Gene Dmel\CG10399

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General Information

Symbol

Dmel\CG10399

Species

D. melanogaster

Name

Annotation symbol

CG10399

Feature type

protein_coding_gene

FlyBase ID

FBgn0031877

Gene Model Status

Current

Stock availability

2 publicly available

Genomic Location

Chromosome (arm)

Recombination map

Cytogenetic map

27C7-27C7

Sequence location

2L:6,960,426..6,961,552 [+]

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\CG10399 (FBgn0031877). It is a protein_coding_gene from Drosophila melanogaster. Based on sequence similarity, it is predicted to have molecular function: hydroxymethylglutaryl-CoA lyase activity. Based on sequence similarity, it is predicted to be involved in the biological process: leucine metabolic process. 3 alleles are reported. No phenotypic data is available. It has one annotated transcript and one annotated polypeptide. Protein features are: Aldolase-type TIM barrel; Hydroxymethylglutaryl-CoA lyase; Pyruvate carboxyltransferase. 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 during early larval stages. Summary of FlyAtlas Anatomical Expression Data: Expression at moderate levels in the following post-embryonic organs or tissues: larval hindgut, adult Malpighian tubules, adult heart, adult fat body, larval salivary gland, adult spermathecae. Comments on Affy2 ProbeSet: ProbeSet 1633760_at completely aligns to an exonic region of the only FlyBase-annotated transcript isoform of CG10399. Gene sequence location is 2L:6960426..6961552.

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

27C7-27C7

Limits computationally determined from genome sequence between P{lacW}xl6^k00230&P{EP}Hrb27C^EP748 and P{PZ}smt3⁰⁴⁸⁴¹&P{PZ}smt3⁰⁴⁴⁹³

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\CG10399 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)

CG10399-RA

FBtr0079351

NM_135245

1068

323

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

CG10399-PA

FBpp0078979

34.2

323

8.55

NP_609089

AAF52467

Additional Polypeptide Data & Comments

Reported size (kDa)

Comments

External Data

Linkouts

Crossreferences

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

•

Pyruvate carboxyltransferase (IPR000891)

Aldolase-type TIM barrel (IPR013785)

Hydroxymethylglutaryl-CoA lyase (IPR027167)

MitoDrome - A database of annotated Dmel nuclear genes encoding mitochondrial proteins

•

MTDROME10399

Sequences Consistent with the Gene Model

DDBJ /
EMBL /
GenBank

DNA sequence

Protein sequence

Name

Q9VM58

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

microtubule associated complex

inferred from direct assay

(Hughes et al., 2008)

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

Reference

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

FlyAtlas Anatomy Microarray

FlyAtlas Anatomical Expression Data

(FlyAtlas-RNA.adult)

(FlyAtlas-RNA.larva)

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

Summary of FlyAtlas Anatomical Expression Data: Expression at moderate levels in the following post-embryonic organs or tissues: larval hindgut, adult Malpighian tubules, adult heart, adult fat body, larval salivary gland, adult spermathecae.
[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		36.875
Larval Midgut		70.5
Larval Hindgut		120.3
Larval Malpighian Tubules		55.4
Larval Fat Body		59.9
Larval Salivary Gland		178.3
Larval Trachea		97.8
Larval Carcass		90.875
Adult Head		69.1
Adult Eye		48.15
Adult Brain		17.4
Adult Thoracic-Abdominal Ganglion		21.5
Adult Crop		33.7
Adult Midgut		82.8
Adult Hindgut		76.6
Adult Malpighian Tubules		325.6
Adult Fat Body		150.8
Adult Salivary Gland		64.4
Adult Heart		121.15
Adult VirginFemale Spermatheca		137.8
Adult InseminatedFemale Spermatheca		102.5
Adult Ovary		70
Adult Testis		10.9
Adult Male Accessory Gland		28.7
Adult Carcass		89.3
Expression Level Scale		None Low Moderate

Linear, scaled to Moderate expression
Tissue		Expression Level
Larval Central Nervous System		36.875
Larval Midgut		70.5
Larval Hindgut		120.3
Larval Malpighian Tubules		55.4
Larval Fat Body		59.9
Larval Salivary Gland		178.3
Larval Trachea		97.8
Larval Carcass		90.875
Adult Head		69.1
Adult Eye		48.15
Adult Brain		17.4
Adult Thoracic-Abdominal Ganglion		21.5
Adult Crop		33.7
Adult Midgut		82.8
Adult Hindgut		76.6
Adult Malpighian Tubules		325.6
Adult Fat Body		150.8
Adult Salivary Gland		64.4
Adult Heart		121.15
Adult VirginFemale Spermatheca		137.8
Adult InseminatedFemale Spermatheca		102.5
Adult Ovary		70
Adult Testis		10.9
Adult Male Accessory Gland		28.7
Adult Carcass		89.3
Expression Level Scale		None Low Moderate High

Linear, scaled to High level expression
Tissue		Expression Level
Larval Central Nervous System		36.875
Larval Midgut		70.5
Larval Hindgut		120.3
Larval Malpighian Tubules		55.4
Larval Fat Body		59.9
Larval Salivary Gland		178.3
Larval Trachea		97.8
Larval Carcass		90.875
Adult Head		69.1
Adult Eye		48.15
Adult Brain		17.4
Adult Thoracic-Abdominal Ganglion		21.5
Adult Crop		33.7
Adult Midgut		82.8
Adult Hindgut		76.6
Adult Malpighian Tubules		325.6
Adult Fat Body		150.8
Adult Salivary Gland		64.4
Adult Heart		121.15
Adult VirginFemale Spermatheca		137.8
Adult InseminatedFemale Spermatheca		102.5
Adult Ovary		70
Adult Testis		10.9
Adult Male Accessory Gland		28.7
Adult Carcass		89.3
Expression Level Scale		None Low Moderate High Very high

Linear, scaled to Very high expression
Tissue		Expression Level
Larval Central Nervous System		36.875
Larval Midgut		70.5
Larval Hindgut		120.3
Larval Malpighian Tubules		55.4
Larval Fat Body		59.9
Larval Salivary Gland		178.3
Larval Trachea		97.8
Larval Carcass		90.875
Adult Head		69.1
Adult Eye		48.15
Adult Brain		17.4
Adult Thoracic-Abdominal Ganglion		21.5
Adult Crop		33.7
Adult Midgut		82.8
Adult Hindgut		76.6
Adult Malpighian Tubules		325.6
Adult Fat Body		150.8
Adult Salivary Gland		64.4
Adult Heart		121.15
Adult VirginFemale Spermatheca		137.8
Adult InseminatedFemale Spermatheca		102.5
Adult Ovary		70
Adult Testis		10.9
Adult Male Accessory Gland		28.7
Adult Carcass		89.3
Expression Level Scale		Very high

log, scaled to maximum expression level
Tissue		Expression Level
Larval Central Nervous System		36.875
Larval Midgut		70.5
Larval Hindgut		120.3
Larval Malpighian Tubules		55.4
Larval Fat Body		59.9
Larval Salivary Gland		178.3
Larval Trachea		97.8
Larval Carcass		90.875
Adult Head		69.1
Adult Eye		48.15
Adult Brain		17.4
Adult Thoracic-Abdominal Ganglion		21.5
Adult Crop		33.7
Adult Midgut		82.8
Adult Hindgut		76.6
Adult Malpighian Tubules		325.6
Adult Fat Body		150.8
Adult Salivary Gland		64.4
Adult Heart		121.15
Adult VirginFemale Spermatheca		137.8
Adult InseminatedFemale Spermatheca		102.5
Adult Ovary		70
Adult Testis		10.9
Adult Male Accessory Gland		28.7
Adult Carcass		89.3
Expression Level Scale		None Low Moderate High

log, scaled to Moderate expression
Tissue		Expression Level
Larval Central Nervous System		36.875
Larval Midgut		70.5
Larval Hindgut		120.3
Larval Malpighian Tubules		55.4
Larval Fat Body		59.9
Larval Salivary Gland		178.3
Larval Trachea		97.8
Larval Carcass		90.875
Adult Head		69.1
Adult Eye		48.15
Adult Brain		17.4
Adult Thoracic-Abdominal Ganglion		21.5
Adult Crop		33.7
Adult Midgut		82.8
Adult Hindgut		76.6
Adult Malpighian Tubules		325.6
Adult Fat Body		150.8
Adult Salivary Gland		64.4
Adult Heart		121.15
Adult VirginFemale Spermatheca		137.8
Adult InseminatedFemale Spermatheca		102.5
Adult Ovary		70
Adult Testis		10.9
Adult Male Accessory Gland		28.7
Adult Carcass		89.3
Expression Level Scale		None Low Moderate High

log, scaled to High level expression
Tissue		Expression Level
Larval Central Nervous System		36.875
Larval Midgut		70.5
Larval Hindgut		120.3
Larval Malpighian Tubules		55.4
Larval Fat Body		59.9
Larval Salivary Gland		178.3
Larval Trachea		97.8
Larval Carcass		90.875
Adult Head		69.1
Adult Eye		48.15
Adult Brain		17.4
Adult Thoracic-Abdominal Ganglion		21.5
Adult Crop		33.7
Adult Midgut		82.8
Adult Hindgut		76.6
Adult Malpighian Tubules		325.6
Adult Fat Body		150.8
Adult Salivary Gland		64.4
Adult Heart		121.15
Adult VirginFemale Spermatheca		137.8
Adult InseminatedFemale Spermatheca		102.5
Adult Ovary		70
Adult Testis		10.9
Adult Male Accessory Gland		28.7
Adult Carcass		89.3
Expression Level Scale		None Low Moderate High Very high

log, scaled to Very high expression
Tissue		Expression Level
Larval Central Nervous System		36.875
Larval Midgut		70.5
Larval Hindgut		120.3
Larval Malpighian Tubules		55.4
Larval Fat Body		59.9
Larval Salivary Gland		178.3
Larval Trachea		97.8
Larval Carcass		90.875
Adult Head		69.1
Adult Eye		48.15
Adult Brain		17.4
Adult Thoracic-Abdominal Ganglion		21.5
Adult Crop		33.7
Adult Midgut		82.8
Adult Hindgut		76.6
Adult Malpighian Tubules		325.6
Adult Fat Body		150.8
Adult Salivary Gland		64.4
Adult Heart		121.15
Adult VirginFemale Spermatheca		137.8
Adult InseminatedFemale Spermatheca		102.5
Adult Ovary		70
Adult Testis		10.9
Adult Male Accessory Gland		28.7
Adult Carcass		89.3
Expression Level Scale		None Low Moderate High Very high

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

FlyAtlas Organ/Tissue Expression, larval vs. adult
Larval Expression Level	Tissue	Adult Expression Level
NA	Head	69.1
NA	Eye	48.15
NA	Brain	17.4
36.875	Central Nervous System	NA
NA	Thoracic-Abdominal Ganglion	21.5
NA	Crop	33.7
70.5	Midgut	82.8
120.3	Hindgut	76.6
55.4	Malpighian Tubules	325.6
59.9	Fat Body	150.8
178.3	Salivary Gland	64.4
NA	Heart	121.15
97.8	Trachea	NA
NA	VirginFemale Spermatheca	137.8
NA	InseminatedFemale Spermatheca	102.5
NA	Ovary	70
NA	Testis	10.9
NA	Male Accessory Gland	28.7
90.875	Carcass	89.3

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

modENCODE Anatomy RNA-Seq

modENCODE Tissue Expression Data

(modENCODE_mRNA-Seq_tissues)

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

[download data (TSV)]

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

Linear, scaled to maximum expression level
Tissue		Expression Level
imaginal disc, larvae L3 wandering		2
central nervous system, larvae L3		1
central nervous system, pupae P8		1
head, virgin 1-day female		3
head, virgin 4-day female		2
head, virgin 20-day female		3
head, mated 1-day female		2
head, mated 4-day female		1
head, mated 20-day female		2
head, mated 1-day male		2
head, mated 4-day male		2
head, mated 20-day male		3
salivary gland, larvae L3 wandering		3
salivary gland, white prepupae		0
digestive system, larvae L3 wandering		3
digestive system, 1-day adult		4
digestive system, 4-day adult		3
digestive system, 20-day adult		4
fat body, larvae L3 wandering		2
fat body, white prepupae		2
fat body, pupae P8		0
carcass, larvae L3 wandering		2
carcass, 1-day adult		2
carcass, 4-day adult		2
carcass, 20-day adult		3
ovary, virgin 4-day female		4
ovary, mated 4-day female		4
testis, mated 4-day male		1
accessory gland, mated 4-day male		0
Expression Level Scale		Very low Low Moderate

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

log, scaled to Moderate expression
Tissue		Expression Level
imaginal disc, larvae L3 wandering		2
central nervous system, larvae L3		1
central nervous system, pupae P8		1
head, virgin 1-day female		3
head, virgin 4-day female		2
head, virgin 20-day female		3
head, mated 1-day female		2
head, mated 4-day female		1
head, mated 20-day female		2
head, mated 1-day male		2
head, mated 4-day male		2
head, mated 20-day male		3
salivary gland, larvae L3 wandering		3
salivary gland, white prepupae		0
digestive system, larvae L3 wandering		3
digestive system, 1-day adult		4
digestive system, 4-day adult		3
digestive system, 20-day adult		4
fat body, larvae L3 wandering		2
fat body, white prepupae		2
fat body, pupae P8		0
carcass, larvae L3 wandering		2
carcass, 1-day adult		2
carcass, 4-day adult		2
carcass, 20-day adult		3
ovary, virgin 4-day female		4
ovary, mated 4-day female		4
testis, mated 4-day male		1
accessory gland, mated 4-day male		0
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		1
central nervous system, pupae P8		1
head, virgin 1-day female		3
head, virgin 4-day female		2
head, virgin 20-day female		3
head, mated 1-day female		2
head, mated 4-day female		1
head, mated 20-day female		2
head, mated 1-day male		2
head, mated 4-day male		2
head, mated 20-day male		3
salivary gland, larvae L3 wandering		3
salivary gland, white prepupae		0
digestive system, larvae L3 wandering		3
digestive system, 1-day adult		4
digestive system, 4-day adult		3
digestive system, 20-day adult		4
fat body, larvae L3 wandering		2
fat body, white prepupae		2
fat body, pupae P8		0
carcass, larvae L3 wandering		2
carcass, 1-day adult		2
carcass, 4-day adult		2
carcass, 20-day adult		3
ovary, virgin 4-day female		4
ovary, mated 4-day female		4
testis, mated 4-day male		1
accessory gland, mated 4-day male		0
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		1
central nervous system, pupae P8		1
head, virgin 1-day female		3
head, virgin 4-day female		2
head, virgin 20-day female		3
head, mated 1-day female		2
head, mated 4-day female		1
head, mated 20-day female		2
head, mated 1-day male		2
head, mated 4-day male		2
head, mated 20-day male		3
salivary gland, larvae L3 wandering		3
salivary gland, white prepupae		0
digestive system, larvae L3 wandering		3
digestive system, 1-day adult		4
digestive system, 4-day adult		3
digestive system, 20-day adult		4
fat body, larvae L3 wandering		2
fat body, white prepupae		2
fat body, pupae P8		0
carcass, larvae L3 wandering		2
carcass, 1-day adult		2
carcass, 4-day adult		2
carcass, 20-day adult		3
ovary, virgin 4-day female		4
ovary, mated 4-day female		4
testis, mated 4-day male		1
accessory gland, mated 4-day male		0
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 during early larval 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		10
embryo 02-04hr		10
embryo 04-06hr		7
embryo 06-08hr		4
embryo 08-10hr		4
embryo 10-12hr		6
embryo 12-14hr		6
embryo 14-16hr		10
embryo 16-18hr		5
embryo 18-20hr		4
embryo 20-22hr		6
embryo 22-24hr		5
larva L1		19
larva L2		21
larva L3 12hr old		23
larva L3 puffstage 1-2		9
larva L3 puffstage 3-6		7
larva L3 puffstage 7-9		6
white prepupae new		5
white prepupae 12hr		4
white prepupae 24hr		5
pupae 2d postWPP		6
pupae 3d postWPP		5
pupae 4d postWPP		11
adult male 01day		8
adult male 05day		8
adult male 30day		9
adult female 01day		13
adult female 05day		11
adult female 30day		13
Expression Level Scale		Very low Low Moderate Moderately high

Linear, scaled to Moderate expression
Developmental Stage		Expression Level
embryo 00-02hr		10
embryo 02-04hr		10
embryo 04-06hr		7
embryo 06-08hr		4
embryo 08-10hr		4
embryo 10-12hr		6
embryo 12-14hr		6
embryo 14-16hr		10
embryo 16-18hr		5
embryo 18-20hr		4
embryo 20-22hr		6
embryo 22-24hr		5
larva L1		19
larva L2		21
larva L3 12hr old		23
larva L3 puffstage 1-2		9
larva L3 puffstage 3-6		7
larva L3 puffstage 7-9		6
white prepupae new		5
white prepupae 12hr		4
white prepupae 24hr		5
pupae 2d postWPP		6
pupae 3d postWPP		5
pupae 4d postWPP		11
adult male 01day		8
adult male 05day		8
adult male 30day		9
adult female 01day		13
adult female 05day		11
adult female 30day		13
Expression Level Scale		Very low Low Moderate Moderately high

Linear, scaled to High expression
Developmental Stage		Expression Level
embryo 00-02hr		10
embryo 02-04hr		10
embryo 04-06hr		7
embryo 06-08hr		4
embryo 08-10hr		4
embryo 10-12hr		6
embryo 12-14hr		6
embryo 14-16hr		10
embryo 16-18hr		5
embryo 18-20hr		4
embryo 20-22hr		6
embryo 22-24hr		5
larva L1		19
larva L2		21
larva L3 12hr old		23
larva L3 puffstage 1-2		9
larva L3 puffstage 3-6		7
larva L3 puffstage 7-9		6
white prepupae new		5
white prepupae 12hr		4
white prepupae 24hr		5
pupae 2d postWPP		6
pupae 3d postWPP		5
pupae 4d postWPP		11
adult male 01day		8
adult male 05day		8
adult male 30day		9
adult female 01day		13
adult female 05day		11
adult female 30day		13
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		10
embryo 02-04hr		10
embryo 04-06hr		7
embryo 06-08hr		4
embryo 08-10hr		4
embryo 10-12hr		6
embryo 12-14hr		6
embryo 14-16hr		10
embryo 16-18hr		5
embryo 18-20hr		4
embryo 20-22hr		6
embryo 22-24hr		5
larva L1		19
larva L2		21
larva L3 12hr old		23
larva L3 puffstage 1-2		9
larva L3 puffstage 3-6		7
larva L3 puffstage 7-9		6
white prepupae new		5
white prepupae 12hr		4
white prepupae 24hr		5
pupae 2d postWPP		6
pupae 3d postWPP		5
pupae 4d postWPP		11
adult male 01day		8
adult male 05day		8
adult male 30day		9
adult female 01day		13
adult female 05day		11
adult female 30day		13
Expression Level Scale		Extremely high

log, scaled to maximum expression level
Developmental Stage		Expression Level
embryo 00-02hr		10
embryo 02-04hr		10
embryo 04-06hr		7
embryo 06-08hr		4
embryo 08-10hr		4
embryo 10-12hr		6
embryo 12-14hr		6
embryo 14-16hr		10
embryo 16-18hr		5
embryo 18-20hr		4
embryo 20-22hr		6
embryo 22-24hr		5
larva L1		19
larva L2		21
larva L3 12hr old		23
larva L3 puffstage 1-2		9
larva L3 puffstage 3-6		7
larva L3 puffstage 7-9		6
white prepupae new		5
white prepupae 12hr		4
white prepupae 24hr		5
pupae 2d postWPP		6
pupae 3d postWPP		5
pupae 4d postWPP		11
adult male 01day		8
adult male 05day		8
adult male 30day		9
adult female 01day		13
adult female 05day		11
adult female 30day		13
Expression Level Scale		Very low Low Moderate Moderately high

log, scaled to Moderate expression
Developmental Stage		Expression Level
embryo 00-02hr		10
embryo 02-04hr		10
embryo 04-06hr		7
embryo 06-08hr		4
embryo 08-10hr		4
embryo 10-12hr		6
embryo 12-14hr		6
embryo 14-16hr		10
embryo 16-18hr		5
embryo 18-20hr		4
embryo 20-22hr		6
embryo 22-24hr		5
larva L1		19
larva L2		21
larva L3 12hr old		23
larva L3 puffstage 1-2		9
larva L3 puffstage 3-6		7
larva L3 puffstage 7-9		6
white prepupae new		5
white prepupae 12hr		4
white prepupae 24hr		5
pupae 2d postWPP		6
pupae 3d postWPP		5
pupae 4d postWPP		11
adult male 01day		8
adult male 05day		8
adult male 30day		9
adult female 01day		13
adult female 05day		11
adult female 30day		13
Expression Level Scale		Very low Low Moderate Moderately high

log, scaled to High expression
Developmental Stage		Expression Level
embryo 00-02hr		10
embryo 02-04hr		10
embryo 04-06hr		7
embryo 06-08hr		4
embryo 08-10hr		4
embryo 10-12hr		6
embryo 12-14hr		6
embryo 14-16hr		10
embryo 16-18hr		5
embryo 18-20hr		4
embryo 20-22hr		6
embryo 22-24hr		5
larva L1		19
larva L2		21
larva L3 12hr old		23
larva L3 puffstage 1-2		9
larva L3 puffstage 3-6		7
larva L3 puffstage 7-9		6
white prepupae new		5
white prepupae 12hr		4
white prepupae 24hr		5
pupae 2d postWPP		6
pupae 3d postWPP		5
pupae 4d postWPP		11
adult male 01day		8
adult male 05day		8
adult male 30day		9
adult female 01day		13
adult female 05day		11
adult female 30day		13
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		10
embryo 02-04hr		10
embryo 04-06hr		7
embryo 06-08hr		4
embryo 08-10hr		4
embryo 10-12hr		6
embryo 12-14hr		6
embryo 14-16hr		10
embryo 16-18hr		5
embryo 18-20hr		4
embryo 20-22hr		6
embryo 22-24hr		5
larva L1		19
larva L2		21
larva L3 12hr old		23
larva L3 puffstage 1-2		9
larva L3 puffstage 3-6		7
larva L3 puffstage 7-9		6
white prepupae new		5
white prepupae 12hr		4
white prepupae 24hr		5
pupae 2d postWPP		6
pupae 3d postWPP		5
pupae 4d postWPP		11
adult male 01day		8
adult male 05day		8
adult male 30day		9
adult female 01day		13
adult female 05day		11
adult female 30day		13
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		4
embryonic 1182-4H		3
embryonic GM2		4
embryonic Kc167		3
embryonic S1		6
embryonic S3		7
leg disc CME L1		2
wing disc CME-W2		6
wing disc ML-DmD8		3
wing disc ML-DmD9		6
wing disc ML-DmD16-c3		5
wing disc ML-DmD21		5
wing disc ML-DmD32		3
haltere disc ML-DmD17-c3		2
eye-antennal disc ML-DmD11		10
antennal disc ML-DmD20-c5		5
mixed discs ML-DmD4-c1		4
CNS ML-DmBG1-c1		4
CNS ML-DmBG2-c2		3
tumorous blood cells mbn2		3
ovary fGS/OSS		2
ovary OSC		1
ovary OSS		1
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		4
embryonic 1182-4H		3
embryonic GM2		4
embryonic Kc167		3
embryonic S1		6
embryonic S3		7
leg disc CME L1		2
wing disc CME-W2		6
wing disc ML-DmD8		3
wing disc ML-DmD9		6
wing disc ML-DmD16-c3		5
wing disc ML-DmD21		5
wing disc ML-DmD32		3
haltere disc ML-DmD17-c3		2
eye-antennal disc ML-DmD11		10
antennal disc ML-DmD20-c5		5
mixed discs ML-DmD4-c1		4
CNS ML-DmBG1-c1		4
CNS ML-DmBG2-c2		3
tumorous blood cells mbn2		3
ovary fGS/OSS		2
ovary OSC		1
ovary OSS		1
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		4
embryonic 1182-4H		3
embryonic GM2		4
embryonic Kc167		3
embryonic S1		6
embryonic S3		7
leg disc CME L1		2
wing disc CME-W2		6
wing disc ML-DmD8		3
wing disc ML-DmD9		6
wing disc ML-DmD16-c3		5
wing disc ML-DmD21		5
wing disc ML-DmD32		3
haltere disc ML-DmD17-c3		2
eye-antennal disc ML-DmD11		10
antennal disc ML-DmD20-c5		5
mixed discs ML-DmD4-c1		4
CNS ML-DmBG1-c1		4
CNS ML-DmBG2-c2		3
tumorous blood cells mbn2		3
ovary fGS/OSS		2
ovary OSC		1
ovary OSS		1
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		4
embryonic 1182-4H		3
embryonic GM2		4
embryonic Kc167		3
embryonic S1		6
embryonic S3		7
leg disc CME L1		2
wing disc CME-W2		6
wing disc ML-DmD8		3
wing disc ML-DmD9		6
wing disc ML-DmD16-c3		5
wing disc ML-DmD21		5
wing disc ML-DmD32		3
haltere disc ML-DmD17-c3		2
eye-antennal disc ML-DmD11		10
antennal disc ML-DmD20-c5		5
mixed discs ML-DmD4-c1		4
CNS ML-DmBG1-c1		4
CNS ML-DmBG2-c2		3
tumorous blood cells mbn2		3
ovary fGS/OSS		2
ovary OSC		1
ovary OSS		1
Expression Level Scale		Extremely high

log, scaled to maximum expression level
Cell Line		Expression Level
Schneider line 2 S2R+		6
Schneider line 2 Sg4		4
embryonic 1182-4H		3
embryonic GM2		4
embryonic Kc167		3
embryonic S1		6
embryonic S3		7
leg disc CME L1		2
wing disc CME-W2		6
wing disc ML-DmD8		3
wing disc ML-DmD9		6
wing disc ML-DmD16-c3		5
wing disc ML-DmD21		5
wing disc ML-DmD32		3
haltere disc ML-DmD17-c3		2
eye-antennal disc ML-DmD11		10
antennal disc ML-DmD20-c5		5
mixed discs ML-DmD4-c1		4
CNS ML-DmBG1-c1		4
CNS ML-DmBG2-c2		3
tumorous blood cells mbn2		3
ovary fGS/OSS		2
ovary OSC		1
ovary OSS		1
Expression Level Scale		Very low Low Moderate

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

Linear, scaled to Moderate expression
Treatment		Expression Level
extended cold, 4-day adult		2
cold shock, 4-day adult		2
heat shock, 4-day adult		6
Cadmium 50 mM 6 hrs, larvae L3		7
Cadmium 50 mM 12 hrs, larvae L3		5
Cadmium 50 mM 48 hrs, 4-day adult		7
Cadmium 100 mM 48 hrs, 4-day adult		3
Copper 0.5 mM 12 hrs, larvae L3		3
Copper 15 mM 48 hrs, 4-day adult		1
Zinc 5 mM 12 hrs, larvae L3		8
Zinc 4.5 mM 48 hrs, 4-day adult		1
Ethanol 2.5% 3 hrs, larvae L3		7
Ethanol 5% 3 hrs, larvae L3		8
Ethanol 10% 3 hrs, larvae L3		7
Caffeine 1.5 mg/ml 4 hrs, larvae L3		9
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		4
Paraquat 10 mM 48 hrs, 4-day adult		4
Rotenone 2 μg 12 hrs, larvae L3		8
Rotenone 8 μg 12 hrs, larvae L3		10
Expression Level Scale		Very low Low Moderate Moderately high

Linear, scaled to High expression
Treatment		Expression Level
extended cold, 4-day adult		2
cold shock, 4-day adult		2
heat shock, 4-day adult		6
Cadmium 50 mM 6 hrs, larvae L3		7
Cadmium 50 mM 12 hrs, larvae L3		5
Cadmium 50 mM 48 hrs, 4-day adult		7
Cadmium 100 mM 48 hrs, 4-day adult		3
Copper 0.5 mM 12 hrs, larvae L3		3
Copper 15 mM 48 hrs, 4-day adult		1
Zinc 5 mM 12 hrs, larvae L3		8
Zinc 4.5 mM 48 hrs, 4-day adult		1
Ethanol 2.5% 3 hrs, larvae L3		7
Ethanol 5% 3 hrs, larvae L3		8
Ethanol 10% 3 hrs, larvae L3		7
Caffeine 1.5 mg/ml 4 hrs, larvae L3		9
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		4
Paraquat 10 mM 48 hrs, 4-day adult		4
Rotenone 2 μg 12 hrs, larvae L3		8
Rotenone 8 μg 12 hrs, larvae L3		10
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		2
cold shock, 4-day adult		2
heat shock, 4-day adult		6
Cadmium 50 mM 6 hrs, larvae L3		7
Cadmium 50 mM 12 hrs, larvae L3		5
Cadmium 50 mM 48 hrs, 4-day adult		7
Cadmium 100 mM 48 hrs, 4-day adult		3
Copper 0.5 mM 12 hrs, larvae L3		3
Copper 15 mM 48 hrs, 4-day adult		1
Zinc 5 mM 12 hrs, larvae L3		8
Zinc 4.5 mM 48 hrs, 4-day adult		1
Ethanol 2.5% 3 hrs, larvae L3		7
Ethanol 5% 3 hrs, larvae L3		8
Ethanol 10% 3 hrs, larvae L3		7
Caffeine 1.5 mg/ml 4 hrs, larvae L3		9
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		4
Paraquat 10 mM 48 hrs, 4-day adult		4
Rotenone 2 μg 12 hrs, larvae L3		8
Rotenone 8 μg 12 hrs, larvae L3		10
Expression Level Scale		Extremely high

log, scaled to maximum expression level
Treatment		Expression Level
extended cold, 4-day adult		2
cold shock, 4-day adult		2
heat shock, 4-day adult		6
Cadmium 50 mM 6 hrs, larvae L3		7
Cadmium 50 mM 12 hrs, larvae L3		5
Cadmium 50 mM 48 hrs, 4-day adult		7
Cadmium 100 mM 48 hrs, 4-day adult		3
Copper 0.5 mM 12 hrs, larvae L3		3
Copper 15 mM 48 hrs, 4-day adult		1
Zinc 5 mM 12 hrs, larvae L3		8
Zinc 4.5 mM 48 hrs, 4-day adult		1
Ethanol 2.5% 3 hrs, larvae L3		7
Ethanol 5% 3 hrs, larvae L3		8
Ethanol 10% 3 hrs, larvae L3		7
Caffeine 1.5 mg/ml 4 hrs, larvae L3		9
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		4
Paraquat 10 mM 48 hrs, 4-day adult		4
Rotenone 2 μg 12 hrs, larvae L3		8
Rotenone 8 μg 12 hrs, larvae L3		10
Expression Level Scale		Very low Low Moderate

log, scaled to Moderate expression
Treatment		Expression Level
extended cold, 4-day adult		2
cold shock, 4-day adult		2
heat shock, 4-day adult		6
Cadmium 50 mM 6 hrs, larvae L3		7
Cadmium 50 mM 12 hrs, larvae L3		5
Cadmium 50 mM 48 hrs, 4-day adult		7
Cadmium 100 mM 48 hrs, 4-day adult		3
Copper 0.5 mM 12 hrs, larvae L3		3
Copper 15 mM 48 hrs, 4-day adult		1
Zinc 5 mM 12 hrs, larvae L3		8
Zinc 4.5 mM 48 hrs, 4-day adult		1
Ethanol 2.5% 3 hrs, larvae L3		7
Ethanol 5% 3 hrs, larvae L3		8
Ethanol 10% 3 hrs, larvae L3		7
Caffeine 1.5 mg/ml 4 hrs, larvae L3		9
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		4
Paraquat 10 mM 48 hrs, 4-day adult		4
Rotenone 2 μg 12 hrs, larvae L3		8
Rotenone 8 μg 12 hrs, larvae L3		10
Expression Level Scale		Very low Low Moderate Moderately high

log, scaled to High expression
Treatment		Expression Level
extended cold, 4-day adult		2
cold shock, 4-day adult		2
heat shock, 4-day adult		6
Cadmium 50 mM 6 hrs, larvae L3		7
Cadmium 50 mM 12 hrs, larvae L3		5
Cadmium 50 mM 48 hrs, 4-day adult		7
Cadmium 100 mM 48 hrs, 4-day adult		3
Copper 0.5 mM 12 hrs, larvae L3		3
Copper 15 mM 48 hrs, 4-day adult		1
Zinc 5 mM 12 hrs, larvae L3		8
Zinc 4.5 mM 48 hrs, 4-day adult		1
Ethanol 2.5% 3 hrs, larvae L3		7
Ethanol 5% 3 hrs, larvae L3		8
Ethanol 10% 3 hrs, larvae L3		7
Caffeine 1.5 mg/ml 4 hrs, larvae L3		9
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		4
Paraquat 10 mM 48 hrs, 4-day adult		4
Rotenone 2 μg 12 hrs, larvae L3		8
Rotenone 8 μg 12 hrs, larvae L3		10
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		2
cold shock, 4-day adult		2
heat shock, 4-day adult		6
Cadmium 50 mM 6 hrs, larvae L3		7
Cadmium 50 mM 12 hrs, larvae L3		5
Cadmium 50 mM 48 hrs, 4-day adult		7
Cadmium 100 mM 48 hrs, 4-day adult		3
Copper 0.5 mM 12 hrs, larvae L3		3
Copper 15 mM 48 hrs, 4-day adult		1
Zinc 5 mM 12 hrs, larvae L3		8
Zinc 4.5 mM 48 hrs, 4-day adult		1
Ethanol 2.5% 3 hrs, larvae L3		7
Ethanol 5% 3 hrs, larvae L3		8
Ethanol 10% 3 hrs, larvae L3		7
Caffeine 1.5 mg/ml 4 hrs, larvae L3		9
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		4
Paraquat 10 mM 48 hrs, 4-day adult		4
Rotenone 2 μg 12 hrs, larvae L3		8
Rotenone 8 μg 12 hrs, larvae L3		10
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

•

FBgn0031877

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

•

CG10399-RA

Alleles & Phenotypes

Summary of Allele Phenotypes

Lethality

Allele

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

CG10399^GD6970

Phenotype manifest in

Allele

Classical Alleles ( 0 )

For All Classical Alleles Show

Allele of CG10399	Class	Mutagen	Stocks	Known lesion

Alleles Carried on Transgenic Constructs ( 3 )

For All Alleles Carried on Transgenic Constructs Show

Allele of CG10399	Mutagen	Stocks	Known lesion
CG10399^GD6970	in vitro construct - RNAi in vitro construct - regulatory fusion	2	Yes
CG10399^KK102213	in vitro construct - RNAi in vitro construct - regulatory fusion	0	Yes
CG10399^NIG.10399R	in vitro construct - RNAi in vitro construct - regulatory fusion	0	Yes

Aneuploid Aberrations

Disrupted in

Df(2L)Exel7029

(Ryder, 2004.4.26)

Transgenic Constructs & Insertions

Transgenic Constructs

Type of construct

Name

Expression data

UAS construct

P{GD6970}

P{KK102213}

P{NIG.10399R}

Insertions

Type of insertions

Name

Expression data

miscellaneous insertions

P{PTT-GB}CB04753

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

Terms Based on Experimental Evidence ( 1 term )

Molecular Function ( 0 terms)

Biological Process ( 0 terms)

Cellular Component

CV term

Evidence

References

microtubule associated complex

inferred from direct assay

(Hughes et al., 2008)

Terms Based on Predictions or Assertions ( 3 terms )

Molecular Function

CV term

Evidence

References

hydroxymethylglutaryl-CoA lyase activity

inferred from sequence or structural similarity with UniProtKB:P35914

(FlyBase, 1992-, Sardiello et al., 2003.6.11)

Biological Process

CV term

Evidence

References

leucine metabolic process

inferred from sequence or structural similarity with UniProtKB:P35914

(Sardiello et al., 2003.6.11)

Cellular Component

CV term

Evidence

References

mitochondrial matrix

inferred from sequence or structural similarity with UniProtKB:P35914

(Sardiello et al., 2003.6.11)

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

CG10399 allele

Gene

References

External Data

Linkouts

DroID - A comprehensive database of gene and protein interactions.

•

FBgn0031877

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

•

33978

Orthologs

OrthoDB Orthologs (41) - 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

EOG6D7ZRV

Dipteran inclusive ortholog search

EOG6KKZBW

Insect inclusive ortholog search

EOG6V6XCV

Arthropod inclusive ortholog search

EOG6DV43F

Metazoa inclusive ortholog search

EOG6SZ16G

Orthologs in Drosophila Species (EOG6D7ZRV)

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\GA10298

Drosophila persimilis

Dper\GL26197

Drosophila willistoni

Dwil\GK18282

Drosophila virilis

Dvir\GJ17557

Drosophila mojavensis

Dmoj\GI17729

Drosophila grimshawi

Dgri\GH13343

Orthologs in non-Drosophila Dipterans (EOG6KKZBW)

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Aedes aegypti

Yellow fever mosquito

Aaeg\AAEL002065

Anopheles gambiae

Malaria mosquito

Agam\AGAP008717

Culex quinquefasciatus

Southern house mosquito

Cqui\CPIJ001976

Orthologs in non-Dipteran Insects (EOG6V6XCV)

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Apis mellifera

Western honey bee

Amel\GB49457

Nasonia vitripennis

Parasitic wasp

Nvit\Nasvi2EG003810

Acromyrmex echinatior

Panamanian leafcutter ant

Aech\AECH12497

Atta cephalotes

Leafcutter ant

Acep\ACEP14503

Camponotus floridanus

Florida carpenter ant

Cflo\CFLO20986

Harpegnathos saltator

Jerdons jumping ant

Hsal\HSAL14682

Linepithema humile

Argentine ant

Lhum\LH17622

Pogonomyrmex barbatus

Red harvester ant

Pbar\PB23316

Solenopsis invicta

Red fire ant

Sinv\SINV16698

Acyrthosiphon pisum

Pea aphid

Apim\ACYPI001872

Bombyx mori

Silkmoth

Bmor\BGIBMGA002650

Pediculus humanus

Human body louse

Phum\PHUM454550

Tribolium castaneum

Red flour beetle

Tcas\TC010779

Orthologs in non-Insect Arthropods (EOG6DV43F)

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Daphnia pulex

Water flea

Dpux\Mapk8ip3

Ixodes scapularis

Deer tick

Isca\ISCW015386

Orthologs in non-Arthropod Metazoa (EOG6SZ16G)

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Caenorhabditis elegans

Nematode

Cele\Y71G12B.10

Danio rerio

Zebrafish

Drer\hmgcl

Danio rerio

Zebrafish

Drer\hmgcll1

Xenopus tropicalis

Western clawed frog

Xtro\hmgcll1

Xenopus tropicalis

Western clawed frog

Xtro\hmgcl

Gallus gallus

Domestic chicken

Ggal\HMGCL

Gallus gallus

Domestic chicken

Ggal\HMGCLL1

Mus musculus

House mouse

Mmus\Hmgcl

Rattus norvegicus

Norway rat

Rnor\Hmgcl

Rattus norvegicus

Norway rat

Rnor\Hmgcll1

Homo sapiens

Human

Hsap\HMGCL

Homo sapiens

Human

Hsap\ENSG00000146151

Human Orthologs (2)

Gene

OMIM

HGNC

Hsap\HMGCL

Hsap\ENSG00000146151

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\GA10298

Drosophila persimilis

Dper\GL26197

Drosophila willistoni

Dwil\GK18282

Drosophila virilis

Dvir\GJ17557

Drosophila mojavensis

Dmoj\GI17729

Drosophila grimshawi

Dgri\GH13343

Stocks & Reagents

Stocks Listed in FlyBase ( 2 )

VDRC

v18617

w¹¹¹⁸; P{GD6970}v18617

v18616

w¹¹¹⁸; P{GD6970}v18616/TM3

Genomic Clones ( 3 )

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

cDNA Clones ( 7 )

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

TA01441

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi & Array Information

Linkouts

DRSC - Results from RNAi screens.

•

FBgn0031877

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

•

33978

Antibody Information

Other Information

Discoverer

Etymology

Identification

Relationship to Other Genes

Source for database identity of

Source for database merge of

Additional comments

Other Comments

External Crossreferences & Linkouts

Sequence Crossreferences

RefSeq (Transcripts)

•

NM_135245

RefSeq (Proteins)

•

NP_609089

DDBJ / EMBL / GenBank

•

AAF52467

Entrez Gene - A searchable database of RefSeq genes.

•

33978

UniProtKB/TrEMBL

•

Q9VM58

Other Crossreferences

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

•

Pyruvate carboxyltransferase (IPR000891)

Aldolase-type TIM barrel (IPR013785)

Hydroxymethylglutaryl-CoA lyase (IPR027167)

MitoDrome - A database of annotated Dmel nuclear genes encoding mitochondrial proteins

•

MTDROME10399

Linkouts

DroID - A comprehensive database of gene and protein interactions.

•

FBgn0031877

DRSC - Results from RNAi screens.

•

FBgn0031877

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

•

FBgn0031877

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

•

CG10399-RA

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

•

FBgn0031877

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

•

33978

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

•

33978

modMine - Data generated by the modENCODE project.

•

FBgn0031877

Synonyms & Secondary IDs ( 2 )

Reported As

Symbol Synonym

145934_at

(Kristensen et al., 2005)

CG10399

(Buszczak et al., 2007, Hughes et al., 2008, Keleman et al., 2009.8.5, Japanese National Institute of Genetics, 2012.5.21)

Name Synonym

Secondary FlyBase IDs

References ( 15 )

Research paper

Hughes et al., 2008, PLoS Biol. 6(4): e98: A microtubule interactome: complexes with roles in cell cycle and mitosis. [FBrf0204649]
Buszczak et al., 2007, Genetics 175(3): 1505--1531: The Carnegie protein trap library: A versatile tool for Drosophila developmental studies. [FBrf0200345]
Kristensen et al., 2005, Genetics 171(1): 157--167: Genome-wide analysis on inbreeding effects on gene expression in Drosophila melanogaster. [FBrf0187643]
Inlow and Restifo, 2004, Genetics 166(2): 835--881: Molecular and comparative genetics of mental retardation. [FBrf0174714]

Supplementary material

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

Personal communication to FlyBase

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]
Ryder, 2004.4.26, Exelixis CG deletion data.: Exelixis CG deletion data. [FBrf0184335]
Sardiello et al., 2003.6.11, MitoDrome: A database of Drosophila melanogaster nuclear genes encoding proteins targeted to the mitochondrion.: MitoDrome: A database of Drosophila melanogaster nuclear genes encoding proteins targeted to the mitochondrion. [FBrf0159903]

FlyBase analysis

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

Stock list

Japanese National Institute of Genetics, 2012.5.21, RNAi stocks available from NIG-FLY.: RNAi stocks available from NIG-FLY. [FBrf0218457]

Curated genome annotation

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