Gene Dmel\slou

(Kim and Nirenberg, 1989)

93E3-93E5

(determined by in situ hybridisation)

93E1-93E2

(determined by in situ hybridisation)

Experimentally Determined Recombination Data

Location

Left of (cM)

Right of (cM)

Notes

Gene Model & Products

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

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

Comments on Gene Model

Gene model reviewed during 5.44

Gene model reviewed during 5.47

Stop-codon suppression (UAA) postulated; FBrf0216885.

gene_with_stop_codon_read_through ; SO:0000697

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Associated CDS (aa)

slou-RA

FBtr0084123

NM_057309

2670

659

slou-RB

FBtr0330389

NM_001275879

2670

698

Additional Transcript Data & Comments

Reported size (kB)

2.8 (northern blot)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kDa)

Length (aa)

Theoretical pI

RefSeq ID

GenBank protein

slou-PA

FBpp0083521

70.0

659

6.97

NP_476657

AAF55901

slou-PB

FBpp0303415

74.0

698

7.27

NP_001262808

AGB96188

Additional Polypeptide Data & Comments

Reported size (kDa)

659 (aa); 70 (kD predicted)

Comments

External Data

FBsf0000161146
3R:17,383,366..17,383,379

Crossreferences

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

•

Homeobox, conserved site (IPR017970)

Homeodomain (IPR001356)

Homeodomain-like (IPR009057)

Homeodomain, metazoa (IPR020479)

Sequences Consistent with the Gene Model

DDBJ /
EMBL /
GenBank

DNA sequence

Protein sequence

Name

P22807

UniProtKB/TrEMBL

Mapped Features

Mapped Features have been reorganized, please see this article for details.

Additional mapped features and mutations can be found on GBrowse or related reports.

Type

Symbol & Location

Additional Notes

References

enhancer

comment=core enhancer element identified in gel shift assays
evidence=experimental

FBsf0000160968
3R:17,383,370..17,383,382

protein binding site

evidence=experimental

(Bergman et al., 2005, Kim et al., 1999)

protein binding site

FBsf0000160969
3R:17,383,415..17,383,444

evidence=experimental

(Bergman et al., 2005, Kim et al., 1999)

regulatory region

FBsf0000161254
3R:17,383,480..17,384,869

comment=region contains strong negative regulatory elements
evidence=experimental

FBsf0000161251
3R:17,382,902..17,383,480

regulatory region

comment=region contains strong positive regulatory elements
evidence=experimental

FBsf0000161253
3R:17,383,415..17,383,444

regulatory region

comment=Box A, protected strongly in DNaseI footprinting analyses, contains a putative C/EBP binding site
evidence=experimental

FBsf0000161252
3R:17,383,371..17,383,382

regulatory region

comment=Box B, protected weakly in DNaseI footprinting analyses
evidence=experimental

FBsf0000435118
3R:17,392,618..17,393,154

regulatory region

evidence=Reporter construct (in vivo)

(Schaub et al., 2012, Halfon, 2012.6.19)

regulatory region

FBsf0000435140
3R:17,391,091..17,391,836

evidence=Reporter construct (in vivo)

(Schaub et al., 2012, Halfon, 2012.6.19)

regulatory region

FBsf0000435881
3R:17,383,365..17,383,379

evidence=Reporter construct (in vitro)

(Kim et al., 1999, Halfon, 2012.6.19)

External Data

Crossreferences

Expression Data

Transcript Expression

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 16

A2-7 ventral transverse muscle 1

(Lord et al., 1995)

Comment:muscle 25

A1-7 ventral acute muscle 2

(Lord et al., 1995)

Comment:muscle 27

A1-7 dorsal transverse muscle 1

(Lord et al., 1995)

Comment:muscle 18

microinjection

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage | early

Additional Descriptive Data

slou transcripts are strongly expressed between 8 and 24 hours of embryogenesis and at a lower level in adult females. Much lower levels are detected in larvae, pupae, and adult males.

Very low levels of early developmental slou expression were detected.

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

immunolocalization

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage

embryonic/larval midgut | restricted

somatic mesoderm | restricted

abdominal 1 ventral acute muscle 2

abdominal 2 ventral transverse muscle 1 -- abdominal 7 ventral transverse muscle 1

ganglion mother cell

abdominal 2 dorsal transverse muscle 1 -- abdominal 7 dorsal transverse muscle 1

abdominal 2 ventral acute muscle 2 -- abdominal 7 ventral acute muscle 2

presumptive embryonic/larval central nervous system

embryonic/larval muscle system | restricted

abdominal 1 dorsal transverse muscle 1

supraesophageal ganglion | restricted

embryonic stage 14

embryonic somatic muscle | subset

(Brennan et al., 1999)

Additional Descriptive Data

slou protein is expressed in small subsets of cells in the somatic mesoderm and in a small number of muscles. It is initially expressed at stage 11 in a single mesodermal cell located ventrally in each hemisegment. As embryonic development proceeds, it is expressed in the progeny of this cell as well as in two other clusters of mesodermal cells. The pattern of staining is different between thoracic and abdominal segments and is described in detail. In stage 13, slou-expressing cells fuse with each other and with other cells to form syncytia which continue to express slou protein. In late embryonic stages, slou protein is expressed in three muscle fibers in each abdominal hemisegment which have been identified as muscles 25, 27, and 18. Again the pattern is slightly different in the thoracic and gnathal segments than in the abdominal segments. slou protein is also expressed in cells of the midgut. Expression is confined to a narrow band of cells directly anterior to the first constriction that will form at this position. Later, all cells in the region of the loop derived from this region of the midgut contain slou protein. slou expression in the CNS starts shortly after mesodermal expression. In early stage 11, a single neuronal precursor which is thought to be a ganglion mother cell is stained in each segment. During stages 11 and 12, a cluster of cells is stained at this position, and a separate cluster of ganglion mother cells gradually appears. After germ band retraction, these cells assume a V-shaped pattern. Eventually, the slou-expressing neurons become located lateral to the axonal fiber tracts. slou protein is also expressed in distinct cells of the supraoesophageal ganglion.

Marker for

Subcellular Localization (GO Cellular Component)

CV term

(Knirr et al., 1999, Dohrmann et al., 1990)

References

nucleus

inferred from direct assay

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: Little or no expression detected in any larval or adult organs/tissues.
[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		91.75
Larval Midgut		0.9
Larval Hindgut		1.1
Larval Malpighian Tubules		0.6
Larval Fat Body		0.6
Larval Salivary Gland		0.9
Larval Trachea		1.1
Larval Carcass		39.475
Adult Head		20.7
Adult Eye		3.175
Adult Brain		55.3
Adult Thoracic-Abdominal Ganglion		87.6
Adult Crop		1.4
Adult Midgut		0.8
Adult Hindgut		0.6
Adult Malpighian Tubules		0.7
Adult Fat Body		2.6
Adult Salivary Gland		3.6
Adult Heart		1.825
Adult VirginFemale Spermatheca		2.6
Adult InseminatedFemale Spermatheca		1.3
Adult Ovary		1.1
Adult Testis		1.6
Adult Male Accessory Gland		1.5
Adult Carcass		16.4
Expression Level Scale		None Low Moderate

Linear, scaled to Moderate expression
Tissue		Expression Level
Larval Central Nervous System		91.75
Larval Midgut		0.9
Larval Hindgut		1.1
Larval Malpighian Tubules		0.6
Larval Fat Body		0.6
Larval Salivary Gland		0.9
Larval Trachea		1.1
Larval Carcass		39.475
Adult Head		20.7
Adult Eye		3.175
Adult Brain		55.3
Adult Thoracic-Abdominal Ganglion		87.6
Adult Crop		1.4
Adult Midgut		0.8
Adult Hindgut		0.6
Adult Malpighian Tubules		0.7
Adult Fat Body		2.6
Adult Salivary Gland		3.6
Adult Heart		1.825
Adult VirginFemale Spermatheca		2.6
Adult InseminatedFemale Spermatheca		1.3
Adult Ovary		1.1
Adult Testis		1.6
Adult Male Accessory Gland		1.5
Adult Carcass		16.4
Expression Level Scale		None Low Moderate High

Linear, scaled to High level expression
Tissue		Expression Level
Larval Central Nervous System		91.75
Larval Midgut		0.9
Larval Hindgut		1.1
Larval Malpighian Tubules		0.6
Larval Fat Body		0.6
Larval Salivary Gland		0.9
Larval Trachea		1.1
Larval Carcass		39.475
Adult Head		20.7
Adult Eye		3.175
Adult Brain		55.3
Adult Thoracic-Abdominal Ganglion		87.6
Adult Crop		1.4
Adult Midgut		0.8
Adult Hindgut		0.6
Adult Malpighian Tubules		0.7
Adult Fat Body		2.6
Adult Salivary Gland		3.6
Adult Heart		1.825
Adult VirginFemale Spermatheca		2.6
Adult InseminatedFemale Spermatheca		1.3
Adult Ovary		1.1
Adult Testis		1.6
Adult Male Accessory Gland		1.5
Adult Carcass		16.4
Expression Level Scale		None Low Moderate High Very high

Linear, scaled to Very high expression
Tissue		Expression Level
Larval Central Nervous System		91.75
Larval Midgut		0.9
Larval Hindgut		1.1
Larval Malpighian Tubules		0.6
Larval Fat Body		0.6
Larval Salivary Gland		0.9
Larval Trachea		1.1
Larval Carcass		39.475
Adult Head		20.7
Adult Eye		3.175
Adult Brain		55.3
Adult Thoracic-Abdominal Ganglion		87.6
Adult Crop		1.4
Adult Midgut		0.8
Adult Hindgut		0.6
Adult Malpighian Tubules		0.7
Adult Fat Body		2.6
Adult Salivary Gland		3.6
Adult Heart		1.825
Adult VirginFemale Spermatheca		2.6
Adult InseminatedFemale Spermatheca		1.3
Adult Ovary		1.1
Adult Testis		1.6
Adult Male Accessory Gland		1.5
Adult Carcass		16.4
Expression Level Scale		Very high

log, scaled to maximum expression level
Tissue		Expression Level
Larval Central Nervous System		91.75
Larval Midgut		0.9
Larval Hindgut		1.1
Larval Malpighian Tubules		0.6
Larval Fat Body		0.6
Larval Salivary Gland		0.9
Larval Trachea		1.1
Larval Carcass		39.475
Adult Head		20.7
Adult Eye		3.175
Adult Brain		55.3
Adult Thoracic-Abdominal Ganglion		87.6
Adult Crop		1.4
Adult Midgut		0.8
Adult Hindgut		0.6
Adult Malpighian Tubules		0.7
Adult Fat Body		2.6
Adult Salivary Gland		3.6
Adult Heart		1.825
Adult VirginFemale Spermatheca		2.6
Adult InseminatedFemale Spermatheca		1.3
Adult Ovary		1.1
Adult Testis		1.6
Adult Male Accessory Gland		1.5
Adult Carcass		16.4
Expression Level Scale		None Low Moderate

log, scaled to Moderate expression
Tissue		Expression Level
Larval Central Nervous System		91.75
Larval Midgut		0.9
Larval Hindgut		1.1
Larval Malpighian Tubules		0.6
Larval Fat Body		0.6
Larval Salivary Gland		0.9
Larval Trachea		1.1
Larval Carcass		39.475
Adult Head		20.7
Adult Eye		3.175
Adult Brain		55.3
Adult Thoracic-Abdominal Ganglion		87.6
Adult Crop		1.4
Adult Midgut		0.8
Adult Hindgut		0.6
Adult Malpighian Tubules		0.7
Adult Fat Body		2.6
Adult Salivary Gland		3.6
Adult Heart		1.825
Adult VirginFemale Spermatheca		2.6
Adult InseminatedFemale Spermatheca		1.3
Adult Ovary		1.1
Adult Testis		1.6
Adult Male Accessory Gland		1.5
Adult Carcass		16.4
Expression Level Scale		None Low Moderate High

log, scaled to High level expression
Tissue		Expression Level
Larval Central Nervous System		91.75
Larval Midgut		0.9
Larval Hindgut		1.1
Larval Malpighian Tubules		0.6
Larval Fat Body		0.6
Larval Salivary Gland		0.9
Larval Trachea		1.1
Larval Carcass		39.475
Adult Head		20.7
Adult Eye		3.175
Adult Brain		55.3
Adult Thoracic-Abdominal Ganglion		87.6
Adult Crop		1.4
Adult Midgut		0.8
Adult Hindgut		0.6
Adult Malpighian Tubules		0.7
Adult Fat Body		2.6
Adult Salivary Gland		3.6
Adult Heart		1.825
Adult VirginFemale Spermatheca		2.6
Adult InseminatedFemale Spermatheca		1.3
Adult Ovary		1.1
Adult Testis		1.6
Adult Male Accessory Gland		1.5
Adult Carcass		16.4
Expression Level Scale		None Low Moderate High Very high

log, scaled to Very high expression
Tissue		Expression Level
Larval Central Nervous System		91.75
Larval Midgut		0.9
Larval Hindgut		1.1
Larval Malpighian Tubules		0.6
Larval Fat Body		0.6
Larval Salivary Gland		0.9
Larval Trachea		1.1
Larval Carcass		39.475
Adult Head		20.7
Adult Eye		3.175
Adult Brain		55.3
Adult Thoracic-Abdominal Ganglion		87.6
Adult Crop		1.4
Adult Midgut		0.8
Adult Hindgut		0.6
Adult Malpighian Tubules		0.7
Adult Fat Body		2.6
Adult Salivary Gland		3.6
Adult Heart		1.825
Adult VirginFemale Spermatheca		2.6
Adult InseminatedFemale Spermatheca		1.3
Adult Ovary		1.1
Adult Testis		1.6
Adult Male Accessory Gland		1.5
Adult Carcass		16.4
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	no informative data
NA	Eye	3.175
NA	Brain	55.3
91.75	Central Nervous System	NA
NA	Thoracic-Abdominal Ganglion	87.6
NA	Crop	1.4
0.9	Midgut	0.8
1.1	Hindgut	0.6
0.6	Malpighian Tubules	0.7
0.6	Fat Body	2.6
0.9	Salivary Gland	3.6
NA	Heart	1.825
1.1	Trachea	NA
NA	VirginFemale Spermatheca	2.6
NA	InseminatedFemale Spermatheca	1.3
NA	Ovary	1.1
NA	Testis	1.6
NA	Male Accessory Gland	1.5
39.475	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		1
central nervous system, larvae L3		9
central nervous system, pupae P8		5
head, virgin 1-day female		1
head, virgin 4-day female		1
head, virgin 20-day female		1
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		2
salivary gland, larvae L3 wandering		0
salivary gland, white prepupae		0
digestive system, larvae L3 wandering		0
digestive system, 1-day adult		0
digestive system, 4-day adult		0
digestive system, 20-day adult		0
fat body, larvae L3 wandering		0
fat body, white prepupae		0
fat body, pupae P8		0
carcass, larvae L3 wandering		4
carcass, 1-day adult		1
carcass, 4-day adult		1
carcass, 20-day adult		1
ovary, virgin 4-day female		0
ovary, mated 4-day female		0
testis, mated 4-day male		0
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		1
central nervous system, larvae L3		9
central nervous system, pupae P8		5
head, virgin 1-day female		1
head, virgin 4-day female		1
head, virgin 20-day female		1
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		2
salivary gland, larvae L3 wandering		0
salivary gland, white prepupae		0
digestive system, larvae L3 wandering		0
digestive system, 1-day adult		0
digestive system, 4-day adult		0
digestive system, 20-day adult		0
fat body, larvae L3 wandering		0
fat body, white prepupae		0
fat body, pupae P8		0
carcass, larvae L3 wandering		4
carcass, 1-day adult		1
carcass, 4-day adult		1
carcass, 20-day adult		1
ovary, virgin 4-day female		0
ovary, mated 4-day female		0
testis, mated 4-day male		0
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		1
central nervous system, larvae L3		9
central nervous system, pupae P8		5
head, virgin 1-day female		1
head, virgin 4-day female		1
head, virgin 20-day female		1
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		2
salivary gland, larvae L3 wandering		0
salivary gland, white prepupae		0
digestive system, larvae L3 wandering		0
digestive system, 1-day adult		0
digestive system, 4-day adult		0
digestive system, 20-day adult		0
fat body, larvae L3 wandering		0
fat body, white prepupae		0
fat body, pupae P8		0
carcass, larvae L3 wandering		4
carcass, 1-day adult		1
carcass, 4-day adult		1
carcass, 20-day adult		1
ovary, virgin 4-day female		0
ovary, mated 4-day female		0
testis, mated 4-day male		0
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		1
central nervous system, larvae L3		9
central nervous system, pupae P8		5
head, virgin 1-day female		1
head, virgin 4-day female		1
head, virgin 20-day female		1
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		2
salivary gland, larvae L3 wandering		0
salivary gland, white prepupae		0
digestive system, larvae L3 wandering		0
digestive system, 1-day adult		0
digestive system, 4-day adult		0
digestive system, 20-day adult		0
fat body, larvae L3 wandering		0
fat body, white prepupae		0
fat body, pupae P8		0
carcass, larvae L3 wandering		4
carcass, 1-day adult		1
carcass, 4-day adult		1
carcass, 20-day adult		1
ovary, virgin 4-day female		0
ovary, mated 4-day female		0
testis, mated 4-day male		0
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		1
central nervous system, larvae L3		9
central nervous system, pupae P8		5
head, virgin 1-day female		1
head, virgin 4-day female		1
head, virgin 20-day female		1
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		2
salivary gland, larvae L3 wandering		0
salivary gland, white prepupae		0
digestive system, larvae L3 wandering		0
digestive system, 1-day adult		0
digestive system, 4-day adult		0
digestive system, 20-day adult		0
fat body, larvae L3 wandering		0
fat body, white prepupae		0
fat body, pupae P8		0
carcass, larvae L3 wandering		4
carcass, 1-day adult		1
carcass, 4-day adult		1
carcass, 20-day adult		1
ovary, virgin 4-day female		0
ovary, mated 4-day female		0
testis, mated 4-day male		0
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		1
central nervous system, larvae L3		9
central nervous system, pupae P8		5
head, virgin 1-day female		1
head, virgin 4-day female		1
head, virgin 20-day female		1
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		2
salivary gland, larvae L3 wandering		0
salivary gland, white prepupae		0
digestive system, larvae L3 wandering		0
digestive system, 1-day adult		0
digestive system, 4-day adult		0
digestive system, 20-day adult		0
fat body, larvae L3 wandering		0
fat body, white prepupae		0
fat body, pupae P8		0
carcass, larvae L3 wandering		4
carcass, 1-day adult		1
carcass, 4-day adult		1
carcass, 20-day adult		1
ovary, virgin 4-day female		0
ovary, mated 4-day female		0
testis, mated 4-day male		0
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		1
central nervous system, larvae L3		9
central nervous system, pupae P8		5
head, virgin 1-day female		1
head, virgin 4-day female		1
head, virgin 20-day female		1
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		2
salivary gland, larvae L3 wandering		0
salivary gland, white prepupae		0
digestive system, larvae L3 wandering		0
digestive system, 1-day adult		0
digestive system, 4-day adult		0
digestive system, 20-day adult		0
fat body, larvae L3 wandering		0
fat body, white prepupae		0
fat body, pupae P8		0
carcass, larvae L3 wandering		4
carcass, 1-day adult		1
carcass, 4-day adult		1
carcass, 20-day adult		1
ovary, virgin 4-day female		0
ovary, mated 4-day female		0
testis, mated 4-day male		0
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		1
central nervous system, larvae L3		9
central nervous system, pupae P8		5
head, virgin 1-day female		1
head, virgin 4-day female		1
head, virgin 20-day female		1
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		2
salivary gland, larvae L3 wandering		0
salivary gland, white prepupae		0
digestive system, larvae L3 wandering		0
digestive system, 1-day adult		0
digestive system, 4-day adult		0
digestive system, 20-day adult		0
fat body, larvae L3 wandering		0
fat body, white prepupae		0
fat body, pupae P8		0
carcass, larvae L3 wandering		4
carcass, 1-day adult		1
carcass, 4-day adult		1
carcass, 20-day adult		1
ovary, virgin 4-day female		0
ovary, mated 4-day female		0
testis, mated 4-day male		0
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 moderate expression to a trough of extremely low expression. Peak expression observed within 06-24 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		0
embryo 02-04hr		0
embryo 04-06hr		1
embryo 06-08hr		5
embryo 08-10hr		5
embryo 10-12hr		6
embryo 12-14hr		6
embryo 14-16hr		8
embryo 16-18hr		5
embryo 18-20hr		6
embryo 20-22hr		3
embryo 22-24hr		3
larva L1		3
larva L2		1
larva L3 12hr old		1
larva L3 puffstage 1-2		1
larva L3 puffstage 3-6		1
larva L3 puffstage 7-9		2
white prepupae new		2
white prepupae 12hr		1
white prepupae 24hr		1
pupae 2d postWPP		1
pupae 3d postWPP		1
pupae 4d postWPP		2
adult male 01day		1
adult male 05day		1
adult male 30day		1
adult female 01day		1
adult female 05day		0
adult female 30day		0
Expression Level Scale		Very low Low Moderate

Linear, scaled to Moderate expression
Developmental Stage		Expression Level
embryo 00-02hr		0
embryo 02-04hr		0
embryo 04-06hr		1
embryo 06-08hr		5
embryo 08-10hr		5
embryo 10-12hr		6
embryo 12-14hr		6
embryo 14-16hr		8
embryo 16-18hr		5
embryo 18-20hr		6
embryo 20-22hr		3
embryo 22-24hr		3
larva L1		3
larva L2		1
larva L3 12hr old		1
larva L3 puffstage 1-2		1
larva L3 puffstage 3-6		1
larva L3 puffstage 7-9		2
white prepupae new		2
white prepupae 12hr		1
white prepupae 24hr		1
pupae 2d postWPP		1
pupae 3d postWPP		1
pupae 4d postWPP		2
adult male 01day		1
adult male 05day		1
adult male 30day		1
adult female 01day		1
adult female 05day		0
adult female 30day		0
Expression Level Scale		Very low Low Moderate Moderately high

Linear, scaled to High expression
Developmental Stage		Expression Level
embryo 00-02hr		0
embryo 02-04hr		0
embryo 04-06hr		1
embryo 06-08hr		5
embryo 08-10hr		5
embryo 10-12hr		6
embryo 12-14hr		6
embryo 14-16hr		8
embryo 16-18hr		5
embryo 18-20hr		6
embryo 20-22hr		3
embryo 22-24hr		3
larva L1		3
larva L2		1
larva L3 12hr old		1
larva L3 puffstage 1-2		1
larva L3 puffstage 3-6		1
larva L3 puffstage 7-9		2
white prepupae new		2
white prepupae 12hr		1
white prepupae 24hr		1
pupae 2d postWPP		1
pupae 3d postWPP		1
pupae 4d postWPP		2
adult male 01day		1
adult male 05day		1
adult male 30day		1
adult female 01day		1
adult female 05day		0
adult female 30day		0
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		0
embryo 02-04hr		0
embryo 04-06hr		1
embryo 06-08hr		5
embryo 08-10hr		5
embryo 10-12hr		6
embryo 12-14hr		6
embryo 14-16hr		8
embryo 16-18hr		5
embryo 18-20hr		6
embryo 20-22hr		3
embryo 22-24hr		3
larva L1		3
larva L2		1
larva L3 12hr old		1
larva L3 puffstage 1-2		1
larva L3 puffstage 3-6		1
larva L3 puffstage 7-9		2
white prepupae new		2
white prepupae 12hr		1
white prepupae 24hr		1
pupae 2d postWPP		1
pupae 3d postWPP		1
pupae 4d postWPP		2
adult male 01day		1
adult male 05day		1
adult male 30day		1
adult female 01day		1
adult female 05day		0
adult female 30day		0
Expression Level Scale		Extremely high

log, scaled to maximum expression level
Developmental Stage		Expression Level
embryo 00-02hr		0
embryo 02-04hr		0
embryo 04-06hr		1
embryo 06-08hr		5
embryo 08-10hr		5
embryo 10-12hr		6
embryo 12-14hr		6
embryo 14-16hr		8
embryo 16-18hr		5
embryo 18-20hr		6
embryo 20-22hr		3
embryo 22-24hr		3
larva L1		3
larva L2		1
larva L3 12hr old		1
larva L3 puffstage 1-2		1
larva L3 puffstage 3-6		1
larva L3 puffstage 7-9		2
white prepupae new		2
white prepupae 12hr		1
white prepupae 24hr		1
pupae 2d postWPP		1
pupae 3d postWPP		1
pupae 4d postWPP		2
adult male 01day		1
adult male 05day		1
adult male 30day		1
adult female 01day		1
adult female 05day		0
adult female 30day		0
Expression Level Scale		Very low Low Moderate

log, scaled to Moderate expression
Developmental Stage		Expression Level
embryo 00-02hr		0
embryo 02-04hr		0
embryo 04-06hr		1
embryo 06-08hr		5
embryo 08-10hr		5
embryo 10-12hr		6
embryo 12-14hr		6
embryo 14-16hr		8
embryo 16-18hr		5
embryo 18-20hr		6
embryo 20-22hr		3
embryo 22-24hr		3
larva L1		3
larva L2		1
larva L3 12hr old		1
larva L3 puffstage 1-2		1
larva L3 puffstage 3-6		1
larva L3 puffstage 7-9		2
white prepupae new		2
white prepupae 12hr		1
white prepupae 24hr		1
pupae 2d postWPP		1
pupae 3d postWPP		1
pupae 4d postWPP		2
adult male 01day		1
adult male 05day		1
adult male 30day		1
adult female 01day		1
adult female 05day		0
adult female 30day		0
Expression Level Scale		Very low Low Moderate Moderately high

log, scaled to High expression
Developmental Stage		Expression Level
embryo 00-02hr		0
embryo 02-04hr		0
embryo 04-06hr		1
embryo 06-08hr		5
embryo 08-10hr		5
embryo 10-12hr		6
embryo 12-14hr		6
embryo 14-16hr		8
embryo 16-18hr		5
embryo 18-20hr		6
embryo 20-22hr		3
embryo 22-24hr		3
larva L1		3
larva L2		1
larva L3 12hr old		1
larva L3 puffstage 1-2		1
larva L3 puffstage 3-6		1
larva L3 puffstage 7-9		2
white prepupae new		2
white prepupae 12hr		1
white prepupae 24hr		1
pupae 2d postWPP		1
pupae 3d postWPP		1
pupae 4d postWPP		2
adult male 01day		1
adult male 05day		1
adult male 30day		1
adult female 01day		1
adult female 05day		0
adult female 30day		0
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		0
embryo 02-04hr		0
embryo 04-06hr		1
embryo 06-08hr		5
embryo 08-10hr		5
embryo 10-12hr		6
embryo 12-14hr		6
embryo 14-16hr		8
embryo 16-18hr		5
embryo 18-20hr		6
embryo 20-22hr		3
embryo 22-24hr		3
larva L1		3
larva L2		1
larva L3 12hr old		1
larva L3 puffstage 1-2		1
larva L3 puffstage 3-6		1
larva L3 puffstage 7-9		2
white prepupae new		2
white prepupae 12hr		1
white prepupae 24hr		1
pupae 2d postWPP		1
pupae 3d postWPP		1
pupae 4d postWPP		2
adult male 01day		1
adult male 05day		1
adult male 30day		1
adult female 01day		1
adult female 05day		0
adult female 30day		0
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 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		1
Cadmium 50 mM 6 hrs, larvae L3		0
Cadmium 50 mM 12 hrs, larvae L3		0
Cadmium 50 mM 48 hrs, 4-day adult		1
Cadmium 100 mM 48 hrs, 4-day adult		1
Copper 0.5 mM 12 hrs, larvae L3		1
Copper 15 mM 48 hrs, 4-day adult		1
Zinc 5 mM 12 hrs, larvae L3		1
Zinc 4.5 mM 48 hrs, 4-day adult		1
Ethanol 2.5% 3 hrs, larvae L3		1
Ethanol 5% 3 hrs, larvae L3		0
Ethanol 10% 3 hrs, larvae L3		0
Caffeine 1.5 mg/ml 4 hrs, larvae L3		1
Caffeine 2.5 mg/ml 48 hrs, 4-day adult		0
Caffeine 25 mg/ml 48 hrs, 4-day adult		1
Paraquat 5 mM 48 hrs, 4-day adult		1
Paraquat 10 mM 48 hrs, 4-day adult		1
Rotenone 2 μg 12 hrs, larvae L3		0
Rotenone 8 μg 12 hrs, larvae L3		1
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		1
Cadmium 50 mM 6 hrs, larvae L3		0
Cadmium 50 mM 12 hrs, larvae L3		0
Cadmium 50 mM 48 hrs, 4-day adult		1
Cadmium 100 mM 48 hrs, 4-day adult		1
Copper 0.5 mM 12 hrs, larvae L3		1
Copper 15 mM 48 hrs, 4-day adult		1
Zinc 5 mM 12 hrs, larvae L3		1
Zinc 4.5 mM 48 hrs, 4-day adult		1
Ethanol 2.5% 3 hrs, larvae L3		1
Ethanol 5% 3 hrs, larvae L3		0
Ethanol 10% 3 hrs, larvae L3		0
Caffeine 1.5 mg/ml 4 hrs, larvae L3		1
Caffeine 2.5 mg/ml 48 hrs, 4-day adult		0
Caffeine 25 mg/ml 48 hrs, 4-day adult		1
Paraquat 5 mM 48 hrs, 4-day adult		1
Paraquat 10 mM 48 hrs, 4-day adult		1
Rotenone 2 μg 12 hrs, larvae L3		0
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		2
cold shock, 4-day adult		2
heat shock, 4-day adult		1
Cadmium 50 mM 6 hrs, larvae L3		0
Cadmium 50 mM 12 hrs, larvae L3		0
Cadmium 50 mM 48 hrs, 4-day adult		1
Cadmium 100 mM 48 hrs, 4-day adult		1
Copper 0.5 mM 12 hrs, larvae L3		1
Copper 15 mM 48 hrs, 4-day adult		1
Zinc 5 mM 12 hrs, larvae L3		1
Zinc 4.5 mM 48 hrs, 4-day adult		1
Ethanol 2.5% 3 hrs, larvae L3		1
Ethanol 5% 3 hrs, larvae L3		0
Ethanol 10% 3 hrs, larvae L3		0
Caffeine 1.5 mg/ml 4 hrs, larvae L3		1
Caffeine 2.5 mg/ml 48 hrs, 4-day adult		0
Caffeine 25 mg/ml 48 hrs, 4-day adult		1
Paraquat 5 mM 48 hrs, 4-day adult		1
Paraquat 10 mM 48 hrs, 4-day adult		1
Rotenone 2 μg 12 hrs, larvae L3		0
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		2
cold shock, 4-day adult		2
heat shock, 4-day adult		1
Cadmium 50 mM 6 hrs, larvae L3		0
Cadmium 50 mM 12 hrs, larvae L3		0
Cadmium 50 mM 48 hrs, 4-day adult		1
Cadmium 100 mM 48 hrs, 4-day adult		1
Copper 0.5 mM 12 hrs, larvae L3		1
Copper 15 mM 48 hrs, 4-day adult		1
Zinc 5 mM 12 hrs, larvae L3		1
Zinc 4.5 mM 48 hrs, 4-day adult		1
Ethanol 2.5% 3 hrs, larvae L3		1
Ethanol 5% 3 hrs, larvae L3		0
Ethanol 10% 3 hrs, larvae L3		0
Caffeine 1.5 mg/ml 4 hrs, larvae L3		1
Caffeine 2.5 mg/ml 48 hrs, 4-day adult		0
Caffeine 25 mg/ml 48 hrs, 4-day adult		1
Paraquat 5 mM 48 hrs, 4-day adult		1
Paraquat 10 mM 48 hrs, 4-day adult		1
Rotenone 2 μg 12 hrs, larvae L3		0
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		2
cold shock, 4-day adult		2
heat shock, 4-day adult		1
Cadmium 50 mM 6 hrs, larvae L3		0
Cadmium 50 mM 12 hrs, larvae L3		0
Cadmium 50 mM 48 hrs, 4-day adult		1
Cadmium 100 mM 48 hrs, 4-day adult		1
Copper 0.5 mM 12 hrs, larvae L3		1
Copper 15 mM 48 hrs, 4-day adult		1
Zinc 5 mM 12 hrs, larvae L3		1
Zinc 4.5 mM 48 hrs, 4-day adult		1
Ethanol 2.5% 3 hrs, larvae L3		1
Ethanol 5% 3 hrs, larvae L3		0
Ethanol 10% 3 hrs, larvae L3		0
Caffeine 1.5 mg/ml 4 hrs, larvae L3		1
Caffeine 2.5 mg/ml 48 hrs, 4-day adult		0
Caffeine 25 mg/ml 48 hrs, 4-day adult		1
Paraquat 5 mM 48 hrs, 4-day adult		1
Paraquat 10 mM 48 hrs, 4-day adult		1
Rotenone 2 μg 12 hrs, larvae L3		0
Rotenone 8 μg 12 hrs, larvae L3		1
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		1
Cadmium 50 mM 6 hrs, larvae L3		0
Cadmium 50 mM 12 hrs, larvae L3		0
Cadmium 50 mM 48 hrs, 4-day adult		1
Cadmium 100 mM 48 hrs, 4-day adult		1
Copper 0.5 mM 12 hrs, larvae L3		1
Copper 15 mM 48 hrs, 4-day adult		1
Zinc 5 mM 12 hrs, larvae L3		1
Zinc 4.5 mM 48 hrs, 4-day adult		1
Ethanol 2.5% 3 hrs, larvae L3		1
Ethanol 5% 3 hrs, larvae L3		0
Ethanol 10% 3 hrs, larvae L3		0
Caffeine 1.5 mg/ml 4 hrs, larvae L3		1
Caffeine 2.5 mg/ml 48 hrs, 4-day adult		0
Caffeine 25 mg/ml 48 hrs, 4-day adult		1
Paraquat 5 mM 48 hrs, 4-day adult		1
Paraquat 10 mM 48 hrs, 4-day adult		1
Rotenone 2 μg 12 hrs, larvae L3		0
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		2
cold shock, 4-day adult		2
heat shock, 4-day adult		1
Cadmium 50 mM 6 hrs, larvae L3		0
Cadmium 50 mM 12 hrs, larvae L3		0
Cadmium 50 mM 48 hrs, 4-day adult		1
Cadmium 100 mM 48 hrs, 4-day adult		1
Copper 0.5 mM 12 hrs, larvae L3		1
Copper 15 mM 48 hrs, 4-day adult		1
Zinc 5 mM 12 hrs, larvae L3		1
Zinc 4.5 mM 48 hrs, 4-day adult		1
Ethanol 2.5% 3 hrs, larvae L3		1
Ethanol 5% 3 hrs, larvae L3		0
Ethanol 10% 3 hrs, larvae L3		0
Caffeine 1.5 mg/ml 4 hrs, larvae L3		1
Caffeine 2.5 mg/ml 48 hrs, 4-day adult		0
Caffeine 25 mg/ml 48 hrs, 4-day adult		1
Paraquat 5 mM 48 hrs, 4-day adult		1
Paraquat 10 mM 48 hrs, 4-day adult		1
Rotenone 2 μg 12 hrs, larvae L3		0
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		2
cold shock, 4-day adult		2
heat shock, 4-day adult		1
Cadmium 50 mM 6 hrs, larvae L3		0
Cadmium 50 mM 12 hrs, larvae L3		0
Cadmium 50 mM 48 hrs, 4-day adult		1
Cadmium 100 mM 48 hrs, 4-day adult		1
Copper 0.5 mM 12 hrs, larvae L3		1
Copper 15 mM 48 hrs, 4-day adult		1
Zinc 5 mM 12 hrs, larvae L3		1
Zinc 4.5 mM 48 hrs, 4-day adult		1
Ethanol 2.5% 3 hrs, larvae L3		1
Ethanol 5% 3 hrs, larvae L3		0
Ethanol 10% 3 hrs, larvae L3		0
Caffeine 1.5 mg/ml 4 hrs, larvae L3		1
Caffeine 2.5 mg/ml 48 hrs, 4-day adult		0
Caffeine 25 mg/ml 48 hrs, 4-day adult		1
Paraquat 5 mM 48 hrs, 4-day adult		1
Paraquat 10 mM 48 hrs, 4-day adult		1
Rotenone 2 μg 12 hrs, larvae L3		0
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)

mE2_34_mRNA_expression_cluster_11

External Data & Images

A1-7 dorsal oblique muscle 3

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

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FBgn0002941

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

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CG6534-RA

Alleles & Phenotypes

Summary of Allele Phenotypes

Lethality

Allele

lethal, with Scer\GAL4^Mef2.PR

slou^GD4159

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

slou^GD4159

lethal | recessive

slou²⁸⁶

Other Phenotypes

Allele

flight defective, with Scer\GAL4^Mef2.PR

slou^GD4159

locomotor behavior defective, with Scer\GAL4^Mef2.PR

slou^GD4159

Phenotype manifest in

Allele

slou²⁸⁶

A1-7 dorsal transverse muscle 1

slou²⁸⁶

A1-7 lateral oblique muscle 1

slou²⁸⁶

A1-7 ventral acute muscle 1

slou²⁸⁶

A1-7 ventral acute muscle 2

slou²⁸⁶

A1-7 ventral acute muscle 3

slou²⁸⁶

A2-7 ventral transverse muscle 1

slou²⁸⁶

abdominal 2 dorsal transverse muscle 1

slou^dsRNA.cMa

abdominal 2 ventral transverse muscle 1

slou^dsRNA.cMa

abdominal 3 dorsal transverse muscle 1

slou^dsRNA.cMa

abdominal 3 ventral transverse muscle 1

slou^dsRNA.cMa

abdominal 4 dorsal transverse muscle 1

slou^dsRNA.cMa

abdominal 4 ventral transverse muscle 1

slou^dsRNA.cMa

abdominal 5 dorsal transverse muscle 1

slou^dsRNA.cMa

abdominal 5 ventral transverse muscle 1

slou^dsRNA.cMa

abdominal 6 dorsal transverse muscle 1

slou^dsRNA.cMa

abdominal 6 ventral transverse muscle 1

slou^dsRNA.cMa

abdominal 7 dorsal transverse muscle 1

slou^dsRNA.cMa

abdominal 7 ventral transverse muscle 1

slou^dsRNA.cMa

abdominal lateral adult muscle precursor cell

slou²⁸⁶

abdominal lateral adult muscle precursor cell, with Scer\GAL4^how-24B, Scer\GAL4^twi.PG

slou^Scer\UAS.cKa

abdominal ventral adult muscle precursor cell

slou²⁸⁶

adult muscle precursor cell, with Scer\GAL4^how-24B, Scer\GAL4^twi.PG

slou^Scer\UAS.cKa

cardioblast, with Scer\GAL4^how-24B, Scer\GAL4^twi.PG

slou^Scer\UAS.cKa

embryonic/larval dorsal vessel, with Scer\GAL4^how-24B, Scer\GAL4^twi.PG

slou^Scer\UAS.cKa

embryonic/larval somatic muscle, with Scer\GAL4^how-24B, Scer\GAL4^twi.PG

slou^Scer\UAS.cKa

embryonic/larval somatic muscle | ventral

slou²⁸⁶

presumptive embryonic/larval muscle system

slou^dsRNA.cMa

segment border muscle

slou²⁸⁶

segment border muscle, with Scer\GAL4^how-24B, Scer\GAL4^twi.PG

slou^Scer\UAS.cKa

wing

slou²⁸⁶

wing, with Scer\GAL4^Mef2.PR

slou^GD4159

Classical Alleles ( 1 )

For All Classical Alleles Show

Allele of slou	Class	Mutagen	Stocks	Known lesion
slou²⁸⁶	amorphic allele - genetic evidence	ethyl methanesulfonate	0	Yes

Alleles Carried on Transgenic Constructs ( 8 )

For All Alleles Carried on Transgenic Constructs Show

Allele of slou	Mutagen	Stocks	Known lesion
slou^GD4159	in vitro construct - RNAi in vitro construct - regulatory fusion	2	Yes
slou^JF02506	in vitro construct - RNAi in vitro construct - regulatory fusion	1	Yes
slou^KK102800	in vitro construct - RNAi in vitro construct - regulatory fusion	1	Yes
slou^{T:Avic\GFP-EGFP}	in vitro construct - coding region fusion	1	Yes
slou^dsRNA.cMa	in vitro construct - RNAi	0	Yes
slou^NIG.6534R	in vitro construct - RNAi in vitro construct - regulatory fusion	0	Yes
slou^{org-1.HN39.T:Hsap\MYC}	in vitro construct - regulatory fusion in vitro construct - coding region fusion	0	Yes
slou^Scer\UAS.cKa	in vitro construct - regulatory fusion	0	Yes

Aneuploid Aberrations

Not disrupted in

Df(3R)e-F1

(Dohrmann et al., 1990, Jagla et al., 1997)

Df(3R)e-Gp4

(Jagla et al., 1997)

Df(3R)GC14

(Jagla et al., 1997)

Disrupted in

Df(3R)e-BS2

(Jagla et al., 1997)

Transgenic Constructs & Insertions

Transgenic Constructs

Type of construct

Name

Expression data

UAS construct

reporter construct

GAL4 construct

characterization construct

P{org1-HN39-slou}

P{slou-mCD8-GFP}

PBac{slou-EGFP.S}

Insertions

Type of insertions

Name

Expression data

Gene Ontology: Function, Process & Cellular Component ( 10 unique terms )

Terms Based on Experimental Evidence ( 3 terms )

Molecular Function ( 0 terms)

Biological Process

CV term

muscle cell fate determination

References

inferred from expression pattern

(assigned by UniProtKB)

inferred from mutant phenotype

negative regulation of transcription from RNA polymerase II promoter

inferred from mutant phenotype

Cellular Component

CV term

(Knirr et al., 1999, Dohrmann et al., 1990)

References

nucleus

inferred from direct assay

Terms Based on Predictions or Assertions ( 8 terms )

Molecular Function

CV term

sequence-specific DNA binding

References

inferred from electronic annotation with InterPro:IPR001356, InterPro:IPR017970

(FlyBase Curators et al., 2004-)

sequence-specific DNA binding transcription factor activity

inferred from sequence or structural similarity with InterPro:IPR001356

(FlyBase, 1992-)

Biological Process

CV term

mesodermal cell fate specification

References

non-traceable author statement

(Jagla et al., 2001)

muscle organ development

traceable author statement

(Dworak and Sink, 2002, Jagla et al., 2001)

nervous system development

non-traceable author statement

(assigned by UniProtKB)

(Swiss-Prot Project Members, 1991.8.1)

regulation of transcription, DNA-dependent

inferred from sequence or structural similarity with InterPro:IPR001356

(FlyBase, 1992-)

somatic muscle development

non-traceable author statement

(assigned by UniProtKB)

(Swiss-Prot Project Members, 1991.8.1)

Cellular Component

CV term

(Swiss-Prot Project Members, 1991.8.1)

References

nucleus

inferred from sequence or structural similarity with InterPro:IPR001356

(FlyBase, 1992-)

non-traceable author statement

(assigned by UniProtKB)

Sequence Ontology: Class of Gene

gene_with_stop_codon_read_through

(Jungreis, 2011.11.18)

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

slou allele

Gene

References

External Data

y¹ v¹; P{TRiP.JF02506}attP2

BioGRID - A database of protein and genetic interactions

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67513

DroID - A comprehensive database of gene and protein interactions.

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FBgn0002941

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

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42547

Orthologs

OrthoDB Orthologs (42) - 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

EOG641QXZ

Dipteran inclusive ortholog search

EOG67WNXZ

Insect inclusive ortholog search

EOG6HT7Q3

Arthropod inclusive ortholog search

EOG637PXR

Metazoa inclusive ortholog search

EOG6NSG6G

Orthologs in Drosophila Species (EOG641QXZ)

Organism

Common Name

Gene

AAA Syntenic Ortholog

Multiple Dmel Genes in this Orthologous Group

Drosophila melanogaster

fruit fly

Drosophila simulans

Drosophila sechellia

Drosophila erecta

Drosophila yakuba

Drosophila ananassae

Drosophila pseudoobscura pseudoobscura

Dpse\GA19667

Drosophila persimilis

Dper\GL13783

Drosophila willistoni

Dwil\GK14259

Drosophila virilis

Dvir\GJ24446

Drosophila mojavensis

Dmoj\GI24800

Drosophila grimshawi

Dgri\GH13609

Orthologs in non-Drosophila Dipterans (EOG67WNXZ)

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Aedes aegypti

Yellow fever mosquito

Aaeg\AAEL013405

Anopheles gambiae

Malaria mosquito

Agam\AGAP000484

Culex quinquefasciatus

Southern house mosquito

Cqui\CPIJ019260

Orthologs in non-Dipteran Insects (EOG6HT7Q3)

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Apis mellifera

Western honey bee

Amel\GB50532

Nasonia vitripennis

Parasitic wasp

Nvit\Nasvi2EG005670

Acromyrmex echinatior

Panamanian leafcutter ant

Aech\AECH12251

Atta cephalotes

Leafcutter ant

Acep\ACEP24977

Atta cephalotes

Leafcutter ant

Acep\ACEP24978

Camponotus floridanus

Florida carpenter ant

Cflo\CFLO15252

Harpegnathos saltator

Jerdons jumping ant

Hsal\HSAL19988

Linepithema humile

Argentine ant

Lhum\LH21157

Pogonomyrmex barbatus

Red harvester ant

Pbar\PB25803

Solenopsis invicta

Red fire ant

Sinv\SINV10177

Bombyx mori

Silkmoth

Bmor\BGIBMGA010833

Pediculus humanus

Human body louse

Phum\PHUM433380

Tribolium castaneum

Red flour beetle

Tcas\TC012332

Orthologs in non-Insect Arthropods (EOG637PXR)

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Daphnia pulex

Water flea

Dpux\JGI_V11_18657

Ixodes scapularis

Deer tick

Isca\ISCW005223

Orthologs in non-Arthropod Metazoa (EOG6NSG6G)

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Caenorhabditis elegans

Nematode

Cele\ceh-1

Strongylocentrotus purpuratus

Purple sea urchin

Spur\SPU_012491gn

Danio rerio

Zebrafish

Drer\nkx1.2lb

Danio rerio

Zebrafish

Drer\nkx1.2la

Xenopus tropicalis

Western clawed frog

Xtro\nkx1-1

Xenopus tropicalis

Western clawed frog

Xtro\nkx1-2

Gallus gallus

Domestic chicken

Ggal\NKX1-1

Mus musculus

House mouse

Mmus\Nkx1-2

Mus musculus

House mouse

Mmus\Nkx1-1

Rattus norvegicus

Norway rat

Rnor\Nkx1-1

Rattus norvegicus

Norway rat

Rnor\Nkx1-2

Homo sapiens

Human

Hsap\NKX1-2

Human Orthologs (1)

Gene

OMIM

HGNC

Hsap\NKX1-2

AAA Orthologs (11) based on analysis using Dmel annotation version 4.3

Organism

Gene

Drosophila simulans

Drosophila sechellia

Drosophila erecta

Drosophila yakuba

Drosophila ananassae

Drosophila pseudoobscura pseudoobscura

Dpse\GA19667

Drosophila persimilis

Dper\GL13783

Drosophila willistoni

Dwil\GK14259

Drosophila virilis

Dvir\GJ24446

Drosophila mojavensis

Dmoj\GI24800

Drosophila grimshawi

Dgri\GH13609

Stocks & Reagents

Stocks Listed in FlyBase ( 5 )

Bloomington

38668

w¹¹¹⁸; PBac{slou-EGFP.S}VK00037/SM5

29344

VDRC

v105717

P{KK102800}VIE-260B

v30463

w¹¹¹⁸; P{GD4159}v30463

v30462

w¹¹¹⁸; P{GD4159}v30462/TM3

Genomic Clones ( 1 )

BACR48I01

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

cDNA Clones ( 5 )

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

RT11964

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi & Array Information

DRSC - Results from RNAi screens.

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FBgn0002941

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

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42547

Antibody Information

polyclonal

Other Information

Discoverer

Etymology

The gene is named "slouch" based on the phenotype of mutant escapers which are very weak, unable to reproduce and have a short life span.

Identification

Relationship to Other Genes

Source for database identity of

Source for database merge of

Additional comments

Other Comments

slou functions as an identity gene in somatic muscle development.

Mutation in slou disrupts the development of all somatic muscles that are derived from slou-expressing founder cells in the embryo. The observed phenotypes include transformations of founder cell fates.

Using the Scer\GAL4-targetted expression system, it is demonstrated that wg acts directly in the mesoderm to ensure the formation of slou-expressing founder cells. wg gene product can signal across germ layers so wg from the ectoderm could constitute an inductive signal for the initiation of the development of a subset of somatic muscles.

(Baylies et al., 1995)

The PRD-repeat domains of slou and prd protein are sufficient to mediate protein-protein interaction, suggesting that the PRD-domain functions as a protein-binding interface and thereby may increase the DNA binding specificity of homeodomain transcription factors.

(Kim et al., 1995)

Mutations in neurogenic genes lead to an expansion of the domains of slou and vg expression in the mesoderm and produce severe abnormalities in muscle patterning and muscle differentiation.

(Bate et al., 1993)

slou has been cloned and sequenced, and its expression pattern analysed.

Identified on the basis of similarity to a 600bp prd cDNA fragment which codes for the last 205 amino acids of prd.

(Keleman et al., 2009.8.5, Perkins et al., 2009)

Homeobox gene expressed in embryos in several types of striated muscle cells and in some cells in the ventral nervous system. Fewer transcripts were detected in the central nervous systems (CNS) of larvae, pupae and adults. No transcripts were detected in 0-3 hour embryos.

External Crossreferences & Linkouts

Sequence Crossreferences

RefSeq (Transcripts)

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RefSeq (Proteins)

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DDBJ / EMBL / GenBank

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Entrez Gene - A searchable database of RefSeq genes.

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42547

UniProtKB/Swiss-Prot

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P22807

Other Crossreferences

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

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Homeobox, conserved site (IPR017970)

Homeodomain (IPR001356)

Homeodomain-like (IPR009057)

Homeodomain, metazoa (IPR020479)

Linkouts

BioGRID - A database of protein and genetic interactions

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67513

DroID - A comprehensive database of gene and protein interactions.

•

FBgn0002941

DRSC - Results from RNAi screens.

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FBgn0002941

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

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FBgn0002941

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

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CG6534-RA

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

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FBgn0002941

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

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42547

Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution

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/gene/nk1.htm

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

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42547

modMine - Data generated by the modENCODE project.

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FBgn0002941

REDfly - A database of transcriptional regulatory elements.

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FBgn0002941

Synonyms & Secondary IDs ( 16 )

Reported As

Symbol Synonym

CG6534

NK1

(Kim, 1998.10.6, Kim et al., 1995)

NK-1

(Kim et al., 1999, Kim et al., 1998, Kmita-Cunisse et al., 1998, Jaynes, 1996, Jagla et al., 1993, Walldorf and Gehring, 1992, Cribbs et al., 1992)

Nk1

(Kim and Nirenberg, 1989, )

NK1/S59

(Fyrberg et al., 1994)

prd9

S59

(Chen and Olson, 2004, De Graeve et al., 2004, Dworak and Sink, 2002, Castanon and Baylies, 2002, Brennan and Gardner, 2002, Castanon et al., 2001, Baylies and Michelson, 2001, Hayes et al., 2001, Rizkalla et al., 2001, Ruiz-Gomez et al., 2000, Rizkalla and Siegfried, 2000, Hughes and Salinas, 1999, Giebel, 1999, Misquitta and Paterson, 1999, Paululat et al., 1999, Brennan et al., 1999, Paululat et al., 1999, Rizkalla and Siegfried, 1999, Misquitta and Paterson, 1999, Rusconi and Corbin, 1998, Olson and Klein, 1998, Keller et al., 1998, Park et al., 1998, Fuerstenberg and Giniger, 1998, Baylies et al., 1998, Martinez Arias, 1998, Ruiz-Gomez, 1998, Yin and Frasch, 1998, Fisher and Caudy, 1998, Baylies et al., 1997, Rizkalla and Siegfried, 1998, Knirr et al., 1998, Nose et al., 1998, Ruiz Gomez and Bate, 1997, Hemavathy et al., 1997, Ruiz-Gomez et al., 1997, Riechmann et al., 1997, Namba et al., 1997, Lin et al., 1997, Jagla et al., 1997, Prokop et al., 1996, Taylor, 1996, Donoghue and Sanes, 1994, Ranganayakulu et al., 1996, Olson et al., 1995, Lord et al., 1995, Baylies et al., 1995, Fernandez et al., 1995, Carmena et al., 1995, Abmayr et al., 1995, Rushton et al., 1995, Lilly et al., 1995, Francois et al., 1994, Bate et al., 1993, Bate, 1993, Jimenez and Modolell, 1993, Jagla et al., 1993, Matsuzaki et al., 1992, Dohrmann et al., 1990, Enriquez et al., 2012, Carrasco-Rando et al., 2011, Carmena et al., 1995, Frasch, 1999, Sharpe et al., 2001, Wei et al., 2007)

s59

(Cox and Baylies, 2002)

S-59

(Madden et al., 1999)

S59/NK-1

(Arendt and Nubler-Jung, 1999, Treisman et al., 1992)

slou

(Hoskins et al., 2005, Schaub et al., 2012, Kazemian et al., 2011, Dietzl et al., 2007, Jungreis, 2011.11.18, Carrasco-Rando et al., 2011, Sandmann et al., 2006, Duan et al., 2007, Liu et al., 2009, Junion et al., 2007, Bantignies et al., 2011, Copley, 2005, Zeitlinger et al., 2007, Spokony and White, 2012.5.22, Bataillé et al., 2010, Dobi et al., 2011, Japanese National Institute of Genetics, 2012.5.21, Busser et al., 2012)

slou/NK1

(Popovici et al., 2001)

Name Synonym

paired-like 9

PRD gene 9