Gene Dmel\CG4049

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General Information

Symbol

Dmel\CG4049

Species

D. melanogaster

Name

Annotation symbol

CG4049

Feature type

protein_coding_gene

FlyBase ID

FBgn0034976

Gene Model Status

Current

Stock availability

4 publicly available

Genomic Location

Chromosome (arm)

Recombination map

Cytogenetic map

60B10-60B10

Sequence location

2R:19,995,429..20,001,793 [-]

Genomic Maps

Select View:

Summary Information

Automatically generated summary

See sections below for more information

This gene is referred to in FlyBase by the symbol Dmel\CG4049 (FBgn0034976). It is a protein_coding_gene from Drosophila melanogaster. An electronic pipeline based on InterPro domains suggests that it has the molecular function: DNA binding; ATP binding; helicase activity. Based on sequence similarity, it is predicted to be involved in the biological process: DNA repair. 4 alleles are reported. No phenotypic data is available. It has one annotated transcript and one annotated polypeptide. Protein features are: Helicase, C-terminal; Helicase, superfamily 1/2, ATP-binding domain; SNF2-related. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of low expression. Peak expression observed within 00-06 hour embryonic stages. Summary of FlyAtlas Anatomical Expression Data: Expression at moderate levels in the following post-embryonic organs or tissues: adult ovary. Comments on Affy2 ProbeSet: ProbeSet 1623343_at completely aligns to an exonic region of the only FlyBase-annotated transcript isoform of CG4049. Gene sequence location is 2R:19995429..20001793.

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.

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FB2013_03

FB2013_02

All updates

Click here to see a list of all updates to this record from FB2010_08 and on.

Detailed Mapping Data

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

60B10-60B10

Limits computationally determined from genome sequence between P{EP}EP503 and P{lacW}Nop60B^k05318

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

60C-60C

(determined by in situ hybridisation)

(Nouaud et al., 1999)

Experimentally Determined Recombination Data

Location

Left of (cM)

Right of (cM)

Notes

Gene Model & Products

Please see the GBrowse view of Dmel\CG4049 for information on other features

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

Comments on Gene Model

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Associated CDS (aa)

CG4049-RA

FBtr0072285

NM_138041

5274

1669

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

CG4049-PA

FBpp0072192

187.4

1669

6.17

NP_611885

AAF47165

Additional Polypeptide Data & Comments

Reported size (kDa)

Comments

External Data

Linkouts

Crossreferences

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

•

SNF2-related (IPR000330)

Helicase, C-terminal (IPR001650)

P-loop containing nucleoside triphosphate hydrolase (IPR027417)

Helicase, superfamily 1/2, ATP-binding domain (IPR014001)

Sequences Consistent with the Gene Model

DDBJ /
EMBL /
GenBank

DNA sequence

Protein sequence

Name

Q9W1A8

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

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: Expression at moderate levels in the following post-embryonic organs or tissues: adult ovary.
[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		49.725
Larval Midgut		8.4
Larval Hindgut		16.2
Larval Malpighian Tubules		18.2
Larval Fat Body		21.4
Larval Salivary Gland		19.4
Larval Trachea		21.45
Larval Carcass		11.4
Adult Head		25.3
Adult Eye		18.4
Adult Brain		65.2
Adult Thoracic-Abdominal Ganglion		36.8
Adult Crop		19.6
Adult Midgut		11.4
Adult Hindgut		20.8
Adult Malpighian Tubules		9.1
Adult Fat Body		19.1
Adult Salivary Gland		24.1
Adult Heart		13.425
Adult VirginFemale Spermatheca		8.3
Adult InseminatedFemale Spermatheca		7.4
Adult Ovary		109
Adult Testis		17.6
Adult Male Accessory Gland		17.2
Adult Carcass		15.4
Expression Level Scale		None Low Moderate

Linear, scaled to Moderate expression
Tissue		Expression Level
Larval Central Nervous System		49.725
Larval Midgut		8.4
Larval Hindgut		16.2
Larval Malpighian Tubules		18.2
Larval Fat Body		21.4
Larval Salivary Gland		19.4
Larval Trachea		21.45
Larval Carcass		11.4
Adult Head		25.3
Adult Eye		18.4
Adult Brain		65.2
Adult Thoracic-Abdominal Ganglion		36.8
Adult Crop		19.6
Adult Midgut		11.4
Adult Hindgut		20.8
Adult Malpighian Tubules		9.1
Adult Fat Body		19.1
Adult Salivary Gland		24.1
Adult Heart		13.425
Adult VirginFemale Spermatheca		8.3
Adult InseminatedFemale Spermatheca		7.4
Adult Ovary		109
Adult Testis		17.6
Adult Male Accessory Gland		17.2
Adult Carcass		15.4
Expression Level Scale		None Low Moderate High

Linear, scaled to High level expression
Tissue		Expression Level
Larval Central Nervous System		49.725
Larval Midgut		8.4
Larval Hindgut		16.2
Larval Malpighian Tubules		18.2
Larval Fat Body		21.4
Larval Salivary Gland		19.4
Larval Trachea		21.45
Larval Carcass		11.4
Adult Head		25.3
Adult Eye		18.4
Adult Brain		65.2
Adult Thoracic-Abdominal Ganglion		36.8
Adult Crop		19.6
Adult Midgut		11.4
Adult Hindgut		20.8
Adult Malpighian Tubules		9.1
Adult Fat Body		19.1
Adult Salivary Gland		24.1
Adult Heart		13.425
Adult VirginFemale Spermatheca		8.3
Adult InseminatedFemale Spermatheca		7.4
Adult Ovary		109
Adult Testis		17.6
Adult Male Accessory Gland		17.2
Adult Carcass		15.4
Expression Level Scale		None Low Moderate High Very high

Linear, scaled to Very high expression
Tissue		Expression Level
Larval Central Nervous System		49.725
Larval Midgut		8.4
Larval Hindgut		16.2
Larval Malpighian Tubules		18.2
Larval Fat Body		21.4
Larval Salivary Gland		19.4
Larval Trachea		21.45
Larval Carcass		11.4
Adult Head		25.3
Adult Eye		18.4
Adult Brain		65.2
Adult Thoracic-Abdominal Ganglion		36.8
Adult Crop		19.6
Adult Midgut		11.4
Adult Hindgut		20.8
Adult Malpighian Tubules		9.1
Adult Fat Body		19.1
Adult Salivary Gland		24.1
Adult Heart		13.425
Adult VirginFemale Spermatheca		8.3
Adult InseminatedFemale Spermatheca		7.4
Adult Ovary		109
Adult Testis		17.6
Adult Male Accessory Gland		17.2
Adult Carcass		15.4
Expression Level Scale		Very high

log, scaled to maximum expression level
Tissue		Expression Level
Larval Central Nervous System		49.725
Larval Midgut		8.4
Larval Hindgut		16.2
Larval Malpighian Tubules		18.2
Larval Fat Body		21.4
Larval Salivary Gland		19.4
Larval Trachea		21.45
Larval Carcass		11.4
Adult Head		25.3
Adult Eye		18.4
Adult Brain		65.2
Adult Thoracic-Abdominal Ganglion		36.8
Adult Crop		19.6
Adult Midgut		11.4
Adult Hindgut		20.8
Adult Malpighian Tubules		9.1
Adult Fat Body		19.1
Adult Salivary Gland		24.1
Adult Heart		13.425
Adult VirginFemale Spermatheca		8.3
Adult InseminatedFemale Spermatheca		7.4
Adult Ovary		109
Adult Testis		17.6
Adult Male Accessory Gland		17.2
Adult Carcass		15.4
Expression Level Scale		None Low Moderate

log, scaled to Moderate expression
Tissue		Expression Level
Larval Central Nervous System		49.725
Larval Midgut		8.4
Larval Hindgut		16.2
Larval Malpighian Tubules		18.2
Larval Fat Body		21.4
Larval Salivary Gland		19.4
Larval Trachea		21.45
Larval Carcass		11.4
Adult Head		25.3
Adult Eye		18.4
Adult Brain		65.2
Adult Thoracic-Abdominal Ganglion		36.8
Adult Crop		19.6
Adult Midgut		11.4
Adult Hindgut		20.8
Adult Malpighian Tubules		9.1
Adult Fat Body		19.1
Adult Salivary Gland		24.1
Adult Heart		13.425
Adult VirginFemale Spermatheca		8.3
Adult InseminatedFemale Spermatheca		7.4
Adult Ovary		109
Adult Testis		17.6
Adult Male Accessory Gland		17.2
Adult Carcass		15.4
Expression Level Scale		None Low Moderate High

log, scaled to High level expression
Tissue		Expression Level
Larval Central Nervous System		49.725
Larval Midgut		8.4
Larval Hindgut		16.2
Larval Malpighian Tubules		18.2
Larval Fat Body		21.4
Larval Salivary Gland		19.4
Larval Trachea		21.45
Larval Carcass		11.4
Adult Head		25.3
Adult Eye		18.4
Adult Brain		65.2
Adult Thoracic-Abdominal Ganglion		36.8
Adult Crop		19.6
Adult Midgut		11.4
Adult Hindgut		20.8
Adult Malpighian Tubules		9.1
Adult Fat Body		19.1
Adult Salivary Gland		24.1
Adult Heart		13.425
Adult VirginFemale Spermatheca		8.3
Adult InseminatedFemale Spermatheca		7.4
Adult Ovary		109
Adult Testis		17.6
Adult Male Accessory Gland		17.2
Adult Carcass		15.4
Expression Level Scale		None Low Moderate High Very high

log, scaled to Very high expression
Tissue		Expression Level
Larval Central Nervous System		49.725
Larval Midgut		8.4
Larval Hindgut		16.2
Larval Malpighian Tubules		18.2
Larval Fat Body		21.4
Larval Salivary Gland		19.4
Larval Trachea		21.45
Larval Carcass		11.4
Adult Head		25.3
Adult Eye		18.4
Adult Brain		65.2
Adult Thoracic-Abdominal Ganglion		36.8
Adult Crop		19.6
Adult Midgut		11.4
Adult Hindgut		20.8
Adult Malpighian Tubules		9.1
Adult Fat Body		19.1
Adult Salivary Gland		24.1
Adult Heart		13.425
Adult VirginFemale Spermatheca		8.3
Adult InseminatedFemale Spermatheca		7.4
Adult Ovary		109
Adult Testis		17.6
Adult Male Accessory Gland		17.2
Adult Carcass		15.4
Expression Level Scale		None Low Moderate High Very high

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

FlyAtlas Organ/Tissue Expression, larval vs. adult
Larval Expression Level	Tissue	Adult Expression Level
NA	Head	25.3
NA	Eye	18.4
NA	Brain	65.2
49.725	Central Nervous System	NA
NA	Thoracic-Abdominal Ganglion	36.8
NA	Crop	no informative data
8.4	Midgut	no informative data
16.2	Hindgut	20.8
18.2	Malpighian Tubules	9.1
no informative data	Fat Body	19.1
19.4	Salivary Gland	no informative data
NA	Heart	13.425
21.45	Trachea	NA
NA	VirginFemale Spermatheca	8.3
NA	InseminatedFemale Spermatheca	7.4
NA	Ovary	109
NA	Testis	17.6
NA	Male Accessory Gland	no informative data
no informative data	Carcass	no informative data

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		14
central nervous system, larvae L3		18
central nervous system, pupae P8		20
head, virgin 1-day female		7
head, virgin 4-day female		7
head, virgin 20-day female		5
head, mated 1-day female		7
head, mated 4-day female		5
head, mated 20-day female		5
head, mated 1-day male		11
head, mated 4-day male		10
head, mated 20-day male		10
salivary gland, larvae L3 wandering		0
salivary gland, white prepupae		2
digestive system, larvae L3 wandering		3
digestive system, 1-day adult		1
digestive system, 4-day adult		4
digestive system, 20-day adult		3
fat body, larvae L3 wandering		3
fat body, white prepupae		5
fat body, pupae P8		4
carcass, larvae L3 wandering		10
carcass, 1-day adult		3
carcass, 4-day adult		4
carcass, 20-day adult		3
ovary, virgin 4-day female		38
ovary, mated 4-day female		37
testis, mated 4-day male		3
accessory gland, mated 4-day male		2
Expression Level Scale		Very low Low Moderate Moderately high

Linear, scaled to Moderate expression
Tissue		Expression Level
imaginal disc, larvae L3 wandering		14
central nervous system, larvae L3		18
central nervous system, pupae P8		20
head, virgin 1-day female		7
head, virgin 4-day female		7
head, virgin 20-day female		5
head, mated 1-day female		7
head, mated 4-day female		5
head, mated 20-day female		5
head, mated 1-day male		11
head, mated 4-day male		10
head, mated 20-day male		10
salivary gland, larvae L3 wandering		0
salivary gland, white prepupae		2
digestive system, larvae L3 wandering		3
digestive system, 1-day adult		1
digestive system, 4-day adult		4
digestive system, 20-day adult		3
fat body, larvae L3 wandering		3
fat body, white prepupae		5
fat body, pupae P8		4
carcass, larvae L3 wandering		10
carcass, 1-day adult		3
carcass, 4-day adult		4
carcass, 20-day adult		3
ovary, virgin 4-day female		(38)
ovary, mated 4-day female		(37)
testis, mated 4-day male		3
accessory gland, mated 4-day male		2
Expression Level Scale		Very low Low Moderate Moderately high

Linear, scaled to High expression
Tissue		Expression Level
imaginal disc, larvae L3 wandering		14
central nervous system, larvae L3		18
central nervous system, pupae P8		20
head, virgin 1-day female		7
head, virgin 4-day female		7
head, virgin 20-day female		5
head, mated 1-day female		7
head, mated 4-day female		5
head, mated 20-day female		5
head, mated 1-day male		11
head, mated 4-day male		10
head, mated 20-day male		10
salivary gland, larvae L3 wandering		0
salivary gland, white prepupae		2
digestive system, larvae L3 wandering		3
digestive system, 1-day adult		1
digestive system, 4-day adult		4
digestive system, 20-day adult		3
fat body, larvae L3 wandering		3
fat body, white prepupae		5
fat body, pupae P8		4
carcass, larvae L3 wandering		10
carcass, 1-day adult		3
carcass, 4-day adult		4
carcass, 20-day adult		3
ovary, virgin 4-day female		38
ovary, mated 4-day female		37
testis, mated 4-day male		3
accessory gland, mated 4-day male		2
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		14
central nervous system, larvae L3		18
central nervous system, pupae P8		20
head, virgin 1-day female		7
head, virgin 4-day female		7
head, virgin 20-day female		5
head, mated 1-day female		7
head, mated 4-day female		5
head, mated 20-day female		5
head, mated 1-day male		11
head, mated 4-day male		10
head, mated 20-day male		10
salivary gland, larvae L3 wandering		0
salivary gland, white prepupae		2
digestive system, larvae L3 wandering		3
digestive system, 1-day adult		1
digestive system, 4-day adult		4
digestive system, 20-day adult		3
fat body, larvae L3 wandering		3
fat body, white prepupae		5
fat body, pupae P8		4
carcass, larvae L3 wandering		10
carcass, 1-day adult		3
carcass, 4-day adult		4
carcass, 20-day adult		3
ovary, virgin 4-day female		38
ovary, mated 4-day female		37
testis, mated 4-day male		3
accessory gland, mated 4-day male		2
Expression Level Scale		Extremely high

log, scaled to maximum expression level
Tissue		Expression Level
imaginal disc, larvae L3 wandering		14
central nervous system, larvae L3		18
central nervous system, pupae P8		20
head, virgin 1-day female		7
head, virgin 4-day female		7
head, virgin 20-day female		5
head, mated 1-day female		7
head, mated 4-day female		5
head, mated 20-day female		5
head, mated 1-day male		11
head, mated 4-day male		10
head, mated 20-day male		10
salivary gland, larvae L3 wandering		0
salivary gland, white prepupae		2
digestive system, larvae L3 wandering		3
digestive system, 1-day adult		1
digestive system, 4-day adult		4
digestive system, 20-day adult		3
fat body, larvae L3 wandering		3
fat body, white prepupae		5
fat body, pupae P8		4
carcass, larvae L3 wandering		10
carcass, 1-day adult		3
carcass, 4-day adult		4
carcass, 20-day adult		3
ovary, virgin 4-day female		38
ovary, mated 4-day female		37
testis, mated 4-day male		3
accessory gland, mated 4-day male		2
Expression Level Scale		Very low Low Moderate Moderately high High

log, scaled to Moderate expression
Tissue		Expression Level
imaginal disc, larvae L3 wandering		14
central nervous system, larvae L3		18
central nervous system, pupae P8		20
head, virgin 1-day female		7
head, virgin 4-day female		7
head, virgin 20-day female		5
head, mated 1-day female		7
head, mated 4-day female		5
head, mated 20-day female		5
head, mated 1-day male		11
head, mated 4-day male		10
head, mated 20-day male		10
salivary gland, larvae L3 wandering		0
salivary gland, white prepupae		2
digestive system, larvae L3 wandering		3
digestive system, 1-day adult		1
digestive system, 4-day adult		4
digestive system, 20-day adult		3
fat body, larvae L3 wandering		3
fat body, white prepupae		5
fat body, pupae P8		4
carcass, larvae L3 wandering		10
carcass, 1-day adult		3
carcass, 4-day adult		4
carcass, 20-day adult		3
ovary, virgin 4-day female		(38)
ovary, mated 4-day female		(37)
testis, mated 4-day male		3
accessory gland, mated 4-day male		2
Expression Level Scale		Very low Low Moderate Moderately high

log, scaled to High expression
Tissue		Expression Level
imaginal disc, larvae L3 wandering		14
central nervous system, larvae L3		18
central nervous system, pupae P8		20
head, virgin 1-day female		7
head, virgin 4-day female		7
head, virgin 20-day female		5
head, mated 1-day female		7
head, mated 4-day female		5
head, mated 20-day female		5
head, mated 1-day male		11
head, mated 4-day male		10
head, mated 20-day male		10
salivary gland, larvae L3 wandering		0
salivary gland, white prepupae		2
digestive system, larvae L3 wandering		3
digestive system, 1-day adult		1
digestive system, 4-day adult		4
digestive system, 20-day adult		3
fat body, larvae L3 wandering		3
fat body, white prepupae		5
fat body, pupae P8		4
carcass, larvae L3 wandering		10
carcass, 1-day adult		3
carcass, 4-day adult		4
carcass, 20-day adult		3
ovary, virgin 4-day female		38
ovary, mated 4-day female		37
testis, mated 4-day male		3
accessory gland, mated 4-day male		2
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		14
central nervous system, larvae L3		18
central nervous system, pupae P8		20
head, virgin 1-day female		7
head, virgin 4-day female		7
head, virgin 20-day female		5
head, mated 1-day female		7
head, mated 4-day female		5
head, mated 20-day female		5
head, mated 1-day male		11
head, mated 4-day male		10
head, mated 20-day male		10
salivary gland, larvae L3 wandering		0
salivary gland, white prepupae		2
digestive system, larvae L3 wandering		3
digestive system, 1-day adult		1
digestive system, 4-day adult		4
digestive system, 20-day adult		3
fat body, larvae L3 wandering		3
fat body, white prepupae		5
fat body, pupae P8		4
carcass, larvae L3 wandering		10
carcass, 1-day adult		3
carcass, 4-day adult		4
carcass, 20-day adult		3
ovary, virgin 4-day female		38
ovary, mated 4-day female		37
testis, mated 4-day male		3
accessory gland, mated 4-day male		2
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 low expression. Peak expression observed within 00-06 hour embryonic stages.
[download data (TSV)]

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

Linear, scaled to maximum expression level
Developmental Stage		Expression Level
embryo 00-02hr		28
embryo 02-04hr		17
embryo 04-06hr		18
embryo 06-08hr		16
embryo 08-10hr		16
embryo 10-12hr		9
embryo 12-14hr		11
embryo 14-16hr		8
embryo 16-18hr		7
embryo 18-20hr		4
embryo 20-22hr		4
embryo 22-24hr		5
larva L1		4
larva L2		3
larva L3 12hr old		2
larva L3 puffstage 1-2		3
larva L3 puffstage 3-6		5
larva L3 puffstage 7-9		7
white prepupae new		7
white prepupae 12hr		8
white prepupae 24hr		12
pupae 2d postWPP		9
pupae 3d postWPP		5
pupae 4d postWPP		3
adult male 01day		4
adult male 05day		4
adult male 30day		4
adult female 01day		9
adult female 05day		16
adult female 30day		17
Expression Level Scale		Very low Low Moderate Moderately high

Linear, scaled to Moderate expression
Developmental Stage		Expression Level
embryo 00-02hr		(28)
embryo 02-04hr		17
embryo 04-06hr		18
embryo 06-08hr		16
embryo 08-10hr		16
embryo 10-12hr		9
embryo 12-14hr		11
embryo 14-16hr		8
embryo 16-18hr		7
embryo 18-20hr		4
embryo 20-22hr		4
embryo 22-24hr		5
larva L1		4
larva L2		3
larva L3 12hr old		2
larva L3 puffstage 1-2		3
larva L3 puffstage 3-6		5
larva L3 puffstage 7-9		7
white prepupae new		7
white prepupae 12hr		8
white prepupae 24hr		12
pupae 2d postWPP		9
pupae 3d postWPP		5
pupae 4d postWPP		3
adult male 01day		4
adult male 05day		4
adult male 30day		4
adult female 01day		9
adult female 05day		16
adult female 30day		17
Expression Level Scale		Very low Low Moderate Moderately high

Linear, scaled to High expression
Developmental Stage		Expression Level
embryo 00-02hr		28
embryo 02-04hr		17
embryo 04-06hr		18
embryo 06-08hr		16
embryo 08-10hr		16
embryo 10-12hr		9
embryo 12-14hr		11
embryo 14-16hr		8
embryo 16-18hr		7
embryo 18-20hr		4
embryo 20-22hr		4
embryo 22-24hr		5
larva L1		4
larva L2		3
larva L3 12hr old		2
larva L3 puffstage 1-2		3
larva L3 puffstage 3-6		5
larva L3 puffstage 7-9		7
white prepupae new		7
white prepupae 12hr		8
white prepupae 24hr		12
pupae 2d postWPP		9
pupae 3d postWPP		5
pupae 4d postWPP		3
adult male 01day		4
adult male 05day		4
adult male 30day		4
adult female 01day		9
adult female 05day		16
adult female 30day		17
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		28
embryo 02-04hr		17
embryo 04-06hr		18
embryo 06-08hr		16
embryo 08-10hr		16
embryo 10-12hr		9
embryo 12-14hr		11
embryo 14-16hr		8
embryo 16-18hr		7
embryo 18-20hr		4
embryo 20-22hr		4
embryo 22-24hr		5
larva L1		4
larva L2		3
larva L3 12hr old		2
larva L3 puffstage 1-2		3
larva L3 puffstage 3-6		5
larva L3 puffstage 7-9		7
white prepupae new		7
white prepupae 12hr		8
white prepupae 24hr		12
pupae 2d postWPP		9
pupae 3d postWPP		5
pupae 4d postWPP		3
adult male 01day		4
adult male 05day		4
adult male 30day		4
adult female 01day		9
adult female 05day		16
adult female 30day		17
Expression Level Scale		Extremely high

log, scaled to maximum expression level
Developmental Stage		Expression Level
embryo 00-02hr		28
embryo 02-04hr		17
embryo 04-06hr		18
embryo 06-08hr		16
embryo 08-10hr		16
embryo 10-12hr		9
embryo 12-14hr		11
embryo 14-16hr		8
embryo 16-18hr		7
embryo 18-20hr		4
embryo 20-22hr		4
embryo 22-24hr		5
larva L1		4
larva L2		3
larva L3 12hr old		2
larva L3 puffstage 1-2		3
larva L3 puffstage 3-6		5
larva L3 puffstage 7-9		7
white prepupae new		7
white prepupae 12hr		8
white prepupae 24hr		12
pupae 2d postWPP		9
pupae 3d postWPP		5
pupae 4d postWPP		3
adult male 01day		4
adult male 05day		4
adult male 30day		4
adult female 01day		9
adult female 05day		16
adult female 30day		17
Expression Level Scale		Very low Low Moderate Moderately high

log, scaled to Moderate expression
Developmental Stage		Expression Level
embryo 00-02hr		28
embryo 02-04hr		17
embryo 04-06hr		18
embryo 06-08hr		16
embryo 08-10hr		16
embryo 10-12hr		9
embryo 12-14hr		11
embryo 14-16hr		8
embryo 16-18hr		7
embryo 18-20hr		4
embryo 20-22hr		4
embryo 22-24hr		5
larva L1		4
larva L2		3
larva L3 12hr old		2
larva L3 puffstage 1-2		3
larva L3 puffstage 3-6		5
larva L3 puffstage 7-9		7
white prepupae new		7
white prepupae 12hr		8
white prepupae 24hr		12
pupae 2d postWPP		9
pupae 3d postWPP		5
pupae 4d postWPP		3
adult male 01day		4
adult male 05day		4
adult male 30day		4
adult female 01day		9
adult female 05day		16
adult female 30day		17
Expression Level Scale		Very low Low Moderate Moderately high

log, scaled to High expression
Developmental Stage		Expression Level
embryo 00-02hr		28
embryo 02-04hr		17
embryo 04-06hr		18
embryo 06-08hr		16
embryo 08-10hr		16
embryo 10-12hr		9
embryo 12-14hr		11
embryo 14-16hr		8
embryo 16-18hr		7
embryo 18-20hr		4
embryo 20-22hr		4
embryo 22-24hr		5
larva L1		4
larva L2		3
larva L3 12hr old		2
larva L3 puffstage 1-2		3
larva L3 puffstage 3-6		5
larva L3 puffstage 7-9		7
white prepupae new		7
white prepupae 12hr		8
white prepupae 24hr		12
pupae 2d postWPP		9
pupae 3d postWPP		5
pupae 4d postWPP		3
adult male 01day		4
adult male 05day		4
adult male 30day		4
adult female 01day		9
adult female 05day		16
adult female 30day		17
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		28
embryo 02-04hr		17
embryo 04-06hr		18
embryo 06-08hr		16
embryo 08-10hr		16
embryo 10-12hr		9
embryo 12-14hr		11
embryo 14-16hr		8
embryo 16-18hr		7
embryo 18-20hr		4
embryo 20-22hr		4
embryo 22-24hr		5
larva L1		4
larva L2		3
larva L3 12hr old		2
larva L3 puffstage 1-2		3
larva L3 puffstage 3-6		5
larva L3 puffstage 7-9		7
white prepupae new		7
white prepupae 12hr		8
white prepupae 24hr		12
pupae 2d postWPP		9
pupae 3d postWPP		5
pupae 4d postWPP		3
adult male 01day		4
adult male 05day		4
adult male 30day		4
adult female 01day		9
adult female 05day		16
adult female 30day		17
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+		6
Schneider line 2 Sg4		3
embryonic 1182-4H		8
embryonic GM2		6
embryonic Kc167		4
embryonic S1		12
embryonic S3		5
leg disc CME L1		6
wing disc CME-W2		8
wing disc ML-DmD8		7
wing disc ML-DmD9		8
wing disc ML-DmD16-c3		11
wing disc ML-DmD21		2
wing disc ML-DmD32		7
haltere disc ML-DmD17-c3		18
eye-antennal disc ML-DmD11		6
antennal disc ML-DmD20-c5		3
mixed discs ML-DmD4-c1		5
CNS ML-DmBG1-c1		10
CNS ML-DmBG2-c2		6
tumorous blood cells mbn2		7
ovary fGS/OSS		19
ovary OSC		17
ovary OSS		8
Expression Level Scale		Very low Low Moderate

Linear, scaled to Moderate expression
Cell Line		Expression Level
Schneider line 2 S2R+		6
Schneider line 2 Sg4		3
embryonic 1182-4H		8
embryonic GM2		6
embryonic Kc167		4
embryonic S1		12
embryonic S3		5
leg disc CME L1		6
wing disc CME-W2		8
wing disc ML-DmD8		7
wing disc ML-DmD9		8
wing disc ML-DmD16-c3		11
wing disc ML-DmD21		2
wing disc ML-DmD32		7
haltere disc ML-DmD17-c3		18
eye-antennal disc ML-DmD11		6
antennal disc ML-DmD20-c5		3
mixed discs ML-DmD4-c1		5
CNS ML-DmBG1-c1		10
CNS ML-DmBG2-c2		6
tumorous blood cells mbn2		7
ovary fGS/OSS		19
ovary OSC		17
ovary OSS		8
Expression Level Scale		Very low Low Moderate Moderately high

Linear, scaled to High expression
Cell Line		Expression Level
Schneider line 2 S2R+		6
Schneider line 2 Sg4		3
embryonic 1182-4H		8
embryonic GM2		6
embryonic Kc167		4
embryonic S1		12
embryonic S3		5
leg disc CME L1		6
wing disc CME-W2		8
wing disc ML-DmD8		7
wing disc ML-DmD9		8
wing disc ML-DmD16-c3		11
wing disc ML-DmD21		2
wing disc ML-DmD32		7
haltere disc ML-DmD17-c3		18
eye-antennal disc ML-DmD11		6
antennal disc ML-DmD20-c5		3
mixed discs ML-DmD4-c1		5
CNS ML-DmBG1-c1		10
CNS ML-DmBG2-c2		6
tumorous blood cells mbn2		7
ovary fGS/OSS		19
ovary OSC		17
ovary OSS		8
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+		6
Schneider line 2 Sg4		3
embryonic 1182-4H		8
embryonic GM2		6
embryonic Kc167		4
embryonic S1		12
embryonic S3		5
leg disc CME L1		6
wing disc CME-W2		8
wing disc ML-DmD8		7
wing disc ML-DmD9		8
wing disc ML-DmD16-c3		11
wing disc ML-DmD21		2
wing disc ML-DmD32		7
haltere disc ML-DmD17-c3		18
eye-antennal disc ML-DmD11		6
antennal disc ML-DmD20-c5		3
mixed discs ML-DmD4-c1		5
CNS ML-DmBG1-c1		10
CNS ML-DmBG2-c2		6
tumorous blood cells mbn2		7
ovary fGS/OSS		19
ovary OSC		17
ovary OSS		8
Expression Level Scale		Extremely high

log, scaled to maximum expression level
Cell Line		Expression Level
Schneider line 2 S2R+		6
Schneider line 2 Sg4		3
embryonic 1182-4H		8
embryonic GM2		6
embryonic Kc167		4
embryonic S1		12
embryonic S3		5
leg disc CME L1		6
wing disc CME-W2		8
wing disc ML-DmD8		7
wing disc ML-DmD9		8
wing disc ML-DmD16-c3		11
wing disc ML-DmD21		2
wing disc ML-DmD32		7
haltere disc ML-DmD17-c3		18
eye-antennal disc ML-DmD11		6
antennal disc ML-DmD20-c5		3
mixed discs ML-DmD4-c1		5
CNS ML-DmBG1-c1		10
CNS ML-DmBG2-c2		6
tumorous blood cells mbn2		7
ovary fGS/OSS		19
ovary OSC		17
ovary OSS		8
Expression Level Scale		Very low Low Moderate Moderately high

log, scaled to Moderate expression
Cell Line		Expression Level
Schneider line 2 S2R+		6
Schneider line 2 Sg4		3
embryonic 1182-4H		8
embryonic GM2		6
embryonic Kc167		4
embryonic S1		12
embryonic S3		5
leg disc CME L1		6
wing disc CME-W2		8
wing disc ML-DmD8		7
wing disc ML-DmD9		8
wing disc ML-DmD16-c3		11
wing disc ML-DmD21		2
wing disc ML-DmD32		7
haltere disc ML-DmD17-c3		18
eye-antennal disc ML-DmD11		6
antennal disc ML-DmD20-c5		3
mixed discs ML-DmD4-c1		5
CNS ML-DmBG1-c1		10
CNS ML-DmBG2-c2		6
tumorous blood cells mbn2		7
ovary fGS/OSS		19
ovary OSC		17
ovary OSS		8
Expression Level Scale		Very low Low Moderate Moderately high

log, scaled to High expression
Cell Line		Expression Level
Schneider line 2 S2R+		6
Schneider line 2 Sg4		3
embryonic 1182-4H		8
embryonic GM2		6
embryonic Kc167		4
embryonic S1		12
embryonic S3		5
leg disc CME L1		6
wing disc CME-W2		8
wing disc ML-DmD8		7
wing disc ML-DmD9		8
wing disc ML-DmD16-c3		11
wing disc ML-DmD21		2
wing disc ML-DmD32		7
haltere disc ML-DmD17-c3		18
eye-antennal disc ML-DmD11		6
antennal disc ML-DmD20-c5		3
mixed discs ML-DmD4-c1		5
CNS ML-DmBG1-c1		10
CNS ML-DmBG2-c2		6
tumorous blood cells mbn2		7
ovary fGS/OSS		19
ovary OSC		17
ovary OSS		8
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+		6
Schneider line 2 Sg4		3
embryonic 1182-4H		8
embryonic GM2		6
embryonic Kc167		4
embryonic S1		12
embryonic S3		5
leg disc CME L1		6
wing disc CME-W2		8
wing disc ML-DmD8		7
wing disc ML-DmD9		8
wing disc ML-DmD16-c3		11
wing disc ML-DmD21		2
wing disc ML-DmD32		7
haltere disc ML-DmD17-c3		18
eye-antennal disc ML-DmD11		6
antennal disc ML-DmD20-c5		3
mixed discs ML-DmD4-c1		5
CNS ML-DmBG1-c1		10
CNS ML-DmBG2-c2		6
tumorous blood cells mbn2		7
ovary fGS/OSS		19
ovary OSC		17
ovary OSS		8
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		11
cold shock, 4-day adult		7
heat shock, 4-day adult		11
Cadmium 50 mM 6 hrs, larvae L3		2
Cadmium 50 mM 12 hrs, larvae L3		2
Cadmium 50 mM 48 hrs, 4-day adult		10
Cadmium 100 mM 48 hrs, 4-day adult		24
Copper 0.5 mM 12 hrs, larvae L3		1
Copper 15 mM 48 hrs, 4-day adult		17
Zinc 5 mM 12 hrs, larvae L3		3
Zinc 4.5 mM 48 hrs, 4-day adult		6
Ethanol 2.5% 3 hrs, larvae L3		24
Ethanol 5% 3 hrs, larvae L3		2
Ethanol 10% 3 hrs, larvae L3		2
Caffeine 1.5 mg/ml 4 hrs, larvae L3		2
Caffeine 2.5 mg/ml 48 hrs, 4-day adult		22
Caffeine 25 mg/ml 48 hrs, 4-day adult		11
Paraquat 5 mM 48 hrs, 4-day adult		17
Paraquat 10 mM 48 hrs, 4-day adult		17
Rotenone 2 μg 12 hrs, larvae L3		1
Rotenone 8 μg 12 hrs, larvae L3		1
Expression Level Scale		Very low Low Moderate Moderately high

Linear, scaled to Moderate expression
Treatment		Expression Level
extended cold, 4-day adult		11
cold shock, 4-day adult		7
heat shock, 4-day adult		11
Cadmium 50 mM 6 hrs, larvae L3		2
Cadmium 50 mM 12 hrs, larvae L3		2
Cadmium 50 mM 48 hrs, 4-day adult		10
Cadmium 100 mM 48 hrs, 4-day adult		24
Copper 0.5 mM 12 hrs, larvae L3		1
Copper 15 mM 48 hrs, 4-day adult		17
Zinc 5 mM 12 hrs, larvae L3		3
Zinc 4.5 mM 48 hrs, 4-day adult		6
Ethanol 2.5% 3 hrs, larvae L3		24
Ethanol 5% 3 hrs, larvae L3		2
Ethanol 10% 3 hrs, larvae L3		2
Caffeine 1.5 mg/ml 4 hrs, larvae L3		2
Caffeine 2.5 mg/ml 48 hrs, 4-day adult		22
Caffeine 25 mg/ml 48 hrs, 4-day adult		11
Paraquat 5 mM 48 hrs, 4-day adult		17
Paraquat 10 mM 48 hrs, 4-day adult		17
Rotenone 2 μg 12 hrs, larvae L3		1
Rotenone 8 μg 12 hrs, larvae L3		1
Expression Level Scale		Very low Low Moderate Moderately high

Linear, scaled to High expression
Treatment		Expression Level
extended cold, 4-day adult		11
cold shock, 4-day adult		7
heat shock, 4-day adult		11
Cadmium 50 mM 6 hrs, larvae L3		2
Cadmium 50 mM 12 hrs, larvae L3		2
Cadmium 50 mM 48 hrs, 4-day adult		10
Cadmium 100 mM 48 hrs, 4-day adult		24
Copper 0.5 mM 12 hrs, larvae L3		1
Copper 15 mM 48 hrs, 4-day adult		17
Zinc 5 mM 12 hrs, larvae L3		3
Zinc 4.5 mM 48 hrs, 4-day adult		6
Ethanol 2.5% 3 hrs, larvae L3		24
Ethanol 5% 3 hrs, larvae L3		2
Ethanol 10% 3 hrs, larvae L3		2
Caffeine 1.5 mg/ml 4 hrs, larvae L3		2
Caffeine 2.5 mg/ml 48 hrs, 4-day adult		22
Caffeine 25 mg/ml 48 hrs, 4-day adult		11
Paraquat 5 mM 48 hrs, 4-day adult		17
Paraquat 10 mM 48 hrs, 4-day adult		17
Rotenone 2 μg 12 hrs, larvae L3		1
Rotenone 8 μg 12 hrs, larvae L3		1
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		11
cold shock, 4-day adult		7
heat shock, 4-day adult		11
Cadmium 50 mM 6 hrs, larvae L3		2
Cadmium 50 mM 12 hrs, larvae L3		2
Cadmium 50 mM 48 hrs, 4-day adult		10
Cadmium 100 mM 48 hrs, 4-day adult		24
Copper 0.5 mM 12 hrs, larvae L3		1
Copper 15 mM 48 hrs, 4-day adult		17
Zinc 5 mM 12 hrs, larvae L3		3
Zinc 4.5 mM 48 hrs, 4-day adult		6
Ethanol 2.5% 3 hrs, larvae L3		24
Ethanol 5% 3 hrs, larvae L3		2
Ethanol 10% 3 hrs, larvae L3		2
Caffeine 1.5 mg/ml 4 hrs, larvae L3		2
Caffeine 2.5 mg/ml 48 hrs, 4-day adult		22
Caffeine 25 mg/ml 48 hrs, 4-day adult		11
Paraquat 5 mM 48 hrs, 4-day adult		17
Paraquat 10 mM 48 hrs, 4-day adult		17
Rotenone 2 μg 12 hrs, larvae L3		1
Rotenone 8 μg 12 hrs, larvae L3		1
Expression Level Scale		Extremely high

log, scaled to maximum expression level
Treatment		Expression Level
extended cold, 4-day adult		11
cold shock, 4-day adult		7
heat shock, 4-day adult		11
Cadmium 50 mM 6 hrs, larvae L3		2
Cadmium 50 mM 12 hrs, larvae L3		2
Cadmium 50 mM 48 hrs, 4-day adult		10
Cadmium 100 mM 48 hrs, 4-day adult		24
Copper 0.5 mM 12 hrs, larvae L3		1
Copper 15 mM 48 hrs, 4-day adult		17
Zinc 5 mM 12 hrs, larvae L3		3
Zinc 4.5 mM 48 hrs, 4-day adult		6
Ethanol 2.5% 3 hrs, larvae L3		24
Ethanol 5% 3 hrs, larvae L3		2
Ethanol 10% 3 hrs, larvae L3		2
Caffeine 1.5 mg/ml 4 hrs, larvae L3		2
Caffeine 2.5 mg/ml 48 hrs, 4-day adult		22
Caffeine 25 mg/ml 48 hrs, 4-day adult		11
Paraquat 5 mM 48 hrs, 4-day adult		17
Paraquat 10 mM 48 hrs, 4-day adult		17
Rotenone 2 μg 12 hrs, larvae L3		1
Rotenone 8 μg 12 hrs, larvae L3		1
Expression Level Scale		Very low Low Moderate Moderately high

log, scaled to Moderate expression
Treatment		Expression Level
extended cold, 4-day adult		11
cold shock, 4-day adult		7
heat shock, 4-day adult		11
Cadmium 50 mM 6 hrs, larvae L3		2
Cadmium 50 mM 12 hrs, larvae L3		2
Cadmium 50 mM 48 hrs, 4-day adult		10
Cadmium 100 mM 48 hrs, 4-day adult		24
Copper 0.5 mM 12 hrs, larvae L3		1
Copper 15 mM 48 hrs, 4-day adult		17
Zinc 5 mM 12 hrs, larvae L3		3
Zinc 4.5 mM 48 hrs, 4-day adult		6
Ethanol 2.5% 3 hrs, larvae L3		24
Ethanol 5% 3 hrs, larvae L3		2
Ethanol 10% 3 hrs, larvae L3		2
Caffeine 1.5 mg/ml 4 hrs, larvae L3		2
Caffeine 2.5 mg/ml 48 hrs, 4-day adult		22
Caffeine 25 mg/ml 48 hrs, 4-day adult		11
Paraquat 5 mM 48 hrs, 4-day adult		17
Paraquat 10 mM 48 hrs, 4-day adult		17
Rotenone 2 μg 12 hrs, larvae L3		1
Rotenone 8 μg 12 hrs, larvae L3		1
Expression Level Scale		Very low Low Moderate Moderately high

log, scaled to High expression
Treatment		Expression Level
extended cold, 4-day adult		11
cold shock, 4-day adult		7
heat shock, 4-day adult		11
Cadmium 50 mM 6 hrs, larvae L3		2
Cadmium 50 mM 12 hrs, larvae L3		2
Cadmium 50 mM 48 hrs, 4-day adult		10
Cadmium 100 mM 48 hrs, 4-day adult		24
Copper 0.5 mM 12 hrs, larvae L3		1
Copper 15 mM 48 hrs, 4-day adult		17
Zinc 5 mM 12 hrs, larvae L3		3
Zinc 4.5 mM 48 hrs, 4-day adult		6
Ethanol 2.5% 3 hrs, larvae L3		24
Ethanol 5% 3 hrs, larvae L3		2
Ethanol 10% 3 hrs, larvae L3		2
Caffeine 1.5 mg/ml 4 hrs, larvae L3		2
Caffeine 2.5 mg/ml 48 hrs, 4-day adult		22
Caffeine 25 mg/ml 48 hrs, 4-day adult		11
Paraquat 5 mM 48 hrs, 4-day adult		17
Paraquat 10 mM 48 hrs, 4-day adult		17
Rotenone 2 μg 12 hrs, larvae L3		1
Rotenone 8 μg 12 hrs, larvae L3		1
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		11
cold shock, 4-day adult		7
heat shock, 4-day adult		11
Cadmium 50 mM 6 hrs, larvae L3		2
Cadmium 50 mM 12 hrs, larvae L3		2
Cadmium 50 mM 48 hrs, 4-day adult		10
Cadmium 100 mM 48 hrs, 4-day adult		24
Copper 0.5 mM 12 hrs, larvae L3		1
Copper 15 mM 48 hrs, 4-day adult		17
Zinc 5 mM 12 hrs, larvae L3		3
Zinc 4.5 mM 48 hrs, 4-day adult		6
Ethanol 2.5% 3 hrs, larvae L3		24
Ethanol 5% 3 hrs, larvae L3		2
Ethanol 10% 3 hrs, larvae L3		2
Caffeine 1.5 mg/ml 4 hrs, larvae L3		2
Caffeine 2.5 mg/ml 48 hrs, 4-day adult		22
Caffeine 25 mg/ml 48 hrs, 4-day adult		11
Paraquat 5 mM 48 hrs, 4-day adult		17
Paraquat 10 mM 48 hrs, 4-day adult		17
Rotenone 2 μg 12 hrs, larvae L3		1
Rotenone 8 μg 12 hrs, larvae L3		1
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

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

•

FBgn0034976

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

•

CG4049-RA

Alleles & Phenotypes

Summary of Allele Phenotypes

Lethality

Allele

viable, with Scer\GAL4^pnr-MD237

CG4049^GD1271

Phenotype manifest in

Allele

Classical Alleles ( 1 )

For All Classical Alleles Show

Allele of CG4049	Class	Mutagen	Stocks	Known lesion
CG4049^f01495			1	--

Alleles Carried on Transgenic Constructs ( 3 )

For All Alleles Carried on Transgenic Constructs Show

Allele of CG4049	Mutagen	Stocks	Known lesion
CG4049^GD1271	in vitro construct - RNAi in vitro construct - regulatory fusion	1	Yes
CG4049^HMS00584	in vitro construct - RNAi in vitro construct - regulatory fusion	1	Yes
CG4049^KK105385	in vitro construct - RNAi in vitro construct - regulatory fusion	1	Yes

Aneuploid Aberrations

Disrupted in

Df(2R)Exel6081

(Ryder, 2004.4.26)

Transgenic Constructs & Insertions

Transgenic Constructs

Type of construct

Name

Expression data

UAS construct

P{GD1271}

P{KK105385}

P{TRiP.HMS00584}

Insertions

Type of insertions

Name

Expression data

miscellaneous insertions

PBac{WH}CG3253^f01495

Gene Ontology: Function, Process & Cellular Component ( 4 unique terms )

Terms Based on Experimental Evidence ( 0 terms )

Terms Based on Predictions or Assertions ( 4 terms )

Molecular Function

CV term

Evidence

References

ATP binding

inferred from electronic annotation with InterPro:IPR000330, InterPro:IPR001650

(FlyBase Curators et al., 2004-)

DNA binding

inferred from electronic annotation with InterPro:IPR000330

(FlyBase Curators et al., 2004-)

helicase activity

inferred from electronic annotation with InterPro:IPR001650

(FlyBase Curators et al., 2004-)

Biological Process

CV term

Evidence

References

DNA repair

inferred from sequence or structural similarity with Saccharomyces RAD54

(FlyBase, 1992-)

Cellular Component ( 0 terms)

Sequence Ontology: Class of Gene

nuclear_gene

protein_coding_gene

Interactions & Pathways

Summary of Physical Interactions

Summary of Genetic Interactions

Interacts with

Please look at the allele data for full details of the genetic interactions

CG4049 allele

Gene

References

External Data

Linkouts

BioGRID - A database of protein and genetic interactions

•

63439

DroID - A comprehensive database of gene and protein interactions.

•

FBgn0034976

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

•

37860

Orthologs

OrthoDB Orthologs (49) - 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

EOG6CJW2C

Dipteran inclusive ortholog search

EOG6CZBPT

Insect inclusive ortholog search

EOG6WDC6K

Arthropod inclusive ortholog search

EOG6PNVXN

Metazoa inclusive ortholog search

EOG679T0N

Orthologs in Drosophila Species (EOG6CJW2C)

Organism

Common Name

Gene

AAA Syntenic Ortholog

Multiple Dmel Genes in this Orthologous Group

Drosophila melanogaster

fruit fly

Drosophila sechellia

Drosophila erecta

Drosophila yakuba

Drosophila ananassae

Drosophila pseudoobscura pseudoobscura

Dpse\GA24365

Drosophila persimilis

Dper\GL10420

Drosophila willistoni

Dwil\GK21938

Drosophila virilis

Dvir\GJ20429

Drosophila mojavensis

Dmoj\GI20681

Drosophila grimshawi

Dgri\GH20163

Orthologs in non-Drosophila Dipterans (EOG6CZBPT)

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Aedes aegypti

Yellow fever mosquito

Aaeg\AAEL008484

Aedes aegypti

Yellow fever mosquito

Aaeg\AAEL012230

Anopheles gambiae

Malaria mosquito

Agam\AGAP007573

Culex quinquefasciatus

Southern house mosquito

Cqui\CPIJ000196

Orthologs in non-Dipteran Insects (EOG6WDC6K)

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Apis mellifera

Western honey bee

Amel\GB51998

Nasonia vitripennis

Parasitic wasp

Nvit\Nasvi2EG013783

Nasonia vitripennis

Parasitic wasp

Nvit\Nasvi2EG013782

Acromyrmex echinatior

Panamanian leafcutter ant

Aech\AECH17780

Atta cephalotes

Leafcutter ant

Acep\ACEP15666

Camponotus floridanus

Florida carpenter ant

Cflo\CFLO14191

Harpegnathos saltator

Jerdons jumping ant

Hsal\HSAL12677

Linepithema humile

Argentine ant

Lhum\LH22542

Pogonomyrmex barbatus

Red harvester ant

Pbar\PB14537

Solenopsis invicta

Red fire ant

Sinv\SINV14720

Acyrthosiphon pisum

Pea aphid

Apim\ACYPI005940

Bombyx mori

Silkmoth

Bmor\BGIBMGA002247

Bombyx mori

Silkmoth

Bmor\BGIBMGA009989

Pediculus humanus

Human body louse

Phum\PHUM576960

Tribolium castaneum

Red flour beetle

Tcas\TC010670

Orthologs in non-Insect Arthropods (EOG6PNVXN)

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Daphnia pulex

Water flea

Dpux\JGI_V11_102666

Ixodes scapularis

Deer tick

Isca\ISCW011727

Orthologs in non-Arthropod Metazoa (EOG679T0N)

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Caenorhabditis elegans

Nematode

Cele\rad-26

Caenorhabditis elegans

Nematode

Cele\B0041.7

Strongylocentrotus purpuratus

Purple sea urchin

Spur\SPU_001388gn

Strongylocentrotus purpuratus

Purple sea urchin

Spur\SPU_025171gn

Strongylocentrotus purpuratus

Purple sea urchin

Spur\SPU_007773gn

Danio rerio

Zebrafish

Drer\OTTDARG00000032075

Danio rerio

Zebrafish

Drer\ENSDARG00000063031

Xenopus tropicalis

Western clawed frog

Xtro\rad54l2

Xenopus tropicalis

Western clawed frog

Xtro\atrx

Gallus gallus

Domestic chicken

Ggal\RAD54L2

Gallus gallus

Domestic chicken

Ggal\ATRX

Mus musculus

House mouse

Mmus\Rad54l2

Mus musculus

House mouse

Mmus\Atrx

Rattus norvegicus

Norway rat

Rnor\Atrx

Rattus norvegicus

Norway rat

Rnor\Rad54l

Homo sapiens

Human

Hsap\ATRX

Homo sapiens

Human

Hsap\RAD54L2

Human Orthologs (2)

Gene

OMIM

HGNC

Hsap\ATRX

Hsap\RAD54L2

AAA Orthologs (10) based on analysis using Dmel annotation version 4.3

Organism

Gene

Drosophila sechellia

Drosophila erecta

Drosophila yakuba

Drosophila ananassae

Drosophila pseudoobscura pseudoobscura

Dpse\GA24365

Drosophila persimilis

Dper\GL10420

Drosophila willistoni

Dwil\GK21938

Drosophila virilis

Dvir\GJ20429

Drosophila mojavensis

Dmoj\GI20681

Drosophila grimshawi

Dgri\GH20163

Stocks & Reagents

Stocks Listed in FlyBase ( 4 )

Bloomington

34077

y¹ sc^* v¹; P{TRiP.HMS00584}attP2/TM3, Sb¹

Harvard

PBac{WH}CG3253^f01495

VDRC

v101670

P{KK105385}VIE-260B

v6981

w¹¹¹⁸; P{GD1271}v6981/CyO

Genomic Clones ( 1 )

BACR27M17

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

cDNA Clones ( 32 )

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

Other clones

LD04705

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi & Array Information

Linkouts

DRSC - Results from RNAi screens.

•

FBgn0034976

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

•

37860

Antibody Information

Other Information

Discoverer

Etymology

Identification

Relationship to Other Genes

Source for database identity of

Source for database merge of

Source for merge of: CG4049 BEST:LD04705

(Rana, 2004.7.8)

Additional comments

Other Comments

Shows particularly robust cycling of transcription in adult heads, as assessed by expression analysis using high density oligonucleotide arrays with probe generated during three 12-point time course experiments over the course of 6 days. Shows significant change of expression pattern in circadian mutant background; decreased expression in per⁰¹, tim⁰¹ and Clk^Jrk background.

(Claridge-Chang et al., 2001)

External Crossreferences & Linkouts

Sequence Crossreferences

RefSeq (Transcripts)

•

NM_138041

RefSeq (Proteins)

•

NP_611885

DDBJ / EMBL / GenBank

•

Entrez Gene - A searchable database of RefSeq genes.

•

37860

UniProtKB/TrEMBL

•

Q9W1A8

Other Crossreferences

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

•

SNF2-related (IPR000330)

Helicase, C-terminal (IPR001650)

P-loop containing nucleoside triphosphate hydrolase (IPR027417)

Helicase, superfamily 1/2, ATP-binding domain (IPR014001)

Linkouts

BioGRID - A database of protein and genetic interactions

•

63439

DroID - A comprehensive database of gene and protein interactions.

•

FBgn0034976

DRSC - Results from RNAi screens.

•

FBgn0034976

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

•

FBgn0034976

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

•

CG4049-RA

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

•

FBgn0034976

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

•

37860

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

•

37860

modMine - Data generated by the modENCODE project.

•

FBgn0034976

Synonyms & Secondary IDs ( 4 )

Reported As

Symbol Synonym

Arip4

(Schneiderman et al., 2009)

BEST:LD04705

CG4049

(Ayroles et al., 2009, Keleman et al., 2009.8.5, Schneiderman et al., 2009, Ni et al., 2010.12.1)

Name Synonym

R-gene

(Nouaud et al., 1999)

Secondary FlyBase IDs

FBgn0041704

References ( 19 )

Research paper

Ayroles et al., 2009, Nat. Genet. 41(3): 299--307: Systems genetics of complex traits in Drosophila melanogaster. [FBrf0206705]
Schneiderman et al., 2009, Proc. Natl. Acad. Sci. U.S.A. 106(34): 14472--14477: The XNP remodeler targets dynamic chromatin in Drosophila. [FBrf0208542]
Claridge-Chang et al., 2001, Neuron 32(4): 657--671: Circadian regulation of gene expression systems in the Drosophila head. [FBrf0141689]
Nouaud et al., 1999, Mol. Biol. Evol. 16(11): 1503--1510: A P element has induced intron formation in Drosophila. [FBrf0111992]

Supplementary material

Graveley et al., 2011, Nature 471(7339):: Supplementary Table 33. Fuzzy Cluster Members. [FBrf0213980]
The modENCODE Consortium, 2010, Science 330(6012):: DataS14: Gene co-expression clusters. [FBrf0213979]
Mummery-Widmer et al., 2009, Nature 458(7241):: Supplementary Table 2 - Genome-wide bristle screen results. [FBrf0214518]
Giot et al., 2003, Science 302(5651):: Tables S1 to S7. [FBrf0166452]

Personal communication to FlyBase

Ni et al., 2010.12.1, A genome-scale shRNA resource for transgenic RNAi in Drosophila.: A genome-scale shRNA resource for transgenic RNAi in Drosophila. [FBrf0212437]
Keleman et al., 2009.8.5, RNAi-phiC31 construct and insertion data submitted by the Vienna Drosophila RNAi Center: RNAi-phiC31 construct and insertion data submitted by the Vienna Drosophila RNAi Center [FBrf0208510]
Dickson et al., 2007.7.18, RNAi construct and insertion data submitted by the Vienna Drosophila RNAi Center: RNAi construct and insertion data submitted by the Vienna Drosophila RNAi Center [FBrf0200327]
FlyBase Curators et al., 2004-, Gene Ontology annotation in FlyBase through association of InterPro records with GO terms.: Gene Ontology annotation in FlyBase through association of InterPro records with GO terms. [FBrf0174215]
Rana, 2004.7.8, BLAST analysis.: BLAST analysis. [FBrf0178762]
Ryder, 2004.4.26, Exelixis CG deletion data.: Exelixis CG deletion data. [FBrf0184335]
Bryce, 2003.3.17, FlyBase error report for CG4049 on Mon Mar 17 06:52:58 2003.: FlyBase error report for CG4049 on Mon Mar 17 06:52:58 2003. [FBrf0157247]
Levis, 2001.7.6, MdaPK gene may = gek gene (?).: MdaPK gene may = gek gene (?). [FBrf0138604]

FlyBase analysis

FlyBase, 1992-, FlyBase curation.: FlyBase curation. [FBrf0105495]

Curated genome annotation

FamiliarityBreedsContempt, 1999.11, [Automatic annotations performed at the Celera Jamboreee.]: [Automatic annotations performed at the Celera Jamboreee.] [FBrf0126705]