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FlyAtlas: the Drosophila gene expression atlas

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Latest news: FlyAtlas2 : A Database web-app for fruitfly expression with added RNA & miRNA goodness ! Click here to visit the application. Read all about it here.


This dataset was generated by Venkat Chintapalli, Jing Wang & Julian Dow at the University of Glasgow with funding from the UK's BBSRC.
It gives you a quick answer to the question: where is my gene of interest expressed/enriched in the adult fly?
For each gene & tissue, you're given the mRNA SIGNAL (how abundant the mRNA is), the mRNA ENRICHMENT (compared to whole flies), and the Affymetrix PRESENT CALL (out of 4 arrays, how many times it was detectably expressed).

String to look for? (e.g. vha, cell adhesion, receptor, aquaporin, adenylate, CG1147, pnt)


Searching for FBGN0003089 through 18771 annotations produced 10 hits



March 2006 (FlyBase/BDGP 5.3) (chr3L:19304071-19330699 (-) // 100.0 //):

Annotation Number : CG9614
FlyAtlas2 : Click Here for expression data based on RNA-Seq and or miRNA-Seq analyses
Flybase ID : chr3-47
Gbrowse :
Probeset : 1624325_at
Accessions : protein= EC:2.8.2.- /// EC:2.8.2.17 /// EC:2.8.2.5, nucleotide=
Interpro : "0007275 // multicellular organismal development // inferred from electronic annotation /// 0007313 // maternal specific
FlyMine data for chr3-47.
BioGrid reports that CG9614 interacts with CG1505 .


TissuemRNA SignalPresent CallEnrichmentAffy Call
Brain1 ± 00 of 4 0.20None
Head5 ± 20 of 4 1.10None
Eye8 ± 10 of 4 1.63None
Thoracicoabdominal ganglion4 ± 20 of 4 0.80None
Salivary gland6 ± 30 of 4 1.19None
Crop7 ± 20 of 4 1.40None
Midgut5 ± 10 of 4 1.10None
Tubule2 ± 00 of 4 0.50Down
Hindgut5 ± 10 of 4 1.10None
Heart2 ± 00 of 4 0.40None
Fat body6 ± 40 of 4 1.28None
Ovary2 ± 00 of 4 0.60None
Testis13 ± 23 of 4 2.60Up
Male accessory glands6 ± 20 of 4 1.20None
Virgin spermatheca4 ± 10 of 4 0.90None
Mated spermatheca3 ± 10 of 4 0.68None
Adult carcass8 ± 20 of 4 1.70None
Larval CNS4 ± 20 of 4 0.80None
Larval Salivary gland1216 ± 1454 of 4233.88Up
Larval midgut4 ± 10 of 4 0.88None
Larval tubule3 ± 00 of 4 0.60None
Larval hindgut32 ± 14 of 4 6.29Up
Larval fat body6 ± 10 of 4 1.20None
Larval trachea26 ± 222 of 4 5.07None
Larval carcass2 ± 10 of 4 0.49None
S2 cells (growing)4 ± 20 of 4 0.89None
Whole fly5 ± 10 of 4



March 2006 (FlyBase/BDGP 5.3) (chr3L:19298427-19330699 (-) // 100.0 //):

Annotation Number : CG9614
FlyAtlas2 : Click Here for expression data based on RNA-Seq and or miRNA-Seq analyses
Flybase ID : chr3-47
Gbrowse :
Probeset : 1638333_at
Accessions : protein= EC:2.8.2.- /// EC:2.8.2.17 /// EC:2.8.2.5, nucleotide=
Interpro : "0007275 // multicellular organismal development // inferred from electronic annotation /// 0007313 // maternal specific
FlyMine data for chr3-47.
BioGrid reports that CG9614 interacts with CG1505 .


TissuemRNA SignalPresent CallEnrichmentAffy Call
Brain2 ± 00 of 4 1.10None
Head1 ± 00 of 4 0.90None
Eye0 ± 00 of 4 0.37None
Thoracicoabdominal ganglion1 ± 00 of 4 0.90None
Salivary gland2 ± 00 of 4 1.29None
Crop5 ± 00 of 4 2.80None
Midgut0 ± 00 of 4 0.50None
Tubule2 ± 00 of 4 1.10None
Hindgut4 ± 20 of 4 2.50None
Heart1 ± 00 of 4 0.75None
Fat body3 ± 20 of 4 1.71None
Ovary1 ± 00 of 4 0.60None
Testis1 ± 00 of 4 0.50None
Male accessory glands1 ± 00 of 4 0.60None
Virgin spermatheca1 ± 00 of 4 0.70None
Mated spermatheca2 ± 00 of 4 1.36None
Adult carcass2 ± 00 of 4 1.40None
Larval CNS0 ± 00 of 4 0.38None
Larval Salivary gland150 ± 154 of 482.38Up
Larval midgut1 ± 00 of 4 0.90None
Larval tubule0 ± 00 of 4 0.40None
Larval hindgut18 ± 04 of 410.19Up
Larval fat body1 ± 00 of 4 0.90None
Larval trachea16 ± 54 of 4 8.88Up
Larval carcass4 ± 10 of 4 2.73None
S2 cells (growing)2 ± 00 of 4 1.19None
Whole fly1 ± 10 of 4



March 2006 (FlyBase/BDGP 5.3) (chr3L:19299749-19330699 (-) // 100.0 //):

Annotation Number : CG9614
FlyAtlas2 : Click Here for expression data based on RNA-Seq and or miRNA-Seq analyses
Flybase ID : chr3-47
Gbrowse :
Probeset : 1637043_at
Accessions : protein= EC:2.8.2.- /// EC:2.8.2.17 /// EC:2.8.2.5, nucleotide=
Interpro : "0007275 // multicellular organismal development // inferred from electronic annotation /// 0007313 // maternal specific
FlyMine data for chr3-47.
BioGrid reports that CG9614 interacts with CG1505 .


TissuemRNA SignalPresent CallEnrichmentAffy Call
Brain0 ± 00 of 4 0.10None
Head0 ± 00 of 4 0.20None
Eye0 ± 00 of 4 0.13None
Thoracicoabdominal ganglion0 ± 00 of 4 0.10None
Salivary gland5 ± 20 of 4 1.19None
Crop1 ± 10 of 4 0.40None
Midgut1 ± 00 of 4 0.20None
Tubule1 ± 00 of 4 0.40Down
Hindgut0 ± 00 of 4 0.20None
Heart1 ± 00 of 4 0.33None
Fat body0 ± 00 of 4 0.16None
Ovary0 ± 00 of 4 0.10None
Testis1 ± 00 of 4 0.30None
Male accessory glands0 ± 00 of 4 0.10None
Virgin spermatheca0 ± 00 of 4 0.08None
Mated spermatheca0 ± 00 of 4 0.20None
Adult carcass1 ± 00 of 4 0.30None
Larval CNS0 ± 00 of 4 0.12None
Larval Salivary gland34 ± 63 of 4 8.05Up
Larval midgut0 ± 00 of 4 0.12None
Larval tubule1 ± 00 of 4 0.40None
Larval hindgut7 ± 20 of 4 1.66None
Larval fat body3 ± 00 of 4 0.80None
Larval trachea17 ± 73 of 4 4.23Up
Larval carcass0 ± 00 of 4 0.22None
S2 cells (growing)0 ± 00 of 4 0.07Down
Whole fly4 ± 10 of 4



March 2006 (FlyBase/BDGP 5.3) (chr3L:19302554-19330699 (-) // 100.0 //):

Annotation Number : CG9614
FlyAtlas2 : Click Here for expression data based on RNA-Seq and or miRNA-Seq analyses
Flybase ID : chr3-47
Gbrowse :
Probeset : 1632940_a_at
Accessions : protein= EC:2.8.2.- /// EC:2.8.2.17 /// EC:2.8.2.5, nucleotide=
Interpro : "0007275 // multicellular organismal development // inferred from electronic annotation /// 0007313 // maternal specific
FlyMine data for chr3-47.
BioGrid reports that CG9614 interacts with CG1505 .


TissuemRNA SignalPresent CallEnrichmentAffy Call
Brain4 ± 10 of 4 0.50None
Head5 ± 00 of 4 0.70None
Eye7 ± 11 of 4 0.96None
Thoracicoabdominal ganglion5 ± 10 of 4 0.70None
Salivary gland17 ± 10 of 4 2.27Up
Crop2 ± 00 of 4 0.30Down
Midgut8 ± 11 of 4 1.10None
Tubule6 ± 00 of 4 0.90None
Hindgut4 ± 10 of 4 0.60None
Heart3 ± 00 of 4 0.50Down
Fat body6 ± 40 of 4 0.79None
Ovary5 ± 00 of 4 0.70None
Testis6 ± 10 of 4 0.90None
Male accessory glands10 ± 21 of 4 1.30None
Virgin spermatheca9 ± 10 of 4 1.29None
Mated spermatheca9 ± 00 of 4 1.18None
Adult carcass13 ± 40 of 4 1.80None
Larval CNS5 ± 13 of 4 0.77None
Larval Salivary gland26 ± 14 of 4 3.47Up
Larval midgut8 ± 12 of 4 1.10None
Larval tubule5 ± 10 of 4 0.70None
Larval hindgut11 ± 03 of 4 1.45None
Larval fat body10 ± 10 of 4 1.40None
Larval trachea23 ± 64 of 4 3.12Up
Larval carcass9 ± 12 of 4 1.19None
S2 cells (growing)4 ± 00 of 4 0.57None
Whole fly7 ± 12 of 4



March 2006 (FlyBase/BDGP 5.3) (chr3L:19296982-19330699 (-) // 100.0 //):

Annotation Number : CG9614
FlyAtlas2 : Click Here for expression data based on RNA-Seq and or miRNA-Seq analyses
Flybase ID : chr3-47
Gbrowse :
Probeset : 1626952_at
Accessions : protein= EC:2.8.2.- /// EC:2.8.2.17 /// EC:2.8.2.5, nucleotide=
Interpro : "0007275 // multicellular organismal development // inferred from electronic annotation /// 0007313 // maternal specific
FlyMine data for chr3-47.
BioGrid reports that CG9614 interacts with CG1505 .


TissuemRNA SignalPresent CallEnrichmentAffy Call
Brain2 ± 01 of 4 1.10None
Head1 ± 00 of 4 0.70None
Eye1 ± 00 of 4 0.69None
Thoracicoabdominal ganglion2 ± 10 of 4 1.30None
Salivary gland3 ± 00 of 4 1.76None
Crop2 ± 10 of 4 1.00None
Midgut1 ± 00 of 4 0.60None
Tubule2 ± 00 of 4 1.00None
Hindgut3 ± 10 of 4 1.80None
Heart2 ± 00 of 4 1.37None
Fat body7 ± 11 of 4 3.24Up
Ovary1 ± 00 of 4 0.60None
Testis0 ± 00 of 4 0.30None
Male accessory glands3 ± 10 of 4 1.60None
Virgin spermatheca3 ± 10 of 4 1.76None
Mated spermatheca3 ± 10 of 4 1.54None
Adult carcass1 ± 00 of 4 0.90None
Larval CNS1 ± 00 of 4 0.56None
Larval Salivary gland15 ± 13 of 4 7.08Up
Larval midgut0 ± 00 of 4 0.37None
Larval tubule2 ± 10 of 4 1.10None
Larval hindgut14 ± 24 of 4 6.61Up
Larval fat body2 ± 10 of 4 1.00None
Larval trachea31 ± 74 of 414.56Up
Larval carcass5 ± 11 of 4 2.74None
S2 cells (growing)2 ± 10 of 4 1.17None
Whole fly2 ± 00 of 4



March 2006 (FlyBase/BDGP 5.3) (chr3L:19301093-19330699 (-) // 100.0 //):

Annotation Number : CG9614
FlyAtlas2 : Click Here for expression data based on RNA-Seq and or miRNA-Seq analyses
Flybase ID : chr3-47
Gbrowse :
Probeset : 1629506_at
Accessions : protein= EC:2.8.2.- /// EC:2.8.2.17 /// EC:2.8.2.5, nucleotide=
Interpro : "0007275 // multicellular organismal development // inferred from electronic annotation /// 0007313 // maternal specific
FlyMine data for chr3-47.
BioGrid reports that CG9614 interacts with CG1505 .


TissuemRNA SignalPresent CallEnrichmentAffy Call
Brain2 ± 10 of 4 0.60None
Head1 ± 00 of 4 0.40None
Eye4 ± 10 of 4 1.09None
Thoracicoabdominal ganglion3 ± 10 of 4 0.80None
Salivary gland16 ± 31 of 4 4.19Up
Crop2 ± 00 of 4 0.60None
Midgut4 ± 20 of 4 1.20None
Tubule2 ± 00 of 4 0.50Down
Hindgut1 ± 00 of 4 0.30None
Heart2 ± 00 of 4 0.54None
Fat body4 ± 20 of 4 1.16None
Ovary0 ± 00 of 4 0.20Down
Testis2 ± 00 of 4 0.70None
Male accessory glands5 ± 11 of 4 1.50None
Virgin spermatheca4 ± 10 of 4 1.11None
Mated spermatheca6 ± 00 of 4 1.66None
Adult carcass7 ± 30 of 4 1.80None
Larval CNS2 ± 10 of 4 0.68None
Larval Salivary gland513 ± 394 of 4128.24Up
Larval midgut4 ± 10 of 4 1.04None
Larval tubule2 ± 00 of 4 0.60None
Larval hindgut12 ± 13 of 4 3.01Up
Larval fat body7 ± 10 of 4 1.80None
Larval trachea3 ± 11 of 4 0.94None
Larval carcass1 ± 00 of 4 0.38None
S2 cells (growing)2 ± 00 of 4 0.60None
Whole fly4 ± 10 of 4



March 2006 (FlyBase/BDGP 5.3) (chr3L:19293605-19330699 (-) // 100.0 //):

Annotation Number : CG9614
FlyAtlas2 : Click Here for expression data based on RNA-Seq and or miRNA-Seq analyses
Flybase ID : chr3-47
Gbrowse :
Probeset : 1634586_at
Accessions : protein= EC:2.8.2.- /// EC:2.8.2.17 /// EC:2.8.2.5, nucleotide=
Interpro : "0007275 // multicellular organismal development // inferred from electronic annotation /// 0007313 // maternal specific
FlyMine data for chr3-47.
BioGrid reports that CG9614 interacts with CG1505 .


TissuemRNA SignalPresent CallEnrichmentAffy Call
Brain1 ± 00 of 4 0.30None
Head2 ± 10 of 4 0.40None
Eye3 ± 10 of 4 0.61None
Thoracicoabdominal ganglion4 ± 10 of 4 0.70None
Salivary gland8 ± 50 of 4 1.53None
Crop3 ± 20 of 4 0.70None
Midgut1 ± 00 of 4 0.20Down
Tubule3 ± 10 of 4 0.60Down
Hindgut3 ± 10 of 4 0.50None
Heart2 ± 00 of 4 0.43None
Fat body6 ± 40 of 4 1.19None
Ovary3 ± 10 of 4 0.70None
Testis2 ± 00 of 4 0.40None
Male accessory glands5 ± 10 of 4 0.90None
Virgin spermatheca1 ± 00 of 4 0.27Down
Mated spermatheca4 ± 10 of 4 0.71None
Adult carcass4 ± 10 of 4 0.90None
Larval CNS2 ± 20 of 4 0.48None
Larval Salivary gland475 ± 404 of 484.60Up
Larval midgut1 ± 00 of 4 0.27Down
Larval tubule1 ± 00 of 4 0.30None
Larval hindgut8 ± 21 of 4 1.48None
Larval fat body6 ± 20 of 4 1.20None
Larval trachea2 ± 20 of 4 0.49None
Larval carcass3 ± 00 of 4 0.59None
S2 cells (growing)3 ± 10 of 4 0.58None
Whole fly5 ± 10 of 4



March 2006 (FlyBase/BDGP 5.3) (chr3L:19294771-19330699 (-) // 100.0 //):

Annotation Number : CG9614
FlyAtlas2 : Click Here for expression data based on RNA-Seq and or miRNA-Seq analyses
Flybase ID : chr3-47
Gbrowse :
Probeset : 1625619_at
Accessions : protein= EC:2.8.2.- /// EC:2.8.2.17 /// EC:2.8.2.5, nucleotide=
Interpro : "0007275 // multicellular organismal development // inferred from electronic annotation /// 0007313 // maternal specific
FlyMine data for chr3-47.
BioGrid reports that CG9614 interacts with CG1505 .


TissuemRNA SignalPresent CallEnrichmentAffy Call
Brain2 ± 00 of 4 0.80None
Head1 ± 00 of 4 0.50None
Eye1 ± 00 of 4 0.33Down
Thoracicoabdominal ganglion2 ± 10 of 4 0.90None
Salivary gland9 ± 20 of 4 3.06None
Crop4 ± 10 of 4 1.40None
Midgut1 ± 00 of 4 0.50None
Tubule3 ± 00 of 4 1.20None
Hindgut3 ± 10 of 4 1.00None
Heart4 ± 11 of 4 1.48None
Fat body6 ± 31 of 4 2.02None
Ovary3 ± 00 of 4 1.10None
Testis2 ± 10 of 4 1.00None
Male accessory glands5 ± 10 of 4 1.60None
Virgin spermatheca4 ± 10 of 4 1.39None
Mated spermatheca5 ± 00 of 4 1.66Up
Adult carcass7 ± 10 of 4 2.50None
Larval CNS2 ± 00 of 4 0.86None
Larval Salivary gland11 ± 13 of 4 3.61Up
Larval midgut6 ± 00 of 4 2.00Up
Larval tubule5 ± 00 of 4 1.70None
Larval hindgut3 ± 10 of 4 1.28None
Larval fat body4 ± 10 of 4 1.40None
Larval trachea2 ± 30 of 4 0.95None
Larval carcass5 ± 00 of 4 1.69Up
S2 cells (growing)2 ± 00 of 4 0.75None
Whole fly3 ± 00 of 4



March 2006 (FlyBase/BDGP 5.3) (chr3L:19295739-19330699 (-) // 100.0 //):

Annotation Number : CG9614
FlyAtlas2 : Click Here for expression data based on RNA-Seq and or miRNA-Seq analyses
Flybase ID : chr3-47
Gbrowse :
Probeset : 1635809_at
Accessions : protein= EC:2.8.2.- /// EC:2.8.2.17 /// EC:2.8.2.5, nucleotide=
Interpro : "0007275 // multicellular organismal development // inferred from electronic annotation /// 0007313 // maternal specific
FlyMine data for chr3-47.
BioGrid reports that CG9614 interacts with CG1505 .


TissuemRNA SignalPresent CallEnrichmentAffy Call
Brain2 ± 10 of 4 0.70None
Head2 ± 10 of 4 0.60None
Eye5 ± 10 of 4 1.49None
Thoracicoabdominal ganglion1 ± 00 of 4 0.40None
Salivary gland6 ± 30 of 4 1.57None
Crop3 ± 10 of 4 0.80None
Midgut2 ± 00 of 4 0.50None
Tubule3 ± 00 of 4 0.90None
Hindgut1 ± 00 of 4 0.30None
Heart0 ± 00 of 4 0.23None
Fat body6 ± 50 of 4 1.63None
Ovary2 ± 00 of 4 0.60None
Testis2 ± 00 of 4 0.70None
Male accessory glands1 ± 00 of 4 0.50None
Virgin spermatheca2 ± 10 of 4 0.74None
Mated spermatheca3 ± 20 of 4 1.00None
Adult carcass4 ± 10 of 4 1.00None
Larval CNS2 ± 10 of 4 0.54None
Larval Salivary gland160 ± 84 of 441.44Up
Larval midgut1 ± 00 of 4 0.41None
Larval tubule3 ± 10 of 4 1.00None
Larval hindgut7 ± 10 of 4 1.87None
Larval fat body2 ± 00 of 4 0.60None
Larval trachea1 ± 10 of 4 0.48None
Larval carcass1 ± 00 of 4 0.44None
S2 cells (growing)2 ± 00 of 4 0.63None
Whole fly3 ± 10 of 4



March 2006 (FlyBase/BDGP 5.3) (chr3L:19291629-19330699 (-) // 100.0 //):

Annotation Number : CG9614
FlyAtlas2 : Click Here for expression data based on RNA-Seq and or miRNA-Seq analyses
Flybase ID : chr3-47
Gbrowse :
Probeset : 1630919_at
Accessions : protein= EC:2.8.2.- /// EC:2.8.2.17 /// EC:2.8.2.5, nucleotide=
Interpro : "0007275 // multicellular organismal development // inferred from electronic annotation /// 0007313 // maternal specific
FlyMine data for chr3-47.
BioGrid reports that CG9614 interacts with CG1505 .


TissuemRNA SignalPresent CallEnrichmentAffy Call
Brain6 ± 10 of 4 0.30Down
Head2 ± 00 of 4 0.10Down
Eye8 ± 00 of 4 0.38Down
Thoracicoabdominal ganglion4 ± 10 of 4 0.20Down
Salivary gland18 ± 60 of 4 0.88None
Crop12 ± 00 of 4 0.60Down
Midgut3 ± 00 of 4 0.10Down
Tubule6 ± 10 of 4 0.30Down
Hindgut10 ± 10 of 4 0.50Down
Heart2 ± 00 of 4 0.11Down
Fat body16 ± 51 of 4 0.75None
Ovary19 ± 20 of 4 0.90None
Testis40 ± 24 of 4 1.90Up
Male accessory glands9 ± 10 of 4 0.40Down
Virgin spermatheca17 ± 40 of 4 0.80None
Mated spermatheca17 ± 20 of 4 0.80None
Adult carcass8 ± 30 of 4 0.40Down
Larval CNS11 ± 22 of 4 0.54Down
Larval Salivary gland183 ± 144 of 4 8.54Up
Larval midgut7 ± 20 of 4 0.33Down
Larval tubule8 ± 20 of 4 0.40Down
Larval hindgut161 ± 54 of 4 7.50Up
Larval fat body9 ± 30 of 4 0.40Down
Larval trachea66 ± 204 of 4 3.11Up
Larval carcass8 ± 30 of 4 0.42Down
S2 cells (growing)2 ± 00 of 4 0.12Down
Whole fly21 ± 21 of 4

Looking for FBgn0003089. 10 entries matched from 18771, in 1 s.


Chintapalli, V. R., Wang, J. and Dow, J. A. T. (2007). Using FlyAtlas to identify better Drosophila models of human disease. Nature Genetics 39: 715-720

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