Gene Dmel\stumps

88C-88E

In situ hybridisation using a stumps cDNA as a probe (the "gene C" or "anon-EST:CL47" cDNA isolated in FBrf0090486) gave three signals, at 30C, 88C and 88E (only 30C was detected in FBrf0090486). Hybridisation to homozygous Df(3R)ry506-85C embryos using the same probe indicates that stumps maps to 88 as the stumps transcript is absent in these embryos. (determined by in situ hybridisation)

88B-88E

Maps by recombination and deficiency mapping to 88B--88E.

Experimentally Determined Recombination Data

Location

Left of (cM)

Right of (cM)

cv-c

Notes

Gene Model & Products

Please see the GBrowse view of Dmel\stumps 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 5.47

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

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Associated CDS (aa)

stumps-RB

FBtr0082959

NM_169589

3787

1012

stumps-RC

FBtr0112893

NM_001104322

4679

1211

stumps-RD

FBtr0334955

NM_001275642

3685

1029

stumps-RE

FBtr0334956

NM_169588

4594

1220

stumps-RF

FBtr0334957

NM_001275643

3643

973

Additional Transcript Data & Comments

Reported size (kB)

5.5, 4.4 (northern blot)

4.043, 3.733 (longest cDNA)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kDa)

Length (aa)

Theoretical pI

RefSeq ID

GenBank protein

stumps-PB

FBpp0082418

112.9

1012

6.63

NP_731924

AAF55077

stumps-PC

FBpp0111806

134.7

1211

7.64

NP_001097792

ABW08674

stumps-PD

FBpp0306970

114.8

1029

6.69

NP_001262571

AGB95952

stumps-PE

FBpp0306971

135.8

1220

7.56

NP_731923

AAF55076

stumps-PF

FBpp0306972

108.8

973

6.83

NP_001262572

AGB95953

Additional Polypeptide Data & Comments

Reported size (kDa)

1144, 1012 (aa)

Comments

External Data

FBsf0000435130
3R:10,420,011..10,421,523

Crossreferences

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

•

DBB domain (IPR017893)

Sequences Consistent with the Gene Model

DDBJ /
EMBL /
GenBank

DNA sequence

Protein sequence

Name

Mapped Features

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

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

Type

Symbol & Location

Additional Notes

References

regulatory region

evidence=Reporter construct (in vivo)

(Halfon et al., 2002, Halfon, 2012.6.19)

regulatory region

FBsf0000435977
3R:10,420,011..10,421,723

evidence=Reporter construct (in vivo)

(Halfon et al., 2002, Halfon, 2012.6.19)

regulatory region

FBsf0000436272
3R:10,414,438..10,416,493

evidence=Reporter construct (in vivo)

(Sandmann et al., 2007, Halfon, 2012.6.19)

regulatory region

FBsf0000436493
3R:10,423,060..10,424,098

evidence=Reporter construct (in vivo)

(Stathopoulos et al., 2004, Halfon, 2012.6.19)

External Data

Crossreferences

Expression Data

Transcript Expression

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage

visceral mesoderm

embryonic/larval heart

embryonic/larval glial cell

posterior midgut primordium

anterior midgut primordium

embryonic/larval tracheal system

embryonic stage 1 -- 3

organism

Comment:maternally deposited

embryonic stage 4

organism | ventral

mesoderm anlage

embryonic stage 4 -- 6

anterior endoderm anlage

Comment:anlage in statu nascendi

head mesoderm anlage

Comment:anlage in statu nascendi

mesoderm anlage

Comment:anlage in statu nascendi

trunk mesoderm anlage

Comment:anlage in statu nascendi

embryonic stage 5

mesoderm anlage

embryonic stage 6 -- 17

mesoderm

embryonic stage 7 -- 8

anterior endoderm anlage

head mesoderm

trunk mesoderm

yolk nucleus

embryonic stage 9 -- 10

tracheal primordium

anterior endoderm

head mesoderm

trunk mesoderm

embryonic stage 11

tracheal pit

embryonic stage 11 -- 12

mesoderm

(Bradley et al., 2003)

Comment:NOT embryonic salivary gland

circular visceral muscle primordium

head mesoderm

tracheal primordium

visceral muscle primordium

embryonic stage 11 -- 17

embryonic/larval tracheal system

embryonic stage 13

visceral mesoderm

embryonic stage 13 -- 16

dorsal pharyngeal muscle

embryonic/larval visceral muscle

esophageal visceral muscle

Additional Descriptive Data

stumps transcripts are first detected on the ventral side of the embryo in the late syncytial embryo in a region slightly narrower than the mesodermal primordium. During germ band extension, they disappear from the mesoderm. They are observed in tracheal placodes by stage 9/10. As the trachea differentiate, staining disappears in the primary branches and is observed in the secondary branches. stumps transcripts are expressed transiently in the anterior midgut primordium, in parts of the posterior midgut primordium, in a subset of heart cells and in a group of migrating visceral mesoderm cells. Expression is also observed in some glial cells. Later in development expression is observed in parts of the imaginal discs and the brain. The two stumps transcripts appear to be co-expressed everywhere except in the anterior midgut primordium in which only transcript II is expressed.

Transcripts are expressed in ventral cells of the blastoderm embryo. The posterior border coincides with the posterior limit of the ventral furrow. Anteriorly, expression extends up to the anterior pole. Expression continues in the mesoderm. Expression is observed in the tracheal system and in parts of the visceral mesoderm in later embryos.

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

immunolocalization

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 1 -- 10

mesoderm

embryonic stage 11

tracheal pit

• membrane

mesoderm | dorsal & restricted

• membrane

(Sato and Kornberg, 2002)

third instar larval stage

wing disc & adepithelial cell

Additional Descriptive Data

Protein was detected in both htl and btl expressing adepithelial cells in third instar wing discs.

(Halfon et al., 2002, Sato and Kornberg, 2002)

Prior to stage 11 stumps protein is widely expressed in the embryonic mesoderm. In early stage 11 expression is refined to the dorsal part of the mesoderm and undergoes dynamic modulation in a subset of dorsal cells including the eve-expressing muscle and heart progenitors. stumps protein can also be detected in the ectodermally derived tracheal pits at this stage.

Marker for

Subcellular Localization (GO Cellular Component)

CV term

References

Expression Deduced from Reporters

Reporter: P{stumps-lacZ.HbrDME}

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 11

mesoderm | dorsal & restricted

(The modENCODE Consortium, 2010, Graveley et al., 2011)

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 high levels in the following post-embryonic organs or tissues: adult thoracico-abdominal ganglion, adult salivary gland, larval trachea. Expression at moderate levels in the following post-embryonic organs or tissues: adult head, adult eye, larval/adult central nervous system, adult crop, adult hindgut, adult heart, larval/adult carcass.
[download data (TSV)]

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

Linear, scaled to maximum expression level
Tissue		Expression Level
Larval Central Nervous System		238.425
Larval Midgut		67.5
Larval Hindgut		93.5
Larval Malpighian Tubules		8.8
Larval Fat Body		43.3
Larval Salivary Gland		18.5
Larval Trachea		995.425
Larval Carcass		139.875
Adult Head		246.8
Adult Eye		127.3
Adult Brain		390
Adult Thoracic-Abdominal Ganglion		701.5
Adult Crop		219.9
Adult Midgut		76.5
Adult Hindgut		118.8
Adult Malpighian Tubules		41.7
Adult Fat Body		63.5
Adult Salivary Gland		961.9
Adult Heart		112.675
Adult VirginFemale Spermatheca		30.9
Adult InseminatedFemale Spermatheca		42.6
Adult Ovary		15.3
Adult Testis		52.5
Adult Male Accessory Gland		92.8
Adult Carcass		146.3
Expression Level Scale		None Low Moderate High Very high

Linear, scaled to Moderate expression
Tissue		Expression Level
Larval Central Nervous System		238.425
Larval Midgut		67.5
Larval Hindgut		93.5
Larval Malpighian Tubules		8.8
Larval Fat Body		43.3
Larval Salivary Gland		18.5
Larval Trachea		(995.425)
Larval Carcass		139.875
Adult Head		246.8
Adult Eye		127.3
Adult Brain		390
Adult Thoracic-Abdominal Ganglion		(701.5)
Adult Crop		219.9
Adult Midgut		76.5
Adult Hindgut		118.8
Adult Malpighian Tubules		41.7
Adult Fat Body		63.5
Adult Salivary Gland		(961.9)
Adult Heart		112.675
Adult VirginFemale Spermatheca		30.9
Adult InseminatedFemale Spermatheca		42.6
Adult Ovary		15.3
Adult Testis		52.5
Adult Male Accessory Gland		92.8
Adult Carcass		146.3
Expression Level Scale		None Low Moderate High

Linear, scaled to High level expression
Tissue		Expression Level
Larval Central Nervous System		238.425
Larval Midgut		67.5
Larval Hindgut		93.5
Larval Malpighian Tubules		8.8
Larval Fat Body		43.3
Larval Salivary Gland		18.5
Larval Trachea		995.425
Larval Carcass		139.875
Adult Head		246.8
Adult Eye		127.3
Adult Brain		390
Adult Thoracic-Abdominal Ganglion		701.5
Adult Crop		219.9
Adult Midgut		76.5
Adult Hindgut		118.8
Adult Malpighian Tubules		41.7
Adult Fat Body		63.5
Adult Salivary Gland		961.9
Adult Heart		112.675
Adult VirginFemale Spermatheca		30.9
Adult InseminatedFemale Spermatheca		42.6
Adult Ovary		15.3
Adult Testis		52.5
Adult Male Accessory Gland		92.8
Adult Carcass		146.3
Expression Level Scale		None Low Moderate High Very high

Linear, scaled to Very high expression
Tissue		Expression Level
Larval Central Nervous System		238.425
Larval Midgut		67.5
Larval Hindgut		93.5
Larval Malpighian Tubules		8.8
Larval Fat Body		43.3
Larval Salivary Gland		18.5
Larval Trachea		995.425
Larval Carcass		139.875
Adult Head		246.8
Adult Eye		127.3
Adult Brain		390
Adult Thoracic-Abdominal Ganglion		701.5
Adult Crop		219.9
Adult Midgut		76.5
Adult Hindgut		118.8
Adult Malpighian Tubules		41.7
Adult Fat Body		63.5
Adult Salivary Gland		961.9
Adult Heart		112.675
Adult VirginFemale Spermatheca		30.9
Adult InseminatedFemale Spermatheca		42.6
Adult Ovary		15.3
Adult Testis		52.5
Adult Male Accessory Gland		92.8
Adult Carcass		146.3
Expression Level Scale		Very high

log, scaled to maximum expression level
Tissue		Expression Level
Larval Central Nervous System		238.425
Larval Midgut		67.5
Larval Hindgut		93.5
Larval Malpighian Tubules		8.8
Larval Fat Body		43.3
Larval Salivary Gland		18.5
Larval Trachea		995.425
Larval Carcass		139.875
Adult Head		246.8
Adult Eye		127.3
Adult Brain		390
Adult Thoracic-Abdominal Ganglion		701.5
Adult Crop		219.9
Adult Midgut		76.5
Adult Hindgut		118.8
Adult Malpighian Tubules		41.7
Adult Fat Body		63.5
Adult Salivary Gland		961.9
Adult Heart		112.675
Adult VirginFemale Spermatheca		30.9
Adult InseminatedFemale Spermatheca		42.6
Adult Ovary		15.3
Adult Testis		52.5
Adult Male Accessory Gland		92.8
Adult Carcass		146.3
Expression Level Scale		None Low Moderate High Very high

log, scaled to Moderate expression
Tissue		Expression Level
Larval Central Nervous System		238.425
Larval Midgut		67.5
Larval Hindgut		93.5
Larval Malpighian Tubules		8.8
Larval Fat Body		43.3
Larval Salivary Gland		18.5
Larval Trachea		(995.425)
Larval Carcass		139.875
Adult Head		246.8
Adult Eye		127.3
Adult Brain		390
Adult Thoracic-Abdominal Ganglion		701.5
Adult Crop		219.9
Adult Midgut		76.5
Adult Hindgut		118.8
Adult Malpighian Tubules		41.7
Adult Fat Body		63.5
Adult Salivary Gland		(961.9)
Adult Heart		112.675
Adult VirginFemale Spermatheca		30.9
Adult InseminatedFemale Spermatheca		42.6
Adult Ovary		15.3
Adult Testis		52.5
Adult Male Accessory Gland		92.8
Adult Carcass		146.3
Expression Level Scale		None Low Moderate High

log, scaled to High level expression
Tissue		Expression Level
Larval Central Nervous System		238.425
Larval Midgut		67.5
Larval Hindgut		93.5
Larval Malpighian Tubules		8.8
Larval Fat Body		43.3
Larval Salivary Gland		18.5
Larval Trachea		995.425
Larval Carcass		139.875
Adult Head		246.8
Adult Eye		127.3
Adult Brain		390
Adult Thoracic-Abdominal Ganglion		701.5
Adult Crop		219.9
Adult Midgut		76.5
Adult Hindgut		118.8
Adult Malpighian Tubules		41.7
Adult Fat Body		63.5
Adult Salivary Gland		961.9
Adult Heart		112.675
Adult VirginFemale Spermatheca		30.9
Adult InseminatedFemale Spermatheca		42.6
Adult Ovary		15.3
Adult Testis		52.5
Adult Male Accessory Gland		92.8
Adult Carcass		146.3
Expression Level Scale		None Low Moderate High Very high

log, scaled to Very high expression
Tissue		Expression Level
Larval Central Nervous System		238.425
Larval Midgut		67.5
Larval Hindgut		93.5
Larval Malpighian Tubules		8.8
Larval Fat Body		43.3
Larval Salivary Gland		18.5
Larval Trachea		995.425
Larval Carcass		139.875
Adult Head		246.8
Adult Eye		127.3
Adult Brain		390
Adult Thoracic-Abdominal Ganglion		701.5
Adult Crop		219.9
Adult Midgut		76.5
Adult Hindgut		118.8
Adult Malpighian Tubules		41.7
Adult Fat Body		63.5
Adult Salivary Gland		961.9
Adult Heart		112.675
Adult VirginFemale Spermatheca		30.9
Adult InseminatedFemale Spermatheca		42.6
Adult Ovary		15.3
Adult Testis		52.5
Adult Male Accessory Gland		92.8
Adult Carcass		146.3
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	246.8
NA	Eye	127.3
NA	Brain	390
238.425	Central Nervous System	NA
NA	Thoracic-Abdominal Ganglion	701.5
NA	Crop	219.9
67.5	Midgut	76.5
93.5	Hindgut	118.8
8.8	Malpighian Tubules	41.7
43.3	Fat Body	63.5
18.5	Salivary Gland	961.9
NA	Heart	112.675
995.425	Trachea	NA
NA	VirginFemale Spermatheca	30.9
NA	InseminatedFemale Spermatheca	42.6
NA	Ovary	15.3
NA	Testis	52.5
NA	Male Accessory Gland	92.8
139.875	Carcass	146.3

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		10
central nervous system, larvae L3		19
central nervous system, pupae P8		28
head, virgin 1-day female		16
head, virgin 4-day female		14
head, virgin 20-day female		11
head, mated 1-day female		15
head, mated 4-day female		10
head, mated 20-day female		9
head, mated 1-day male		22
head, mated 4-day male		17
head, mated 20-day male		19
salivary gland, larvae L3 wandering		0
salivary gland, white prepupae		4
digestive system, larvae L3 wandering		4
digestive system, 1-day adult		2
digestive system, 4-day adult		4
digestive system, 20-day adult		2
fat body, larvae L3 wandering		1
fat body, white prepupae		7
fat body, pupae P8		26
carcass, larvae L3 wandering		17
carcass, 1-day adult		12
carcass, 4-day adult		8
carcass, 20-day adult		7
ovary, virgin 4-day female		0
ovary, mated 4-day female		1
testis, mated 4-day male		2
accessory gland, mated 4-day male		2
Expression Level Scale		Very low Low Moderate Moderately high

Linear, scaled to Moderate expression
Tissue		Expression Level
imaginal disc, larvae L3 wandering		10
central nervous system, larvae L3		19
central nervous system, pupae P8		(28)
head, virgin 1-day female		16
head, virgin 4-day female		14
head, virgin 20-day female		11
head, mated 1-day female		15
head, mated 4-day female		10
head, mated 20-day female		9
head, mated 1-day male		22
head, mated 4-day male		17
head, mated 20-day male		19
salivary gland, larvae L3 wandering		0
salivary gland, white prepupae		4
digestive system, larvae L3 wandering		4
digestive system, 1-day adult		2
digestive system, 4-day adult		4
digestive system, 20-day adult		2
fat body, larvae L3 wandering		1
fat body, white prepupae		7
fat body, pupae P8		26
carcass, larvae L3 wandering		17
carcass, 1-day adult		12
carcass, 4-day adult		8
carcass, 20-day adult		7
ovary, virgin 4-day female		0
ovary, mated 4-day female		1
testis, mated 4-day male		2
accessory gland, mated 4-day male		2
Expression Level Scale		Very low Low Moderate Moderately high

Linear, scaled to High expression
Tissue		Expression Level
imaginal disc, larvae L3 wandering		10
central nervous system, larvae L3		19
central nervous system, pupae P8		28
head, virgin 1-day female		16
head, virgin 4-day female		14
head, virgin 20-day female		11
head, mated 1-day female		15
head, mated 4-day female		10
head, mated 20-day female		9
head, mated 1-day male		22
head, mated 4-day male		17
head, mated 20-day male		19
salivary gland, larvae L3 wandering		0
salivary gland, white prepupae		4
digestive system, larvae L3 wandering		4
digestive system, 1-day adult		2
digestive system, 4-day adult		4
digestive system, 20-day adult		2
fat body, larvae L3 wandering		1
fat body, white prepupae		7
fat body, pupae P8		26
carcass, larvae L3 wandering		17
carcass, 1-day adult		12
carcass, 4-day adult		8
carcass, 20-day adult		7
ovary, virgin 4-day female		0
ovary, mated 4-day female		1
testis, mated 4-day male		2
accessory gland, mated 4-day male		2
Expression Level Scale		Very low Low Moderate Moderately high High Very high

Linear, scaled to Extremely high expression
Tissue		Expression Level
imaginal disc, larvae L3 wandering		10
central nervous system, larvae L3		19
central nervous system, pupae P8		28
head, virgin 1-day female		16
head, virgin 4-day female		14
head, virgin 20-day female		11
head, mated 1-day female		15
head, mated 4-day female		10
head, mated 20-day female		9
head, mated 1-day male		22
head, mated 4-day male		17
head, mated 20-day male		19
salivary gland, larvae L3 wandering		0
salivary gland, white prepupae		4
digestive system, larvae L3 wandering		4
digestive system, 1-day adult		2
digestive system, 4-day adult		4
digestive system, 20-day adult		2
fat body, larvae L3 wandering		1
fat body, white prepupae		7
fat body, pupae P8		26
carcass, larvae L3 wandering		17
carcass, 1-day adult		12
carcass, 4-day adult		8
carcass, 20-day adult		7
ovary, virgin 4-day female		0
ovary, mated 4-day female		1
testis, mated 4-day male		2
accessory gland, mated 4-day male		2
Expression Level Scale		Extremely high

log, scaled to maximum expression level
Tissue		Expression Level
imaginal disc, larvae L3 wandering		10
central nervous system, larvae L3		19
central nervous system, pupae P8		28
head, virgin 1-day female		16
head, virgin 4-day female		14
head, virgin 20-day female		11
head, mated 1-day female		15
head, mated 4-day female		10
head, mated 20-day female		9
head, mated 1-day male		22
head, mated 4-day male		17
head, mated 20-day male		19
salivary gland, larvae L3 wandering		0
salivary gland, white prepupae		4
digestive system, larvae L3 wandering		4
digestive system, 1-day adult		2
digestive system, 4-day adult		4
digestive system, 20-day adult		2
fat body, larvae L3 wandering		1
fat body, white prepupae		7
fat body, pupae P8		26
carcass, larvae L3 wandering		17
carcass, 1-day adult		12
carcass, 4-day adult		8
carcass, 20-day adult		7
ovary, virgin 4-day female		0
ovary, mated 4-day female		1
testis, mated 4-day male		2
accessory gland, mated 4-day male		2
Expression Level Scale		Very low Low Moderate Moderately high

log, scaled to Moderate expression
Tissue		Expression Level
imaginal disc, larvae L3 wandering		10
central nervous system, larvae L3		19
central nervous system, pupae P8		28
head, virgin 1-day female		16
head, virgin 4-day female		14
head, virgin 20-day female		11
head, mated 1-day female		15
head, mated 4-day female		10
head, mated 20-day female		9
head, mated 1-day male		22
head, mated 4-day male		17
head, mated 20-day male		19
salivary gland, larvae L3 wandering		0
salivary gland, white prepupae		4
digestive system, larvae L3 wandering		4
digestive system, 1-day adult		2
digestive system, 4-day adult		4
digestive system, 20-day adult		2
fat body, larvae L3 wandering		1
fat body, white prepupae		7
fat body, pupae P8		26
carcass, larvae L3 wandering		17
carcass, 1-day adult		12
carcass, 4-day adult		8
carcass, 20-day adult		7
ovary, virgin 4-day female		0
ovary, mated 4-day female		1
testis, mated 4-day male		2
accessory gland, mated 4-day male		2
Expression Level Scale		Very low Low Moderate Moderately high

log, scaled to High expression
Tissue		Expression Level
imaginal disc, larvae L3 wandering		10
central nervous system, larvae L3		19
central nervous system, pupae P8		28
head, virgin 1-day female		16
head, virgin 4-day female		14
head, virgin 20-day female		11
head, mated 1-day female		15
head, mated 4-day female		10
head, mated 20-day female		9
head, mated 1-day male		22
head, mated 4-day male		17
head, mated 20-day male		19
salivary gland, larvae L3 wandering		0
salivary gland, white prepupae		4
digestive system, larvae L3 wandering		4
digestive system, 1-day adult		2
digestive system, 4-day adult		4
digestive system, 20-day adult		2
fat body, larvae L3 wandering		1
fat body, white prepupae		7
fat body, pupae P8		26
carcass, larvae L3 wandering		17
carcass, 1-day adult		12
carcass, 4-day adult		8
carcass, 20-day adult		7
ovary, virgin 4-day female		0
ovary, mated 4-day female		1
testis, mated 4-day male		2
accessory gland, mated 4-day male		2
Expression Level Scale		Very low Low Moderate Moderately high High Very high

log, scaled to Extremely high expression
Tissue		Expression Level
imaginal disc, larvae L3 wandering		10
central nervous system, larvae L3		19
central nervous system, pupae P8		28
head, virgin 1-day female		16
head, virgin 4-day female		14
head, virgin 20-day female		11
head, mated 1-day female		15
head, mated 4-day female		10
head, mated 20-day female		9
head, mated 1-day male		22
head, mated 4-day male		17
head, mated 20-day male		19
salivary gland, larvae L3 wandering		0
salivary gland, white prepupae		4
digestive system, larvae L3 wandering		4
digestive system, 1-day adult		2
digestive system, 4-day adult		4
digestive system, 20-day adult		2
fat body, larvae L3 wandering		1
fat body, white prepupae		7
fat body, pupae P8		26
carcass, larvae L3 wandering		17
carcass, 1-day adult		12
carcass, 4-day adult		8
carcass, 20-day adult		7
ovary, virgin 4-day female		0
ovary, mated 4-day female		1
testis, mated 4-day male		2
accessory gland, mated 4-day male		2
Expression Level Scale		Very low Low Moderate Moderately high High Very high Extremely high

Heatmap
Tissue		Expression Level
imaginal disc, larvae L3 wandering
central nervous system, larvae L3
central nervous system, pupae P8
head, virgin 1-day female
head, virgin 4-day female
head, virgin 20-day female
head, mated 1-day female
head, mated 4-day female
head, mated 20-day female
head, mated 1-day male
head, mated 4-day male
head, mated 20-day male
salivary gland, larvae L3 wandering
salivary gland, white prepupae
digestive system, larvae L3 wandering
digestive system, 1-day adult
digestive system, 4-day adult
digestive system, 20-day adult
fat body, larvae L3 wandering
fat body, white prepupae
fat body, pupae P8
carcass, larvae L3 wandering
carcass, 1-day adult
carcass, 4-day adult
carcass, 20-day adult
ovary, virgin 4-day female
ovary, mated 4-day female
testis, mated 4-day male
accessory gland, mated 4-day male

modENCODE Development RNA-Seq

modENCODE Temporal Expression Data

(modENCODE_mRNA-Seq_U)

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

Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of low expression. Peak expression observed within 00-06 hour embryonic stages.
[download data (TSV)]

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

Linear, scaled to maximum expression level
Developmental Stage		Expression Level
embryo 00-02hr		1
embryo 02-04hr		21
embryo 04-06hr		51
embryo 06-08hr		39
embryo 08-10hr		44
embryo 10-12hr		33
embryo 12-14hr		43
embryo 14-16hr		45
embryo 16-18hr		24
embryo 18-20hr		16
embryo 20-22hr		10
embryo 22-24hr		11
larva L1		8
larva L2		8
larva L3 12hr old		4
larva L3 puffstage 1-2		4
larva L3 puffstage 3-6		7
larva L3 puffstage 7-9		9
white prepupae new		12
white prepupae 12hr		26
white prepupae 24hr		20
pupae 2d postWPP		15
pupae 3d postWPP		19
pupae 4d postWPP		6
adult male 01day		10
adult male 05day		8
adult male 30day		6
adult female 01day		6
adult female 05day		2
adult female 30day		1
Expression Level Scale		Very low Low Moderate Moderately high High

Linear, scaled to Moderate expression
Developmental Stage		Expression Level
embryo 00-02hr		1
embryo 02-04hr		21
embryo 04-06hr		(51)
embryo 06-08hr		(39)
embryo 08-10hr		(44)
embryo 10-12hr		(33)
embryo 12-14hr		(43)
embryo 14-16hr		(45)
embryo 16-18hr		24
embryo 18-20hr		16
embryo 20-22hr		10
embryo 22-24hr		11
larva L1		8
larva L2		8
larva L3 12hr old		4
larva L3 puffstage 1-2		4
larva L3 puffstage 3-6		7
larva L3 puffstage 7-9		9
white prepupae new		12
white prepupae 12hr		26
white prepupae 24hr		20
pupae 2d postWPP		15
pupae 3d postWPP		19
pupae 4d postWPP		6
adult male 01day		10
adult male 05day		8
adult male 30day		6
adult female 01day		6
adult female 05day		2
adult female 30day		1
Expression Level Scale		Very low Low Moderate Moderately high

Linear, scaled to High expression
Developmental Stage		Expression Level
embryo 00-02hr		1
embryo 02-04hr		21
embryo 04-06hr		51
embryo 06-08hr		39
embryo 08-10hr		44
embryo 10-12hr		33
embryo 12-14hr		43
embryo 14-16hr		45
embryo 16-18hr		24
embryo 18-20hr		16
embryo 20-22hr		10
embryo 22-24hr		11
larva L1		8
larva L2		8
larva L3 12hr old		4
larva L3 puffstage 1-2		4
larva L3 puffstage 3-6		7
larva L3 puffstage 7-9		9
white prepupae new		12
white prepupae 12hr		26
white prepupae 24hr		20
pupae 2d postWPP		15
pupae 3d postWPP		19
pupae 4d postWPP		6
adult male 01day		10
adult male 05day		8
adult male 30day		6
adult female 01day		6
adult female 05day		2
adult female 30day		1
Expression Level Scale		Very low Low Moderate Moderately high High Very high

Linear, scaled to Extremely high expression
Developmental Stage		Expression Level
embryo 00-02hr		1
embryo 02-04hr		21
embryo 04-06hr		51
embryo 06-08hr		39
embryo 08-10hr		44
embryo 10-12hr		33
embryo 12-14hr		43
embryo 14-16hr		45
embryo 16-18hr		24
embryo 18-20hr		16
embryo 20-22hr		10
embryo 22-24hr		11
larva L1		8
larva L2		8
larva L3 12hr old		4
larva L3 puffstage 1-2		4
larva L3 puffstage 3-6		7
larva L3 puffstage 7-9		9
white prepupae new		12
white prepupae 12hr		26
white prepupae 24hr		20
pupae 2d postWPP		15
pupae 3d postWPP		19
pupae 4d postWPP		6
adult male 01day		10
adult male 05day		8
adult male 30day		6
adult female 01day		6
adult female 05day		2
adult female 30day		1
Expression Level Scale		Extremely high

log, scaled to maximum expression level
Developmental Stage		Expression Level
embryo 00-02hr		1
embryo 02-04hr		21
embryo 04-06hr		51
embryo 06-08hr		39
embryo 08-10hr		44
embryo 10-12hr		33
embryo 12-14hr		43
embryo 14-16hr		45
embryo 16-18hr		24
embryo 18-20hr		16
embryo 20-22hr		10
embryo 22-24hr		11
larva L1		8
larva L2		8
larva L3 12hr old		4
larva L3 puffstage 1-2		4
larva L3 puffstage 3-6		7
larva L3 puffstage 7-9		9
white prepupae new		12
white prepupae 12hr		26
white prepupae 24hr		20
pupae 2d postWPP		15
pupae 3d postWPP		19
pupae 4d postWPP		6
adult male 01day		10
adult male 05day		8
adult male 30day		6
adult female 01day		6
adult female 05day		2
adult female 30day		1
Expression Level Scale		Very low Low Moderate Moderately high High

log, scaled to Moderate expression
Developmental Stage		Expression Level
embryo 00-02hr		1
embryo 02-04hr		21
embryo 04-06hr		(51)
embryo 06-08hr		(39)
embryo 08-10hr		(44)
embryo 10-12hr		(33)
embryo 12-14hr		(43)
embryo 14-16hr		(45)
embryo 16-18hr		24
embryo 18-20hr		16
embryo 20-22hr		10
embryo 22-24hr		11
larva L1		8
larva L2		8
larva L3 12hr old		4
larva L3 puffstage 1-2		4
larva L3 puffstage 3-6		7
larva L3 puffstage 7-9		9
white prepupae new		12
white prepupae 12hr		26
white prepupae 24hr		20
pupae 2d postWPP		15
pupae 3d postWPP		19
pupae 4d postWPP		6
adult male 01day		10
adult male 05day		8
adult male 30day		6
adult female 01day		6
adult female 05day		2
adult female 30day		1
Expression Level Scale		Very low Low Moderate Moderately high

log, scaled to High expression
Developmental Stage		Expression Level
embryo 00-02hr		1
embryo 02-04hr		21
embryo 04-06hr		51
embryo 06-08hr		39
embryo 08-10hr		44
embryo 10-12hr		33
embryo 12-14hr		43
embryo 14-16hr		45
embryo 16-18hr		24
embryo 18-20hr		16
embryo 20-22hr		10
embryo 22-24hr		11
larva L1		8
larva L2		8
larva L3 12hr old		4
larva L3 puffstage 1-2		4
larva L3 puffstage 3-6		7
larva L3 puffstage 7-9		9
white prepupae new		12
white prepupae 12hr		26
white prepupae 24hr		20
pupae 2d postWPP		15
pupae 3d postWPP		19
pupae 4d postWPP		6
adult male 01day		10
adult male 05day		8
adult male 30day		6
adult female 01day		6
adult female 05day		2
adult female 30day		1
Expression Level Scale		Very low Low Moderate Moderately high High Very high

log, scaled to Extremely high expression
Developmental Stage		Expression Level
embryo 00-02hr		1
embryo 02-04hr		21
embryo 04-06hr		51
embryo 06-08hr		39
embryo 08-10hr		44
embryo 10-12hr		33
embryo 12-14hr		43
embryo 14-16hr		45
embryo 16-18hr		24
embryo 18-20hr		16
embryo 20-22hr		10
embryo 22-24hr		11
larva L1		8
larva L2		8
larva L3 12hr old		4
larva L3 puffstage 1-2		4
larva L3 puffstage 3-6		7
larva L3 puffstage 7-9		9
white prepupae new		12
white prepupae 12hr		26
white prepupae 24hr		20
pupae 2d postWPP		15
pupae 3d postWPP		19
pupae 4d postWPP		6
adult male 01day		10
adult male 05day		8
adult male 30day		6
adult female 01day		6
adult female 05day		2
adult female 30day		1
Expression Level Scale		Very low Low Moderate Moderately high High Very high Extremely high

Heatmap
Developmental Stage		Expression Level
embryo 00-02hr
embryo 02-04hr
embryo 04-06hr
embryo 06-08hr
embryo 08-10hr
embryo 10-12hr
embryo 12-14hr
embryo 14-16hr
embryo 16-18hr
embryo 18-20hr
embryo 20-22hr
embryo 22-24hr
larva L1
larva L2
larva L3 12hr old
larva L3 puffstage 1-2
larva L3 puffstage 3-6
larva L3 puffstage 7-9
white prepupae new
white prepupae 12hr
white prepupae 24hr
pupae 2d postWPP
pupae 3d postWPP
pupae 4d postWPP
adult male 01day
adult male 05day
adult male 30day
adult female 01day
adult female 05day
adult female 30day

modENCODE Temporal Expression Data (Graveley et al., 2011)

modENCODE Cell Lines RNA-Seq

modENCODE Cell Line Expression Data

(modENCODE_mRNA-Seq_cell.A)

(modENCODE_mRNA-Seq_cell.B)

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

[download data (TSV)]

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

Linear, scaled to maximum expression level
Cell Line		Expression Level
Schneider line 2 S2R+		0
Schneider line 2 Sg4		0
embryonic 1182-4H		2
embryonic GM2		0
embryonic Kc167		0
embryonic S1		0
embryonic S3		0
leg disc CME L1		0
wing disc CME-W2		2
wing disc ML-DmD8		59
wing disc ML-DmD9		84
wing disc ML-DmD16-c3		42
wing disc ML-DmD21		37
wing disc ML-DmD32		74
haltere disc ML-DmD17-c3		143
eye-antennal disc ML-DmD11		1
antennal disc ML-DmD20-c5		15
mixed discs ML-DmD4-c1		0
CNS ML-DmBG1-c1		0
CNS ML-DmBG2-c2		0
tumorous blood cells mbn2		0
ovary fGS/OSS		0
ovary OSC		0
ovary OSS		0
Expression Level Scale		Very low Low Moderate Moderately high High Very high

Linear, scaled to Moderate expression
Cell Line		Expression Level
Schneider line 2 S2R+		0
Schneider line 2 Sg4		0
embryonic 1182-4H		2
embryonic GM2		0
embryonic Kc167		0
embryonic S1		0
embryonic S3		0
leg disc CME L1		0
wing disc CME-W2		2
wing disc ML-DmD8		(59)
wing disc ML-DmD9		(84)
wing disc ML-DmD16-c3		(42)
wing disc ML-DmD21		(37)
wing disc ML-DmD32		(74)
haltere disc ML-DmD17-c3		(143)
eye-antennal disc ML-DmD11		1
antennal disc ML-DmD20-c5		15
mixed discs ML-DmD4-c1		0
CNS ML-DmBG1-c1		0
CNS ML-DmBG2-c2		0
tumorous blood cells mbn2		0
ovary fGS/OSS		0
ovary OSC		0
ovary OSS		0
Expression Level Scale		Very low Low Moderate Moderately high

Linear, scaled to High expression
Cell Line		Expression Level
Schneider line 2 S2R+		0
Schneider line 2 Sg4		0
embryonic 1182-4H		2
embryonic GM2		0
embryonic Kc167		0
embryonic S1		0
embryonic S3		0
leg disc CME L1		0
wing disc CME-W2		2
wing disc ML-DmD8		59
wing disc ML-DmD9		84
wing disc ML-DmD16-c3		42
wing disc ML-DmD21		37
wing disc ML-DmD32		74
haltere disc ML-DmD17-c3		(143)
eye-antennal disc ML-DmD11		1
antennal disc ML-DmD20-c5		15
mixed discs ML-DmD4-c1		0
CNS ML-DmBG1-c1		0
CNS ML-DmBG2-c2		0
tumorous blood cells mbn2		0
ovary fGS/OSS		0
ovary OSC		0
ovary OSS		0
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+		0
Schneider line 2 Sg4		0
embryonic 1182-4H		2
embryonic GM2		0
embryonic Kc167		0
embryonic S1		0
embryonic S3		0
leg disc CME L1		0
wing disc CME-W2		2
wing disc ML-DmD8		59
wing disc ML-DmD9		84
wing disc ML-DmD16-c3		42
wing disc ML-DmD21		37
wing disc ML-DmD32		74
haltere disc ML-DmD17-c3		143
eye-antennal disc ML-DmD11		1
antennal disc ML-DmD20-c5		15
mixed discs ML-DmD4-c1		0
CNS ML-DmBG1-c1		0
CNS ML-DmBG2-c2		0
tumorous blood cells mbn2		0
ovary fGS/OSS		0
ovary OSC		0
ovary OSS		0
Expression Level Scale		Extremely high

log, scaled to maximum expression level
Cell Line		Expression Level
Schneider line 2 S2R+		0
Schneider line 2 Sg4		0
embryonic 1182-4H		2
embryonic GM2		0
embryonic Kc167		0
embryonic S1		0
embryonic S3		0
leg disc CME L1		0
wing disc CME-W2		2
wing disc ML-DmD8		59
wing disc ML-DmD9		84
wing disc ML-DmD16-c3		42
wing disc ML-DmD21		37
wing disc ML-DmD32		74
haltere disc ML-DmD17-c3		143
eye-antennal disc ML-DmD11		1
antennal disc ML-DmD20-c5		15
mixed discs ML-DmD4-c1		0
CNS ML-DmBG1-c1		0
CNS ML-DmBG2-c2		0
tumorous blood cells mbn2		0
ovary fGS/OSS		0
ovary OSC		0
ovary OSS		0
Expression Level Scale		Very low Low Moderate Moderately high High Very high

log, scaled to Moderate expression
Cell Line		Expression Level
Schneider line 2 S2R+		0
Schneider line 2 Sg4		0
embryonic 1182-4H		2
embryonic GM2		0
embryonic Kc167		0
embryonic S1		0
embryonic S3		0
leg disc CME L1		0
wing disc CME-W2		2
wing disc ML-DmD8		(59)
wing disc ML-DmD9		(84)
wing disc ML-DmD16-c3		(42)
wing disc ML-DmD21		(37)
wing disc ML-DmD32		(74)
haltere disc ML-DmD17-c3		(143)
eye-antennal disc ML-DmD11		1
antennal disc ML-DmD20-c5		15
mixed discs ML-DmD4-c1		0
CNS ML-DmBG1-c1		0
CNS ML-DmBG2-c2		0
tumorous blood cells mbn2		0
ovary fGS/OSS		0
ovary OSC		0
ovary OSS		0
Expression Level Scale		Very low Low Moderate Moderately high

log, scaled to High expression
Cell Line		Expression Level
Schneider line 2 S2R+		0
Schneider line 2 Sg4		0
embryonic 1182-4H		2
embryonic GM2		0
embryonic Kc167		0
embryonic S1		0
embryonic S3		0
leg disc CME L1		0
wing disc CME-W2		2
wing disc ML-DmD8		59
wing disc ML-DmD9		84
wing disc ML-DmD16-c3		42
wing disc ML-DmD21		37
wing disc ML-DmD32		74
haltere disc ML-DmD17-c3		143
eye-antennal disc ML-DmD11		1
antennal disc ML-DmD20-c5		15
mixed discs ML-DmD4-c1		0
CNS ML-DmBG1-c1		0
CNS ML-DmBG2-c2		0
tumorous blood cells mbn2		0
ovary fGS/OSS		0
ovary OSC		0
ovary OSS		0
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+		0
Schneider line 2 Sg4		0
embryonic 1182-4H		2
embryonic GM2		0
embryonic Kc167		0
embryonic S1		0
embryonic S3		0
leg disc CME L1		0
wing disc CME-W2		2
wing disc ML-DmD8		59
wing disc ML-DmD9		84
wing disc ML-DmD16-c3		42
wing disc ML-DmD21		37
wing disc ML-DmD32		74
haltere disc ML-DmD17-c3		143
eye-antennal disc ML-DmD11		1
antennal disc ML-DmD20-c5		15
mixed discs ML-DmD4-c1		0
CNS ML-DmBG1-c1		0
CNS ML-DmBG2-c2		0
tumorous blood cells mbn2		0
ovary fGS/OSS		0
ovary OSC		0
ovary OSS		0
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		5
cold shock, 4-day adult		4
heat shock, 4-day adult		3
Cadmium 50 mM 6 hrs, larvae L3		3
Cadmium 50 mM 12 hrs, larvae L3		4
Cadmium 50 mM 48 hrs, 4-day adult		5
Cadmium 100 mM 48 hrs, 4-day adult		5
Copper 0.5 mM 12 hrs, larvae L3		2
Copper 15 mM 48 hrs, 4-day adult		6
Zinc 5 mM 12 hrs, larvae L3		2
Zinc 4.5 mM 48 hrs, 4-day adult		8
Ethanol 2.5% 3 hrs, larvae L3		5
Ethanol 5% 3 hrs, larvae L3		3
Ethanol 10% 3 hrs, larvae L3		2
Caffeine 1.5 mg/ml 4 hrs, larvae L3		4
Caffeine 2.5 mg/ml 48 hrs, 4-day adult		6
Caffeine 25 mg/ml 48 hrs, 4-day adult		4
Paraquat 5 mM 48 hrs, 4-day adult		7
Paraquat 10 mM 48 hrs, 4-day adult		10
Rotenone 2 μg 12 hrs, larvae L3		2
Rotenone 8 μg 12 hrs, larvae L3		2
Expression Level Scale		Very low Low Moderate

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

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

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

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

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

External Data & Images

Show all FlyExpress processed images for stumps

BDGP expression data

•

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

•

FBgn0020299

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

•

CG31317-RA

FlyExpress - Embryonic expression images (BDGP data)

•

Alleles & Phenotypes

Summary of Allele Phenotypes

Lethality

Allele

lethal

stumps^CB05360

lethal | embryonic stage | recessive

stumps^09904b

lethal | recessive

viable, with Scer\GAL4^pnr-MD237

stumps^GD10225

Sterility

Allele

female sterile

stumps^09904b

Other Phenotypes

Allele

cell migration defective | somatic clone | third instar larval stage, with Scer\GAL4^repo

stumps^GD10225

Phenotype manifest in

Allele

cardioblast

stumps^YY202

dorsal air sac primordium

stumps^09904b

dorsal vessel primordium

stumps^09904b

egg

stumps^09904b

embryonic/larval dorsal branch

stumps^ems7

embryonic/larval dorsal vessel

stumps^09904b

embryonic/larval pericardial cell

stumps^YY202

embryonic/larval somatic muscle | dorsal

stumps^YY202

embryonic/larval tracheal system

embryonic pericardial cell

stumps^09904b

glial cell, with Scer\GAL4^repo

stumps^GD10225

longitudinal connective

stumps^09904b

mesoderm

mesoderm | dorsal

stumps^09904b

midgut constriction 2

stumps^09904b

presumptive embryonic/larval central nervous system

stumps^09904b

presumptive embryonic salivary gland

stumps^ems6

somatic mesoderm

subretinal glial cell | somatic clone | third instar larval stage, with Scer\GAL4^repo

stumps^GD10225

terminal tracheal cell | somatic clone

stumps^unspecified

trachea

stumps^09904b

tracheal system

visceral mesoderm

Classical Alleles ( 24 )

For All Classical Alleles Show

Allele of stumps	Class	Mutagen	Stocks	Known lesion
stumps^09904b	amorphic allele - genetic evidence		1	--
stumps^c02864			1	--
stumps^EY07738			1	--
stumps^f00077			1	--
stumps^f03443		piggyBac transposase	1	--
stumps^f04909			1	--
stumps^MB02154			1	--
stumps^MI00143			1	--
stumps^MI00202			1	--
stumps^MI01221			1	--
stumps¹⁴⁶⁸		ethyl methanesulfonate	0	--
stumps¹⁶⁵³		ethyl methanesulfonate	0	--
stumps¹⁸⁸⁷		ethyl methanesulfonate	0	--
stumps²⁴⁰⁷		ethyl methanesulfonate	0	--
stumps²⁷⁵⁶		ethyl methanesulfonate	0	--
stumps⁶⁵		ethyl methanesulfonate	0	--
stumps⁸⁷⁸		ethyl methanesulfonate	0	--
stumps^CB05360		P-element activity	0	--
stumps^ems6		ethyl methanesulfonate	0	--
stumps^ems7		ethyl methanesulfonate	0	--
stumps^EY06732			0	--
stumps^S083710a		Delta2-3 P-element activity	0	Yes
stumps^unspecified			0	--
stumps^YY202	hypomorphic allele - genetic evidence	ethyl methanesulfonate	0	--

Alleles Carried on Transgenic Constructs ( 6 )

For All Alleles Carried on Transgenic Constructs Show

Allele of stumps	Mutagen	Stocks	Known lesion
stumps^GD10225	in vitro construct - RNAi in vitro construct - regulatory fusion	1	Yes
stumps^KK100350	in vitro construct - RNAi in vitro construct - regulatory fusion	1	Yes
stumps^{MtnA.T:Ivir\HA1}	in vitro construct - regulatory fusion in vitro construct - coding region fusion	0	Yes
stumps^{MtnA.T:Zzzz\FLAG}	in vitro construct - regulatory fusion in vitro construct - coding region fusion	0	Yes
stumps^Scer\UAS.cVa	in vitro construct - regulatory fusion	0	Yes
stumps^{Scer\UAS.T:Zzzz\FLAG}	in vitro construct - regulatory fusion in vitro construct - coding region fusion	0	Yes

Aneuploid Aberrations

Disrupted in

Df(3R)BSC841

(Cook et al., 2009.11.25)

Df(3R)ry506-85C

(Michelson et al., 1998, Imam et al., 1999, Szeged Stock Center, 1998-)

Df(3R)γ2

(Spradling et al., 1999, BDGP Project Members, 1994-1999)

Not disrupted in

Df(3R)2-2

Df(3R)red1

Df(3R)red3l

Df(3R)ry85

P{stumps-lacZ.HbrDME.ETS}

Transgenic Constructs & Insertions

Transgenic Constructs

Type of construct

Name

Expression data

reporter construct

P{stumps-lacZ.enh}

P{stumps-lacZ.HbrDME.twi}

P{stumps-lacZ.HbrDME}

P{stumps-lacZ.H-Pelican}

UAS construct

Insertions

Type of insertions

Name

Expression data

insertion of mobile activating element

P{EPgy2}stumps^EY06732

P{EPgy2}stumps^EY07738

miscellaneous insertions

Mi{MIC}stumps^MI00143

Mi{MIC}stumps^MI00202

Mi{MIC}stumps^MI01221

P{PTT-GB}stumps^CB05360

PBac{PB}stumps^c02864

PBac{WH}stumps^f00077

PBac{WH}stumps^f03443

PBac{WH}stumps^f04909

insertion of enhancer trap

P{lacW}stumps^S083710a

insertion of enhancer trap binary system

Mi{ET1}stumps^MB02154

Gene Ontology: Function, Process & Cellular Component ( 14 unique terms )

Terms Based on Experimental Evidence ( 4 terms )

Molecular Function ( 0 terms)

Biological Process

CV term

open tracheal system development

References

mesoderm development

inferred from expression pattern

(Furlong et al., 2001)

oogenesis

inferred from mutant phenotype

(Perrimon et al., 1996)

inferred from mutant phenotype

(Myat et al., 2005)

tracheal outgrowth, open tracheal system

inferred from mutant phenotype

(Cabernard and Affolter, 2005)

Cellular Component ( 0 terms)

Terms Based on Predictions or Assertions ( 11 terms )

Molecular Function ( 0 terms)

Biological Process

CV term

epithelial cell migration, open tracheal system

References

traceable author statement

(Affolter and Shilo, 2000, Rosin and Shilo, 2002, Zelzer and Shilo, 2000)

fibroblast growth factor receptor signaling pathway

non-traceable author statement

(Rosin and Shilo, 2002)

traceable author statement

(Leptin, 1999, Wilson and Leptin, 2000, Affolter and Shilo, 2000, Uv et al., 2003)

gastrulation

non-traceable author statement

(Leptin, 1999)

heart development

non-traceable author statement

(Cripps and Olson, 2002)

mesodermal cell migration

traceable author statement

(Furlong et al., 2001)

mesoderm migration involved in gastrulation

non-traceable author statement

(Leptin, 1999)

morphogenesis of a branching structure

non-traceable author statement

(Affolter and Shilo, 2000)

open tracheal system development

non-traceable author statement

(Affolter and Shilo, 2000)

primary branching, open tracheal system

traceable author statement

(Uv et al., 2003, Ghabrial et al., 2003)

Cellular Component

CV term

(Wilson and Leptin, 2000, Dossenbach et al., 2003)

References

cytoplasm

non-traceable author statement

traceable author statement

(Affolter and Shilo, 2000)

intracellular

traceable author statement

(Leptin, 1999)

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

stumps allele

Gene

References

(Dossenbach et al., 2001)

Ras85D

(Vincent et al., 1998, Imam et al., 1999)

tor

btl

htl

Ras85D

External Data

y¹ w^*; Mi{MIC}stumps^MI00143

BioGRID - A database of protein and genetic interactions

•

66844

DroID - A comprehensive database of gene and protein interactions.

•

FBgn0020299

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

•

41770

Orthologs

OrthoDB Orthologs (43) - 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

EOG65HSGQ

Dipteran inclusive ortholog search

EOG6SQX4P

Insect inclusive ortholog search

EOG6RBPDG

Arthropod inclusive ortholog search

EOG6MKKX4

Metazoa inclusive ortholog search

EOG6BW4MD

Orthologs in Drosophila Species (EOG65HSGQ)

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\GA16174

Drosophila persimilis

Dper\GL23374

Drosophila willistoni

Dwil\GK11745

Drosophila virilis

Dvir\stump

Drosophila mojavensis

Dmoj\GI22104

Drosophila grimshawi

Dgri\GH14194

Orthologs in non-Drosophila Dipterans (EOG6SQX4P)

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Anopheles gambiae

Malaria mosquito

Agam\AGAP001590

Culex quinquefasciatus

Southern house mosquito

Cqui\CPIJ015463

Orthologs in non-Dipteran Insects (EOG6RBPDG)

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Apis mellifera

Western honey bee

Amel\GB41282

Nasonia vitripennis

Parasitic wasp

Nvit\Nasvi2EG010085

Acromyrmex echinatior

Panamanian leafcutter ant

Aech\AECH27223

Atta cephalotes

Leafcutter ant

Acep\ACEP10398

Camponotus floridanus

Florida carpenter ant

Cflo\CFLO11798

Harpegnathos saltator

Jerdons jumping ant

Hsal\HSAL19827

Linepithema humile

Argentine ant

Lhum\LH21686

Pogonomyrmex barbatus

Red harvester ant

Pbar\PB20564

Pogonomyrmex barbatus

Red harvester ant

Pbar\PB20566

Solenopsis invicta

Red fire ant

Sinv\SINV19699

Acyrthosiphon pisum

Pea aphid

Apim\ACYPI003010

Bombyx mori

Silkmoth

Bmor\BGIBMGA010568

Pediculus humanus

Human body louse

Phum\PHUM577900

Tribolium castaneum

Red flour beetle

Tcas\stumps

Orthologs in non-Insect Arthropods (EOG6MKKX4)

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Daphnia pulex

Water flea

Dpux\Tsfm

Ixodes scapularis

Deer tick

Isca\ISCW006815

Orthologs in non-Arthropod Metazoa (EOG6BW4MD)

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Strongylocentrotus purpuratus

Purple sea urchin

Spur\SPU_002388gn

Danio rerio

Zebrafish

Drer\si:dkey-226b20.7

Xenopus tropicalis

Western clawed frog

Xtro\bank1

Xenopus tropicalis

Western clawed frog

Xtro\pik3ap1

Gallus gallus

Domestic chicken

Ggal\ENSGALG00000005547

Gallus gallus

Domestic chicken

Ggal\LOC777128

Mus musculus

House mouse

Mmus\Pik3ap1

Mus musculus

House mouse

Mmus\Bank1

Rattus norvegicus

Norway rat

Rnor\Bank1

Rattus norvegicus

Norway rat

Rnor\Bank1

Rattus norvegicus

Norway rat

Rnor\LOC100361758

Homo sapiens

Human

Hsap\ENSG00000153064

Homo sapiens

Human

Hsap\PIK3AP1

Human Orthologs (2)

Gene

OMIM

HGNC

Hsap\ENSG00000153064

Hsap\PIK3AP1

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\GA16174

Drosophila persimilis

Dper\GL23374

Drosophila willistoni

Dwil\GK11745

Drosophila virilis

Dvir\stump

Drosophila mojavensis

Dmoj\GI22104

Drosophila grimshawi

Dgri\GH14194

Stocks & Reagents

Stocks Listed in FlyBase ( 12 )

Bloomington

23420

w¹¹¹⁸; Mi{ET1}stumps^MB02154

30634

17398

y¹ w^67c23; P{EPgy2}stumps^EY07738

30947

y¹ w^*; Mi{MIC}stumps^MI00202/TM6B, Tb¹

32744

y¹ w^*; Mi{MIC}stumps^MI01221/TM3, Sb¹ Ser¹

11740

P{PZ}09904a, stumps^09904b l(3)09904c^09904c, ry⁵⁰⁶/TM3, ry^RK Sb¹ Ser¹

Harvard

PBac{PB}stumps^c02864

PBac{WH}stumps^f00077

PBac{WH}stumps^f03443

PBac{WH}stumps^f04909

VDRC

v105603

P{KK100350}VIE-260B

v21317

w¹¹¹⁸; P{GD10225}v21317

Genomic Clones ( 1 )

BACR45M03

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

cDNA Clones ( 42 )

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

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi & Array Information

DRSC - Results from RNAi screens.

•

FBgn0020299

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

•

41770

Antibody Information

Other Information

Discoverer

Etymology

The gene was named "stumps" because no tracheal branches form in the mutant, except for an occasional short stump.

(FlyBase Genome Annotators, 2002-2003)

Identification

Relationship to Other Genes

Source for database identity of

Source for database merge of

Source for merge of: hbr dof

(Michelson, 1998.12.16)

Source for merge of: stumps CG18485

(Halfon, 2000.12.28)

Source for merge of: stumps hbr

(Krasnow, 1999.3.3)

Additional comments

Annotations CG18485, CG3375 merged as CG31317 in release 3 of the genome annotation.

Other Comments

ChEST reveals this is a target of Mef2.

(Junion et al., 2005)

stumps function promotes FGF-directed cell migrations, either by potentiating the FGF signalling process or by coupling the signal to the cellular machinery required for directed cell movement.

stumps participates in the signalling pathways of both FGF receptors (htl and btl), acting downstream of the FGF receptors but either upstream or in parallel to Ras85D.

Mutations in stumps are associated with defects in the migration and later specification of mesodermal and tracheal cells.

stumps is a component of the FGF receptor signaling pathway. It acts downstream of FGF receptors (htl and btl) and upstream of Ras to activate the MAPK kinase cascade in response to FGF signaling, but is not required for activation of the MAPK cascade via other receptor tyrosine kinases.

Mutants exhibit mesodermal spreading (mesodermal cells migrate in an undirected fashion and fail to reach their normal dorsal positions) and cell fate specification loss of function phenotypes.

(Michelson et al., 1997)

Isolated from a subtractive cDNA library enriched in sequences expressed in the mesoderm.

A stumps cDNA has been cloned and sequenced. stumps is expressed in the early mesoderm.

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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41770

UniProtKB/TrEMBL

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Other Crossreferences

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

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DBB domain (IPR017893)

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

•

Linkouts

BioGRID - A database of protein and genetic interactions

•

66844

DroID - A comprehensive database of gene and protein interactions.

•

FBgn0020299

DRSC - Results from RNAi screens.

•

FBgn0020299

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

•

FBgn0020299

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

•

CG31317-RA

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

•

FBgn0020299

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

•

41770

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

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/dbzhnsky/heartbk1.htm

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

•

41770

modMine - Data generated by the modENCODE project.

•

FBgn0020299

REDfly - A database of transcriptional regulatory elements.

•

FBgn0020299

Synonyms & Secondary IDs ( 38 )

Reported As

Symbol Synonym

0837/10

(Deak et al., 1997)

anon-EST:CL47

anon-estC

(Gonzalez-Aguero et al., 2005, Halfon, 2000.12.28, Haussmann et al., 2008)

CG3375

(Battersby et al., 2003, )

CG18485

CG31317

(Keleman et al., 2009.8.5)

DOF

(Takizawa et al., 2003)

dof1

(Gervais and Casanova, 2011)

dof/hbr

(Furlong et al., 2001)

dof/hbr/sms

(Stathopoulos et al., 2004)

Dof/stumps/heartbroken

(Borland et al., 2001)

gene C

(Levine and Davidson, 2005, Dutta et al., 2005, Zeitlinger et al., 2007)

Hbr

hbr

(Myat et al., 2005, Zhu et al., 2005, Bradley et al., 2003, Markstein and Levine, 2002, Halfon et al., 2002, Halfon et al., 2001, Halfon et al., 2002, Baylies and Michelson, 2001, Ghazi and VijayRaghavan, 2000, Halfon et al., 2000, Michelson, 1998.12.16, Michelson et al., 1998, Michelson et al., 1997, Zeitlinger et al., 2007, Stathopoulos and Levine, 2005, Philippakis et al., 2006, Boettiger and Levine, 2009)

Hbr/Dof

(Carmena et al., 2002)

heartbroken/dof

(Montell, 1999)

i21

(Battersby et al., 2003)

i28

(Battersby et al., 2003)

l(3)09904

(Spradling et al., 1999, Perrimon et al., 1996)

l(3)S083710

P1740

sms

(Ghabrial and Krasnow, 2006, Sandmann et al., 2007, Blanco et al., 2010, Buszczak et al., 2007, Gervais and Casanova, 2011, Frise et al., 2010, Mudiganti et al., 2010, Sandmann et al., 2006, Choksi et al., 2006, Zeitlinger et al., 2007, Cook et al., 2009.11.25, Moreira et al., 2010, Chatterjee et al., 2011, Busser et al., 2012)

stumps

stumps/dof

(Forbes and Lehmann, 1999)

Name Synonym

Downstream of FGF

Downstream of FGFR

(Affolter, 2000)

downstream of FGFR