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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 FBGN0003396 through 18771 annotations produced 3 hits



schnurri (shn):

Annotation Number : HDC05720
FlyAtlas2 : Click Here for expression data based on RNA-Seq and or miRNA-Seq analyses
Flybase ID : FBgn0003396
Gbrowse : chr2R:7077155-7078309 (+) // 100.0 //
Probeset : 1628949_at
Accessions : protein= NP_476723; /// NP_476724; /// NP_599106; /// NP_995813;, nucleotide= NM_057375; /// NM_057376; /// NM_134279; /// NM_206091;
Pathway : 0005622 // intracellular // inferred from electronic annotation /// 0005634 // nucleus // non-traceable author statement
Interpro : 0003676 // nucleic acid binding // inferred from electronic annotation /// 0003700 // sequence-specific DNA binding tran
FlyMine data for FBgn0003396.
TRiP has 1 RNAi stocks for FBgn0003396 available for purchase.
VDRC has 2 RNAi stocks for FBgn0003396 available for purchase.


TissuemRNA SignalPresent CallEnrichmentAffy Call
Brain1 00 of 4 1.70None
Head1 10 of 4 2.30None
Eye2 10 of 4 2.74None
Thoracicoabdominal ganglion1 00 of 4 2.10None
Salivary gland6 30 of 4 7.81None
Crop1 00 of 4 2.30None
Midgut3 10 of 4 4.80None
Tubule1 00 of 4 1.50None
Hindgut0 00 of 4 1.00None
Heart4 10 of 4 6.32None
Fat body3 20 of 4 4.10None
Ovary0 00 of 4 0.50None
Testis1 00 of 4 2.10None
Male accessory glands6 20 of 4 7.70None
Virgin spermatheca5 10 of 4 6.71None
Mated spermatheca7 00 of 4 9.00Up
Adult carcass4 10 of 4 5.50None
Larval CNS1 10 of 4 2.23None
Larval Salivary gland3 10 of 4 4.90None
Larval midgut6 10 of 4 8.42Up
Larval tubule6 10 of 4 8.00None
Larval hindgut2 11 of 4 3.48None
Larval fat body2 20 of 4 3.60None
Larval trachea2 10 of 4 3.10None
Larval carcass3 00 of 4 4.23None
S2 cells (growing)2 10 of 4 3.32None
Whole fly0 00 of 4



chr2R:7070728-7104918 (+) // 100.0 // (schnurri):

Annotation Number : CG7734
FlyAtlas2 : Click Here for expression data based on RNA-Seq and or miRNA-Seq analyses
Flybase ID : full length
Gbrowse : March 2006 (FlyBase/BDGP 5.3)
Probeset : 1625445_s_at
Accessions : protein= , nucleotide= NP_476723; /// NP_476724; /// NP_599106; /// NP_995813;
Pathway : 0000122 // negative regulation of transcription from RNA polymerase II promoter // non-traceable author statement /// 00
Interpro : 0005622 // intracellular // inferred from electronic annotation /// 0005634 // nucleus // non-traceable author statement
FlyMine data for full length.
BioGrid reports that CG7734 interacts with CG9885 CG9885 CG4920 CG9653 CG9653 CG9653 CG14026 CG14026 CG14026 CG14026 CG14026 CG14026 .


TissuemRNA SignalPresent CallEnrichmentAffy Call
Brain248 74 of 4 1.70Up
Head202 64 of 4 1.40Up
Eye230 134 of 4 1.57Up
Thoracicoabdominal ganglion228 84 of 4 1.60Up
Salivary gland245 224 of 4 1.68Up
Crop407 214 of 4 2.80Up
Midgut253 84 of 4 1.70Up
Tubule259 344 of 4 1.80Up
Hindgut273 124 of 4 1.90Up
Heart232 274 of 4 1.59None
Fat body379 384 of 4 2.60Up
Ovary197 44 of 4 1.40Up
Testis39 34 of 4 0.30Down
Male accessory glands215 64 of 4 1.50Up
Virgin spermatheca246 114 of 4 1.69Up
Mated spermatheca289 184 of 4 1.98Up
Adult carcass223 214 of 4 1.50Up
Larval CNS199 234 of 4 1.36Up
Larval Salivary gland248 254 of 4 1.70Up
Larval midgut336 104 of 4 2.30Up
Larval tubule254 164 of 4 1.70Up
Larval hindgut427 384 of 4 2.93Up
Larval fat body171 34 of 4 1.20Up
Larval trachea332 224 of 4 2.28Up
Larval carcass234 164 of 4 1.61Up
S2 cells (growing)461 254 of 4 3.16Up
Whole fly146 54 of 4



chr2R:20615461-20622912 (+) // 98.84 // /// chr2R:6524177-6554159 (+) // 98.01 // /// chr2R:266977-274378 (+) // 97.82 // /// chr2R:6517276-6524619 (+) // 97.18 // /// chr3L:925230-932599 (+) // 97.3 // /// chr3L:2966777-2974144 (+) // 97.41 // /// chr3R:23999446-24006819 (+) // 97.54 // /// chr3R:5663884-5671249 (+) // 97.14 // /// chrX:21567779-21575665 (+) // 98.48 // /// chr2R:10903016-10910383 (-) // 97.45 // /// chr2R:15802404-15809759 (-) // 97.41 // /// chr3RHet:1982292-1989645 (-) // 97.29 // /// chr3RHet:2047905-2055229 (-) // 96.72 // /// chr3L:19110197-19117587 (-) // 97.83 // /// chr3R:17586898-17594233 (-) // 97.15 // /// chr2L:4601758-4609142 (-) // 97.71 // (schnurri):

Annotation Number : X59545
FlyAtlas2 : Click Here for expression data based on RNA-Seq and or miRNA-Seq analyses
Flybase ID : full length
Gbrowse : March 2006 (FlyBase/BDGP 5.3)
Probeset : 1625195_s_at
Accessions : protein= , nucleotide= NP_476723; /// NP_476724; /// NP_599106; /// NP_608403; /// NP_995813;
Pathway : 0000122 // negative regulation of transcription from RNA polymerase II promoter // non-traceable author statement /// 00
Interpro : 0005622 // intracellular // inferred from electronic annotation /// 0005634 // nucleus // non-traceable author statement
FlyMine data for full length.


TissuemRNA SignalPresent CallEnrichmentAffy Call
Brain196 64 of 4 0.40None
Head240 124 of 4 0.50None
Eye295 274 of 4 0.67None
Thoracicoabdominal ganglion128 134 of 4 0.30None
Salivary gland231 134 of 4 0.52None
Crop434 734 of 4 1.00None
Midgut47 44 of 4 0.10Down
Tubule250 374 of 4 0.60Down
Hindgut437 184 of 4 1.00None
Heart4004 4164 of 4 9.09Up
Fat body4452 7274 of 410.10Up
Ovary9 14 of 4 0.00Down
Testis31 14 of 4 0.10Down
Male accessory glands159 124 of 4 0.40None
Virgin spermatheca340 384 of 4 0.77None
Mated spermatheca315 524 of 4 0.72None
Adult carcass1406 1204 of 4 3.20Up
Larval CNS458 764 of 4 1.04None
Larval Salivary gland124 84 of 4 0.28None
Larval midgut36 24 of 4 0.08Down
Larval tubule212 114 of 4 0.50None
Larval hindgut377 454 of 4 0.86None
Larval fat body69 64 of 4 0.20Down
Larval trachea211 254 of 4 0.48None
Larval carcass63 74 of 4 0.14Down
S2 cells (growing)4035 174 of 4 9.16Up
Whole fly440 1074 of 4

Looking for FBgn0003396. 3 entries matched from 18771, in 2 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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