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FlyAtlas: the Drosophila gene expression atlas

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Biotechnology & Biological Sciences Research Council
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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 FBGN0003250 through 18771 annotations produced 1 hits



rhodopsin (Rh4):

Annotation Number : CG9668
FlyAtlas2 : Click Here for expression data based on RNA-Seq and or miRNA-Seq analyses
Flybase ID : FBgn0003250
Gbrowse : chr3L:16845620-16856124 (-) // 100.0 //
Probeset : 1626251_at
Accessions : protein= NP_476701;, nucleotide= NM_057353;
Pathway : UV // inferred from direct assay /// 0007604 // phototransduction
Interpro : UV // non-traceable author statement /// 0007604 // phototransduction
FlyMine data for FBgn0003250.
Homophila reports that CG9668 is a close match (2e-12) to human gene BCP;CBT;OPN1SW (NP_001699), a gene associated with Colorblindness, tritan (3).
VDRC has 3 RNAi stocks for FBgn0003250 available for purchase.


TissuemRNA SignalPresent CallEnrichmentAffy Call
Brain34 44 of 4 0.10Down
Head2290 1804 of 4 9.90Up
Eye7208 1884 of 431.15Up
Thoracicoabdominal ganglion12 10 of 4 0.10Down
Salivary gland19 51 of 4 0.08Down
Crop9 20 of 4 0.00Down
Midgut6 10 of 4 0.00Down
Tubule7 10 of 4 0.00Down
Hindgut3 10 of 4 0.00Down
Heart14 42 of 4 0.06Down
Fat body16 32 of 4 0.07Down
Ovary2 10 of 4 0.00Down
Testis63 54 of 4 0.30Down
Male accessory glands9 20 of 4 0.00Down
Virgin spermatheca10 21 of 4 0.04Down
Mated spermatheca7 00 of 4 0.03Down
Adult carcass13 30 of 4 0.10Down
Larval CNS5 31 of 4 0.02Down
Larval Salivary gland11 11 of 4 0.05Down
Larval midgut14 10 of 4 0.06Down
Larval tubule6 10 of 4 0.00Down
Larval hindgut7 20 of 4 0.03Down
Larval fat body22 41 of 4 0.10Down
Larval trachea174 3232 of 4 0.75None
Larval carcass7 10 of 4 0.03Down
S2 cells (growing)11 10 of 4 0.05Down
Whole fly231 174 of 4

Looking for FBgn0003250. 1 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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