, pupae P8		37
head, virgin 1-day female		12
head, virgin 4-day female		14
head, virgin 20-day female		5
head, mated 1-day female		15
head, mated 4-day female		12
head, mated 20-day female		6
head, mated 1-day male		17
head, mated 4-day male		21
head, mated 20-day male		15
salivary gland, larvae L3 wandering		0
salivary gland, white prepupae		1
digestive system, larvae L3 wandering		2
digestive system, 1-day adult		2
digestive system, 4-day adult		2
digestive system, 20-day adult		2
fat body, larvae L3 wandering		4
fat body, white prepupae		5
fat body, pupae P8		6
carcass, larvae L3 wandering		2
carcass, 1-day adult		2
carcass, 4-day adult		2
carcass, 20-day adult		2
ovary, virgin 4-day female		0
ovary, mated 4-day female		0
testis, mated 4-day male		1
accessory gland, mated 4-day male		1
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		2
central nervous system, larvae L3		10
central nervous system, pupae P8		37
head, virgin 1-day female		12
head, virgin 4-day female		14
head, virgin 20-day female		5
head, mated 1-day female		15
head, mated 4-day female		12
head, mated 20-day female		6
head, mated 1-day male		17
head, mated 4-day male		21
head, mated 20-day male		15
salivary gland, larvae L3 wandering		0
salivary gland, white prepupae		1
digestive system, larvae L3 wandering		2
digestive system, 1-day adult		2
digestive system, 4-day adult		2
digestive system, 20-day adult		2
fat body, larvae L3 wandering		4
fat body, white prepupae		5
fat body, pupae P8		6
carcass, larvae L3 wandering		2
carcass, 1-day adult		2
carcass, 4-day adult		2
carcass, 20-day adult		2
ovary, virgin 4-day female		0
ovary, mated 4-day female		0
testis, mated 4-day male		1
accessory gland, mated 4-day male		1
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 moderate expression to a trough of very low expression. Peak expression observed within 06-24 hour embryonic stages, at stages throughout the larval period, at stages throughout the pupal period, in adult male stages.
[download data (TSV)]

Guide to modENCODE expression level colors
	No/Extremely low expression (0 - 0)
	Very low expression (1 - 3)
	Low expression (4 - 10)
	Moderate expression (11 - 25)
	Moderately high expression (26 - 50)
	High expression (51 - 100)
	Very high expression (101 - 1000)
	Extremely high expression (>1000)

Linear, scaled to maximum expression level
Developmental Stage		Expression Level
embryo 00-02hr		1
embryo 02-04hr		0
embryo 04-06hr		0
embryo 06-08hr		2
embryo 08-10hr		2
embryo 10-12hr		2
embryo 12-14hr		2
embryo 14-16hr		4
embryo 16-18hr		4
embryo 18-20hr		5
embryo 20-22hr		7
embryo 22-24hr		6
larva L1		5
larva L2		2
larva L3 12hr old		2
larva L3 puffstage 1-2		1
larva L3 puffstage 3-6		3
larva L3 puffstage 7-9		4
white prepupae new		5
white prepupae 12hr		6
white prepupae 24hr		7
pupae 2d postWPP		5
pupae 3d postWPP		4
pupae 4d postWPP		3
adult male 01day		3
adult male 05day		3
adult male 30day		3
adult female 01day		2
adult female 05day		1
adult female 30day		1
Expression Level Scale		Very low Low Moderate

Linear, scaled to Moderate expression
Developmental Stage		Expression Level
embryo 00-02hr		1
embryo 02-04hr		0
embryo 04-06hr		0
embryo 06-08hr		2
embryo 08-10hr		2
embryo 10-12hr		2
embryo 12-14hr		2
embryo 14-16hr		4
embryo 16-18hr		4
embryo 18-20hr		5
embryo 20-22hr		7
embryo 22-24hr		6
larva L1		5
larva L2		2
larva L3 12hr old		2
larva L3 puffstage 1-2		1
larva L3 puffstage 3-6		3
larva L3 puffstage 7-9		4
white prepupae new		5
white prepupae 12hr		6
white prepupae 24hr		7
pupae 2d postWPP		5
pupae 3d postWPP		4
pupae 4d postWPP		3
adult male 01day		3
adult male 05day		3
adult male 30day		3
adult female 01day		2
adult female 05day		1
adult female 30day		1
Expression Level Scale		Very low Low Moderate Moderately high

Linear, scaled to High expression
Developmental Stage		Expression Level
embryo 00-02hr		1
embryo 02-04hr		0
embryo 04-06hr		0
embryo 06-08hr		2
embryo 08-10hr		2
embryo 10-12hr		2
embryo 12-14hr		2
embryo 14-16hr		4
embryo 16-18hr		4
embryo 18-20hr		5
embryo 20-22hr		7
embryo 22-24hr		6
larva L1		5
larva L2		2
larva L3 12hr old		2
larva L3 puffstage 1-2		1
larva L3 puffstage 3-6		3
larva L3 puffstage 7-9		4
white prepupae new		5
white prepupae 12hr		6
white prepupae 24hr		7
pupae 2d postWPP		5
pupae 3d postWPP		4
pupae 4d postWPP		3
adult male 01day		3
adult male 05day		3
adult male 30day		3
adult female 01day		2
adult female 05day		1
adult female 30day		1
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		1
embryo 02-04hr		0
embryo 04-06hr		0
embryo 06-08hr		2
embryo 08-10hr		2
embryo 10-12hr		2
embryo 12-14hr		2
embryo 14-16hr		4
embryo 16-18hr		4
embryo 18-20hr		5
embryo 20-22hr		7
embryo 22-24hr		6
larva L1		5
larva L2		2
larva L3 12hr old		2
larva L3 puffstage 1-2		1
larva L3 puffstage 3-6		3
larva L3 puffstage 7-9		4
white prepupae new		5
white prepupae 12hr		6
white prepupae 24hr		7
pupae 2d postWPP		5
pupae 3d postWPP		4
pupae 4d postWPP		3
adult male 01day		3
adult male 05day		3
adult male 30day		3
adult female 01day		2
adult female 05day		1
adult female 30day		1
Expression Level Scale		Extremely high

log, scaled to maximum expression level
Developmental Stage		Expression Level
embryo 00-02hr		1
embryo 02-04hr		0
embryo 04-06hr		0
embryo 06-08hr		2
embryo 08-10hr		2
embryo 10-12hr		2
embryo 12-14hr		2
embryo 14-16hr		4
embryo 16-18hr		4
embryo 18-20hr		5
embryo 20-22hr		7
embryo 22-24hr		6
larva L1		5
larva L2		2
larva L3 12hr old		2
larva L3 puffstage 1-2		1
larva L3 puffstage 3-6		3
larva L3 puffstage 7-9		4
white prepupae new		5
white prepupae 12hr		6
white prepupae 24hr		7
pupae 2d postWPP		5
pupae 3d postWPP		4
pupae 4d postWPP		3
adult male 01day		3
adult male 05day		3
adult male 30day		3
adult female 01day		2
adult female 05day		1
adult female 30day		1
Expression Level Scale		Very low Low Moderate

log, scaled to Moderate expression
Developmental Stage		Expression Level
embryo 00-02hr		1
embryo 02-04hr		0
embryo 04-06hr		0
embryo 06-08hr		2
embryo 08-10hr		2
embryo 10-12hr		2
embryo 12-14hr		2
embryo 14-16hr		4
embryo 16-18hr		4
embryo 18-20hr		5
embryo 20-22hr		7
embryo 22-24hr		6
larva L1		5
larva L2		2
larva L3 12hr old		2
larva L3 puffstage 1-2		1
larva L3 puffstage 3-6		3
larva L3 puffstage 7-9		4
white prepupae new		5
white prepupae 12hr		6
white prepupae 24hr		7
pupae 2d postWPP		5
pupae 3d postWPP		4
pupae 4d postWPP		3
adult male 01day		3
adult male 05day		3
adult male 30day		3
adult female 01day		2
adult female 05day		1
adult female 30day		1
Expression Level Scale		Very low Low Moderate Moderately high

log, scaled to High expression
Developmental Stage		Expression Level
embryo 00-02hr		1
embryo 02-04hr		0
embryo 04-06hr		0
embryo 06-08hr		2
embryo 08-10hr		2
embryo 10-12hr		2
embryo 12-14hr		2
embryo 14-16hr		4
embryo 16-18hr		4
embryo 18-20hr		5
embryo 20-22hr		7
embryo 22-24hr		6
larva L1		5
larva L2		2
larva L3 12hr old		2
larva L3 puffstage 1-2		1
larva L3 puffstage 3-6		3
larva L3 puffstage 7-9		4
white prepupae new		5
white prepupae 12hr		6
white prepupae 24hr		7
pupae 2d postWPP		5
pupae 3d postWPP		4
pupae 4d postWPP		3
adult male 01day		3
adult male 05day		3
adult male 30day		3
adult female 01day		2
adult female 05day		1
adult female 30day		1
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		1
embryo 02-04hr		0
embryo 04-06hr		0
embryo 06-08hr		2
embryo 08-10hr		2
embryo 10-12hr		2
embryo 12-14hr		2
embryo 14-16hr		4
embryo 16-18hr		4
embryo 18-20hr		5
embryo 20-22hr		7
embryo 22-24hr		6
larva L1		5
larva L2		2
larva L3 12hr old		2
larva L3 puffstage 1-2		1
larva L3 puffstage 3-6		3
larva L3 puffstage 7-9		4
white prepupae new		5
white prepupae 12hr		6
white prepupae 24hr		7
pupae 2d postWPP		5
pupae 3d postWPP		4
pupae 4d postWPP		3
adult male 01day		3
adult male 05day		3
adult male 30day		3
adult female 01day		2
adult female 05day		1
adult female 30day		1
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+		7
Schneider line 2 Sg4		5
embryonic 1182-4H		4
embryonic GM2		9
embryonic Kc167		4
embryonic S1		1
embryonic S3		4
leg disc CME L1		5
wing disc CME-W2		3
wing disc ML-DmD8		4
wing disc ML-DmD9		7
wing disc ML-DmD16-c3		4
wing disc ML-DmD21		6
wing disc ML-DmD32		4
haltere disc ML-DmD17-c3		9
eye-antennal disc ML-DmD11		1
antennal disc ML-DmD20-c5		3
mixed discs ML-DmD4-c1		7
CNS ML-DmBG1-c1		0
CNS ML-DmBG2-c2		2
tumorous blood cells mbn2		5
ovary fGS/OSS		8
ovary OSC		8
ovary OSS		3
Expression Level Scale		Very low Low Moderate

Linear, scaled to Moderate expression
Cell Line		Expression Level
Schneider line 2 S2R+		7
Schneider line 2 Sg4		5
embryonic 1182-4H		4
embryonic GM2		9
embryonic Kc167		4
embryonic S1		1
embryonic S3		4
leg disc CME L1		5
wing disc CME-W2		3
wing disc ML-DmD8		4
wing disc ML-DmD9		7
wing disc ML-DmD16-c3		4
wing disc ML-DmD21		6
wing disc ML-DmD32		4
haltere disc ML-DmD17-c3		9
eye-antennal disc ML-DmD11		1
antennal disc ML-DmD20-c5		3
mixed discs ML-DmD4-c1		7
CNS ML-DmBG1-c1		0
CNS ML-DmBG2-c2		2
tumorous blood cells mbn2		5
ovary fGS/OSS		8
ovary OSC		8
ovary OSS		3
Expression Level Scale		Very low Low Moderate Moderately high

Linear, scaled to High expression
Cell Line		Expression Level
Schneider line 2 S2R+		7
Schneider line 2 Sg4		5
embryonic 1182-4H		4
embryonic GM2		9
embryonic Kc167		4
embryonic S1		1
embryonic S3		4
leg disc CME L1		5
wing disc CME-W2		3
wing disc ML-DmD8		4
wing disc ML-DmD9		7
wing disc ML-DmD16-c3		4
wing disc ML-DmD21		6
wing disc ML-DmD32		4
haltere disc ML-DmD17-c3		9
eye-antennal disc ML-DmD11		1
antennal disc ML-DmD20-c5		3
mixed discs ML-DmD4-c1		7
CNS ML-DmBG1-c1		0
CNS ML-DmBG2-c2		2
tumorous blood cells mbn2		5
ovary fGS/OSS		8
ovary OSC		8
ovary OSS		3
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+		7
Schneider line 2 Sg4		5
embryonic 1182-4H		4
embryonic GM2		9
embryonic Kc167		4
embryonic S1		1
embryonic S3		4
leg disc CME L1		5
wing disc CME-W2		3
wing disc ML-DmD8		4
wing disc ML-DmD9		7
wing disc ML-DmD16-c3		4
wing disc ML-DmD21		6
wing disc ML-DmD32		4
haltere disc ML-DmD17-c3		9
eye-antennal disc ML-DmD11		1
antennal disc ML-DmD20-c5		3
mixed discs ML-DmD4-c1		7
CNS ML-DmBG1-c1		0
CNS ML-DmBG2-c2		2
tumorous blood cells mbn2		5
ovary fGS/OSS		8
ovary OSC		8
ovary OSS		3
Expression Level Scale		Extremely high

log, scaled to maximum expression level
Cell Line		Expression Level
Schneider line 2 S2R+		7
Schneider line 2 Sg4		5
embryonic 1182-4H		4
embryonic GM2		9
embryonic Kc167		4
embryonic S1		1
embryonic S3		4
leg disc CME L1		5
wing disc CME-W2		3
wing disc ML-DmD8		4
wing disc ML-DmD9		7
wing disc ML-DmD16-c3		4
wing disc ML-DmD21		6
wing disc ML-DmD32		4
haltere disc ML-DmD17-c3		9
eye-antennal disc ML-DmD11		1
antennal disc ML-DmD20-c5		3
mixed discs ML-DmD4-c1		7
CNS ML-DmBG1-c1		0
CNS ML-DmBG2-c2		2
tumorous blood cells mbn2		5
ovary fGS/OSS		8
ovary OSC		8
ovary OSS		3
Expression Level Scale		Very low Low Moderate

log, scaled to Moderate expression
Cell Line		Expression Level
Schneider line 2 S2R+		7
Schneider line 2 Sg4		5
embryonic 1182-4H		4
embryonic GM2		9
embryonic Kc167		4
embryonic S1		1
embryonic S3		4
leg disc CME L1		5
wing disc CME-W2		3
wing disc ML-DmD8		4
wing disc ML-DmD9		7
wing disc ML-DmD16-c3		4
wing disc ML-DmD21		6
wing disc ML-DmD32		4
haltere disc ML-DmD17-c3		9
eye-antennal disc ML-DmD11		1
antennal disc ML-DmD20-c5		3
mixed discs ML-DmD4-c1		7
CNS ML-DmBG1-c1		0
CNS ML-DmBG2-c2		2
tumorous blood cells mbn2		5
ovary fGS/OSS		8
ovary OSC		8
ovary OSS		3
Expression Level Scale		Very low Low Moderate Moderately high

log, scaled to High expression
Cell Line		Expression Level
Schneider line 2 S2R+		7
Schneider line 2 Sg4		5
embryonic 1182-4H		4
embryonic GM2		9
embryonic Kc167		4
embryonic S1		1
embryonic S3		4
leg disc CME L1		5
wing disc CME-W2		3
wing disc ML-DmD8		4
wing disc ML-DmD9		7
wing disc ML-DmD16-c3		4
wing disc ML-DmD21		6
wing disc ML-DmD32		4
haltere disc ML-DmD17-c3		9
eye-antennal disc ML-DmD11		1
antennal disc ML-DmD20-c5		3
mixed discs ML-DmD4-c1		7
CNS ML-DmBG1-c1		0
CNS ML-DmBG2-c2		2
tumorous blood cells mbn2		5
ovary fGS/OSS		8
ovary OSC		8
ovary OSS		3
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+		7
Schneider line 2 Sg4		5
embryonic 1182-4H		4
embryonic GM2		9
embryonic Kc167		4
embryonic S1		1
embryonic S3		4
leg disc CME L1		5
wing disc CME-W2		3
wing disc ML-DmD8		4
wing disc ML-DmD9		7
wing disc ML-DmD16-c3		4
wing disc ML-DmD21		6
wing disc ML-DmD32		4
haltere disc ML-DmD17-c3		9
eye-antennal disc ML-DmD11		1
antennal disc ML-DmD20-c5		3
mixed discs ML-DmD4-c1		7
CNS ML-DmBG1-c1		0
CNS ML-DmBG2-c2		2
tumorous blood cells mbn2		5
ovary fGS/OSS		8
ovary OSC		8
ovary OSS		3
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		3
cold shock, 4-day adult		3
heat shock, 4-day adult		1
Cadmium 50 mM 6 hrs, larvae L3		0
Cadmium 50 mM 12 hrs, larvae L3		1
Cadmium 50 mM 48 hrs, 4-day adult		1
Cadmium 100 mM 48 hrs, 4-day adult		1
Copper 0.5 mM 12 hrs, larvae L3		1
Copper 15 mM 48 hrs, 4-day adult		3
Zinc 5 mM 12 hrs, larvae L3		1
Zinc 4.5 mM 48 hrs, 4-day adult		4
Ethanol 2.5% 3 hrs, larvae L3		1
Ethanol 5% 3 hrs, larvae L3		0
Ethanol 10% 3 hrs, larvae L3		0
Caffeine 1.5 mg/ml 4 hrs, larvae L3		0
Caffeine 2.5 mg/ml 48 hrs, 4-day adult		2
Caffeine 25 mg/ml 48 hrs, 4-day adult		3
Paraquat 5 mM 48 hrs, 4-day adult		1
Paraquat 10 mM 48 hrs, 4-day adult		2
Rotenone 2 μg 12 hrs, larvae L3		0
Rotenone 8 μg 12 hrs, larvae L3		0
Expression Level Scale		Very low Low Moderate

Linear, scaled to Moderate expression
Treatment		Expression Level
extended cold, 4-day adult		3
cold shock, 4-day adult		3
heat shock, 4-day adult		1
Cadmium 50 mM 6 hrs, larvae L3		0
Cadmium 50 mM 12 hrs, larvae L3		1
Cadmium 50 mM 48 hrs, 4-day adult		1
Cadmium 100 mM 48 hrs, 4-day adult		1
Copper 0.5 mM 12 hrs, larvae L3		1
Copper 15 mM 48 hrs, 4-day adult		3
Zinc 5 mM 12 hrs, larvae L3		1
Zinc 4.5 mM 48 hrs, 4-day adult		4
Ethanol 2.5% 3 hrs, larvae L3		1
Ethanol 5% 3 hrs, larvae L3		0
Ethanol 10% 3 hrs, larvae L3		0
Caffeine 1.5 mg/ml 4 hrs, larvae L3		0
Caffeine 2.5 mg/ml 48 hrs, 4-day adult		2
Caffeine 25 mg/ml 48 hrs, 4-day adult		3
Paraquat 5 mM 48 hrs, 4-day adult		1
Paraquat 10 mM 48 hrs, 4-day adult		2
Rotenone 2 μg 12 hrs, larvae L3		0
Rotenone 8 μg 12 hrs, larvae L3		0
Expression Level Scale		Very low Low Moderate Moderately high

Linear, scaled to High expression
Treatment		Expression Level
extended cold, 4-day adult		3
cold shock, 4-day adult		3
heat shock, 4-day adult		1
Cadmium 50 mM 6 hrs, larvae L3		0
Cadmium 50 mM 12 hrs, larvae L3		1
Cadmium 50 mM 48 hrs, 4-day adult		1
Cadmium 100 mM 48 hrs, 4-day adult		1
Copper 0.5 mM 12 hrs, larvae L3		1
Copper 15 mM 48 hrs, 4-day adult		3
Zinc 5 mM 12 hrs, larvae L3		1
Zinc 4.5 mM 48 hrs, 4-day adult		4
Ethanol 2.5% 3 hrs, larvae L3		1
Ethanol 5% 3 hrs, larvae L3		0
Ethanol 10% 3 hrs, larvae L3		0
Caffeine 1.5 mg/ml 4 hrs, larvae L3		0
Caffeine 2.5 mg/ml 48 hrs, 4-day adult		2
Caffeine 25 mg/ml 48 hrs, 4-day adult		3
Paraquat 5 mM 48 hrs, 4-day adult		1
Paraquat 10 mM 48 hrs, 4-day adult		2
Rotenone 2 μg 12 hrs, larvae L3		0
Rotenone 8 μg 12 hrs, larvae L3		0
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		3
cold shock, 4-day adult		3
heat shock, 4-day adult		1
Cadmium 50 mM 6 hrs, larvae L3		0
Cadmium 50 mM 12 hrs, larvae L3		1
Cadmium 50 mM 48 hrs, 4-day adult		1
Cadmium 100 mM 48 hrs, 4-day adult		1
Copper 0.5 mM 12 hrs, larvae L3		1
Copper 15 mM 48 hrs, 4-day adult		3
Zinc 5 mM 12 hrs, larvae L3		1
Zinc 4.5 mM 48 hrs, 4-day adult		4
Ethanol 2.5% 3 hrs, larvae L3		1
Ethanol 5% 3 hrs, larvae L3		0
Ethanol 10% 3 hrs, larvae L3		0
Caffeine 1.5 mg/ml 4 hrs, larvae L3		0
Caffeine 2.5 mg/ml 48 hrs, 4-day adult		2
Caffeine 25 mg/ml 48 hrs, 4-day adult		3
Paraquat 5 mM 48 hrs, 4-day adult		1
Paraquat 10 mM 48 hrs, 4-day adult		2
Rotenone 2 μg 12 hrs, larvae L3		0
Rotenone 8 μg 12 hrs, larvae L3		0
Expression Level Scale		Extremely high

log, scaled to maximum expression level
Treatment		Expression Level
extended cold, 4-day adult		3
cold shock, 4-day adult		3
heat shock, 4-day adult		1
Cadmium 50 mM 6 hrs, larvae L3		0
Cadmium 50 mM 12 hrs, larvae L3		1
Cadmium 50 mM 48 hrs, 4-day adult		1
Cadmium 100 mM 48 hrs, 4-day adult		1
Copper 0.5 mM 12 hrs, larvae L3		1
Copper 15 mM 48 hrs, 4-day adult		3
Zinc 5 mM 12 hrs, larvae L3		1
Zinc 4.5 mM 48 hrs, 4-day adult		4
Ethanol 2.5% 3 hrs, larvae L3		1
Ethanol 5% 3 hrs, larvae L3		0
Ethanol 10% 3 hrs, larvae L3		0
Caffeine 1.5 mg/ml 4 hrs, larvae L3		0
Caffeine 2.5 mg/ml 48 hrs, 4-day adult		2
Caffeine 25 mg/ml 48 hrs, 4-day adult		3
Paraquat 5 mM 48 hrs, 4-day adult		1
Paraquat 10 mM 48 hrs, 4-day adult		2
Rotenone 2 μg 12 hrs, larvae L3		0
Rotenone 8 μg 12 hrs, larvae L3		0
Expression Level Scale		Very low Low Moderate

log, scaled to Moderate expression
Treatment		Expression Level
extended cold, 4-day adult		3
cold shock, 4-day adult		3
heat shock, 4-day adult		1
Cadmium 50 mM 6 hrs, larvae L3		0
Cadmium 50 mM 12 hrs, larvae L3		1
Cadmium 50 mM 48 hrs, 4-day adult		1
Cadmium 100 mM 48 hrs, 4-day adult		1
Copper 0.5 mM 12 hrs, larvae L3		1
Copper 15 mM 48 hrs, 4-day adult		3
Zinc 5 mM 12 hrs, larvae L3		1
Zinc 4.5 mM 48 hrs, 4-day adult		4
Ethanol 2.5% 3 hrs, larvae L3		1
Ethanol 5% 3 hrs, larvae L3		0
Ethanol 10% 3 hrs, larvae L3		0
Caffeine 1.5 mg/ml 4 hrs, larvae L3		0
Caffeine 2.5 mg/ml 48 hrs, 4-day adult		2
Caffeine 25 mg/ml 48 hrs, 4-day adult		3
Paraquat 5 mM 48 hrs, 4-day adult		1
Paraquat 10 mM 48 hrs, 4-day adult		2
Rotenone 2 μg 12 hrs, larvae L3		0
Rotenone 8 μg 12 hrs, larvae L3		0
Expression Level Scale		Very low Low Moderate Moderately high

log, scaled to High expression
Treatment		Expression Level
extended cold, 4-day adult		3
cold shock, 4-day adult		3
heat shock, 4-day adult		1
Cadmium 50 mM 6 hrs, larvae L3		0
Cadmium 50 mM 12 hrs, larvae L3		1
Cadmium 50 mM 48 hrs, 4-day adult		1
Cadmium 100 mM 48 hrs, 4-day adult		1
Copper 0.5 mM 12 hrs, larvae L3		1
Copper 15 mM 48 hrs, 4-day adult		3
Zinc 5 mM 12 hrs, larvae L3		1
Zinc 4.5 mM 48 hrs, 4-day adult		4
Ethanol 2.5% 3 hrs, larvae L3		1
Ethanol 5% 3 hrs, larvae L3		0
Ethanol 10% 3 hrs, larvae L3		0
Caffeine 1.5 mg/ml 4 hrs, larvae L3		0
Caffeine 2.5 mg/ml 48 hrs, 4-day adult		2
Caffeine 25 mg/ml 48 hrs, 4-day adult		3
Paraquat 5 mM 48 hrs, 4-day adult		1
Paraquat 10 mM 48 hrs, 4-day adult		2
Rotenone 2 μg 12 hrs, larvae L3		0
Rotenone 8 μg 12 hrs, larvae L3		0
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		3
cold shock, 4-day adult		3
heat shock, 4-day adult		1
Cadmium 50 mM 6 hrs, larvae L3		0
Cadmium 50 mM 12 hrs, larvae L3		1
Cadmium 50 mM 48 hrs, 4-day adult		1
Cadmium 100 mM 48 hrs, 4-day adult		1
Copper 0.5 mM 12 hrs, larvae L3		1
Copper 15 mM 48 hrs, 4-day adult		3
Zinc 5 mM 12 hrs, larvae L3		1
Zinc 4.5 mM 48 hrs, 4-day adult		4
Ethanol 2.5% 3 hrs, larvae L3		1
Ethanol 5% 3 hrs, larvae L3		0
Ethanol 10% 3 hrs, larvae L3		0
Caffeine 1.5 mg/ml 4 hrs, larvae L3		0
Caffeine 2.5 mg/ml 48 hrs, 4-day adult		2
Caffeine 25 mg/ml 48 hrs, 4-day adult		3
Paraquat 5 mM 48 hrs, 4-day adult		1
Paraquat 10 mM 48 hrs, 4-day adult		2
Rotenone 2 μg 12 hrs, larvae L3		0
Rotenone 8 μg 12 hrs, larvae L3		0
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)

External Data & Images

Linkouts

BDGP expression data

•

GM08676

FLIGHT - Cell culture data for RNAi and other high-throughput technologies

•

FBgn0259171

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

•

CG3754-RA

Alleles & Phenotypes

Summary of Allele Phenotypes

Lethality

Allele

lethal

Pde9^GD6491

partially lethal - majority die | pupal stage, with Scer\GAL4^pnr-MD237

Pde9^GD6491

viable

Pde9^EY06288

viable, with Scer\GAL4^pnr-MD237

Sterility

Allele

fertile

Pde9^EY06288

Other Phenotypes

Allele

neuroanatomy defective | larval stage

Pde9^GD6491

visible, with Scer\GAL4^pnr-MD237

Pde9^GD6491

Phenotype manifest in

Allele

embryonic/larval neuroblast | larval stage

Pde9^GD6491

ganglion mother cell | larval stage

Pde9^GD6491

mesothoracic tergum, with Scer\GAL4^pnr-MD237

Pde9^GD6491

Classical Alleles ( 2 )

For All Classical Alleles Show

Allele of Pde9	Class	Mutagen	Stocks	Known lesion
Pde9^EY06288		P-element activity	1	--
Pde9^MI06972			1	--

Alleles Carried on Transgenic Constructs ( 6 )

For All Alleles Carried on Transgenic Constructs Show

Allele of Pde9	Mutagen	Stocks	Known lesion
Pde9^GD11066	in vitro construct - RNAi in vitro construct - regulatory fusion	1	Yes
Pde9^GD5219	in vitro construct - RNAi in vitro construct - regulatory fusion	1	Yes
Pde9^GD6491	in vitro construct - RNAi in vitro construct - regulatory fusion	1	Yes
Pde9^HMS00407	in vitro construct - RNAi in vitro construct - regulatory fusion	1	Yes
Pde9^KK102818	in vitro construct - RNAi in vitro construct - regulatory fusion	1	Yes
Pde9^GD17248	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

Insertions

Type of insertions

Name

Expression data

insertion of mobile activating element

P{EPgy2}Pde9^EY06288

miscellaneous insertions

Mi{MIC}Pde9^MI06972

Gene Ontology: Function, Process & Cellular Component ( 5 unique terms )

Terms Based on Experimental Evidence ( 1 term )

Molecular Function ( 0 terms)

Biological Process

CV term

Evidence

References

neurogenesis

inferred from mutant phenotype

(Neumüller et al., 2011)

Cellular Component ( 0 terms)

Terms Based on Predictions or Assertions ( 4 terms )

Molecular Function

CV term

Evidence

References

3',5'-cyclic-GMP phosphodiesterase activity

inferred from sequence or structural similarity with EMBL:AF031147

(FlyBase, 1992-)

inferred from sequence or structural similarity with human PDE9A

(Day and Davies, 2003.6.10)

3',5'-cyclic-nucleotide phosphodiesterase activity

inferred from sequence model

(Day, 2005)

Biological Process

CV term

Evidence

References

cyclic nucleotide metabolic process

inferred from sequence model

(Day, 2005)

signal transduction

inferred from electronic annotation with InterPro:IPR002073

(FlyBase Curators et al., 2004-)

Cellular Component ( 0 terms)

Sequence Ontology: Class of Gene

gene_with_stop_codon_read_through

(Jungreis et al., 2011)

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

Pde9 allele

Gene

References

External Data

Linkouts

BioGRID - A database of protein and genetic interactions

•

58623

DroID - A comprehensive database of gene and protein interactions.

•

FBgn0259171

InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets.

•

32233

Orthologs

OrthoDB Orthologs (44) - 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

EOG6WQ1N2

Dipteran inclusive ortholog search

EOG6MSD6C

Insect inclusive ortholog search

EOG6PRRKQ

Arthropod inclusive ortholog search

EOG6N02W0

Metazoa inclusive ortholog search

EOG62C92Q

Orthologs in Drosophila Species (EOG6WQ1N2)

Organism

Common Name

Gene

AAA Syntenic Ortholog

Multiple Dmel Genes in this Orthologous Group

Drosophila melanogaster

fruit fly

Dmel\CG15478

Drosophila melanogaster

fruit fly

Drosophila simulans

Drosophila simulans

Drosophila sechellia

Drosophila erecta

Drosophila yakuba

Drosophila yakuba

Drosophila ananassae

Drosophila pseudoobscura pseudoobscura

Dpse\GA17041

Drosophila persimilis

Dper\GL22965

Drosophila willistoni

Dwil\GK10275

Drosophila virilis

Dvir\GJ16925

Drosophila mojavensis

Dmoj\GI11066

Drosophila grimshawi

Dgri\GH24569

Orthologs in non-Drosophila Dipterans (EOG6MSD6C)

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Aedes aegypti

Yellow fever mosquito

Aaeg\AAEL009630

Anopheles gambiae

Malaria mosquito

Agam\AGAP002927

Culex quinquefasciatus

Southern house mosquito

Cqui\CPIJ014126

Orthologs in non-Dipteran Insects (EOG6PRRKQ)

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Apis mellifera

Western honey bee

Amel\GB52046

Nasonia vitripennis

Parasitic wasp

Nvit\Nasvi2EG025649

Nasonia vitripennis

Parasitic wasp

Nvit\Nasvi2EG024917

Acromyrmex echinatior

Panamanian leafcutter ant

Aech\AECH20493

Atta cephalotes

Leafcutter ant

Acep\ACEP21231

Camponotus floridanus

Florida carpenter ant

Cflo\CFLO22442

Harpegnathos saltator

Jerdons jumping ant

Hsal\HSAL19199

Linepithema humile

Argentine ant

Lhum\LH19125

Pogonomyrmex barbatus

Red harvester ant

Pbar\PB21498

Solenopsis invicta

Red fire ant

Sinv\SINV14652

Pediculus humanus

Human body louse

Phum\PHUM155210

Tribolium castaneum

Red flour beetle

Tcas\TC000150

Orthologs in non-Insect Arthropods (EOG6N02W0)

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Daphnia pulex

Water flea

Dpux\FOSL1

Orthologs in non-Arthropod Metazoa (EOG62C92Q)

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Strongylocentrotus purpuratus

Purple sea urchin

Spur\SPU_028720gn

Strongylocentrotus purpuratus

Purple sea urchin

Spur\SPU_011479gn

Danio rerio

Zebrafish

Drer\ENSDARG00000076650

Danio rerio

Zebrafish

Drer\ENSDARG00000088368

Danio rerio

Zebrafish

Drer\CABZ01044346.1

Danio rerio

Zebrafish

Drer\ENSDARG00000060280

Danio rerio

Zebrafish

Drer\si:dkey-219c10.4

Xenopus tropicalis

Western clawed frog

Xtro\ENSXETG00000003933

Xenopus tropicalis

Western clawed frog

Xtro\pde9a

Gallus gallus

Domestic chicken

Ggal\PDE9A

Mus musculus

House mouse

Mmus\Pde9a

Rattus norvegicus

Norway rat

Rnor\Pde9a

Homo sapiens

Human

Hsap\PDE9A

Human Orthologs (1)

Gene

OMIM

HGNC

Hsap\PDE9A

AAA Orthologs (20) based on analysis using Dmel annotation version 4.3

Organism

Gene

Drosophila simulans

Drosophila sechellia

Drosophila sechellia

Drosophila erecta

Drosophila erecta

Drosophila yakuba

Drosophila yakuba

Drosophila ananassae

Drosophila ananassae

Drosophila pseudoobscura pseudoobscura

Dpse\GA17041

Drosophila pseudoobscura pseudoobscura

Dpse\GA22378

Drosophila persimilis

Dper\GL22964

Drosophila persimilis

Dper\GL22965

Drosophila willistoni

Dwil\GK10275

Drosophila virilis

Dvir\GJ16924

Drosophila virilis

Dvir\GJ16925

Drosophila mojavensis

Dmoj\GI11065

Drosophila mojavensis

Dmoj\GI11066

Drosophila grimshawi

Dgri\GH24568

Drosophila grimshawi

Dgri\GH24569

Stocks & Reagents

Stocks Listed in FlyBase ( 7 )

Bloomington

42195

y¹ w^*; Mi{MIC}Pde9^MI06972

17358

y¹ w^67c23 P{EPgy2}Pde9^EY06288

32412

y¹ sc^* v¹; P{TRiP.HMS00407}attP2

VDRC

v106959

P{KK102818}VIE-260B

v13190

w¹¹¹⁸; P{GD5219}v13190

v14900

w¹¹¹⁸; P{GD6491}v14900

v40468

w¹¹¹⁸; P{GD11066}v40468/TM3

Genomic Clones ( 3 )

Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete

cDNA Clones ( 23 )

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

GM08676

Other clones

IP13804

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi & Array Information

Linkouts

DRSC - Results from RNAi screens.

•

FBgn0259171

GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents

•

32233

Antibody Information

Other Information

Discoverer

Etymology

Identification

Relationship to Other Genes

Source for database identity of

Source for identity of: Pde9 CG32648

(Day and Davies, 2003.6.10)

Source for database merge of

Source for merge of: CG1627 CG3761 CG3765

(FlyBase Genome Annotators, 2002-2003)

Source for merge of: Pde9 CG3754

(FlyBase Genome Annotators, 2008)

Additional comments

Annotations CG32648 and CG3754 merged as CG42276 in release 5.8 of the genome annotation.

(FlyBase Genome Annotators, 2008)

Annotations CG1627, CG3761 and CG3765 merged as CG32648 in release 3 of the genome annotation.

(FlyBase Genome Annotators, 2002-2003)

Other Comments

External Crossreferences & Linkouts

Sequence Crossreferences

RefSeq (Transcripts)

•

RefSeq (Proteins)

•

DDBJ / EMBL / GenBank

•

Entrez Gene - A searchable database of RefSeq genes.

•

32233

UniProtKB/TrEMBL

•

Other Crossreferences

InterPro domains - A database of protein families, domains, and functional sites

•

3'5'-cyclic nucleotide phosphodiesterase, catalytic domain (IPR002073)

HD/PDEase domain (IPR003607)

3'5'-cyclic nucleotide phosphodiesterase (IPR023088)

3'5'-cyclic nucleotide phosphodiesterase, conserved site (IPR023174)

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

•

GM08676

Linkouts

BioGRID - A database of protein and genetic interactions

•

58623

DroID - A comprehensive database of gene and protein interactions.

•

FBgn0259171

DRSC - Results from RNAi screens.

•

FBgn0259171

FLIGHT - Cell culture data for RNAi and other high-throughput technologies

•

FBgn0259171

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

•

CG3754-RA

FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans

•

FBgn0259171

GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents

•

32233

InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets.

•

32233

modMine - Data generated by the modENCODE project.

•

FBgn0259171

Synonyms & Secondary IDs ( 9 )

Reported As

Symbol Synonym

CG1627

CG3754

CG3761

CG3765

CG32648

(Day, 2005, Giot et al., 2003, Keleman et al., 2009.8.5, Derré et al., 2007)

CG42276

(FlyBase Genome Annotators, 2008, Ni et al., 2010.12.1)

PDE9

(Clemens-Grisham et al., 2008, Day, 2005, Day and Davies, 2003.6.10)

Pde9

(Hazelett et al., 2012, Jungreis et al., 2011, Junion et al., 2007, Wasbrough et al., 2010)

Name Synonym

CG3754

CG42276

(FlyBase Genome Annotators, 2008)

Phosphodiesterase 9

(Day and Davies, 2003.6.10, )

Secondary FlyBase IDs

FBgn0030424
FBgn0030426
FBgn0030427
FBgn0030428
FBgn0052648

References ( 30 )

Generate a list of

All references relating to this gene ( 30 )

List References by type

Recent research papers ( 1 )

Hazelett et al., 2012, G3 (Bethesda) 2(7): 789--802: Comparison of Parallel High-Throughput RNA Sequencing Between Knockout of TDP-43 and Its Overexpression Reveals Primarily Nonreciprocal and Nonoverlapping Gene Expression Changes in the Central Nervous System of Drosophila. [FBrf0219102]

Show all research papers ...