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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 FBGN0085446 through 18771 annotations produced 3 hits



CG3950 (CG34417):

Annotation Number : CG3960
FlyAtlas2 : Click Here for expression data based on RNA-Seq and or miRNA-Seq analyses
Flybase ID : FBgn0085446
Gbrowse : chrX:6465955-6483205 (+) // 100.0 //
Probeset : 1628465_a_at
Accessions : protein= NP_001096892; /// NP_001096893; /// NP_001096895; /// NP_001096896; /// NP_001162679; /// NP_001162680;, nucleotide= NM_001103422; /// NM_001103423; /// NM_001103425; /// NM_001103426; /// NM_001169208; /// NM_001169209;
Pathway : 0005856 // cytoskeleton // inferred from sequence or structural similarity /// 0005875 // microtubule associated complex
Interpro : 0003779 // actin binding // inferred from sequence or structural similarity /// 0005200 // structural constituent of cyt
FlyMine data for FBgn0085446.
Homophila reports that CG3960 is a close match (2e-13) to human gene BMD;CMD3B;DMD (NP_004001), a gene associated with Becker muscular dystrophy, 300376 (3);Cardiomyopathy, dilated, 3B, 302045 (3);Duchenne muscular dystrophy, 310200 (3).
VDRC has 4 RNAi stocks for FBgn0085446 available for purchase.


TissuemRNA SignalPresent CallEnrichmentAffy Call
Brain133 ± 24 of 4 0.30Down
Head600 ± 304 of 4 1.50Up
Eye803 ± 554 of 4 2.03Up
Thoracicoabdominal ganglion219 ± 74 of 4 0.60Down
Salivary gland1479 ± 314 of 4 3.73Up
Crop2019 ± 824 of 4 5.10Up
Midgut411 ± 84 of 4 1.00None
Tubule631 ± 294 of 4 1.60Up
Hindgut1325 ± 244 of 4 3.30Up
Heart1021 ± 394 of 4 2.58Up
Fat body303 ± 384 of 4 0.77Down
Ovary67 ± 24 of 4 0.20Down
Testis129 ± 34 of 4 0.30Down
Male accessory glands352 ± 104 of 4 0.90Down
Virgin spermatheca155 ± 74 of 4 0.39Down
Mated spermatheca194 ± 164 of 4 0.49Down
Adult carcass911 ± 424 of 4 2.30Up
Larval CNS369 ± 444 of 4 0.93None
Larval Salivary gland698 ± 474 of 4 1.76Up
Larval midgut461 ± 284 of 4 1.17None
Larval tubule269 ± 74 of 4 0.70Down
Larval hindgut1393 ± 674 of 4 3.52Up
Larval fat body292 ± 244 of 4 0.70Down
Larval trachea2116 ± 684 of 4 5.34Up
Larval carcass2996 ± 544 of 4 7.57Up
S2 cells (growing)25 ± 14 of 4 0.06Down
Whole fly396 ± 84 of 4



CG3950 (CG34417):

Annotation Number : CG3950
FlyAtlas2 : Click Here for expression data based on RNA-Seq and or miRNA-Seq analyses
Flybase ID : FBgn0085446
Gbrowse : chrX:6434803-6456481 (+) // 100.0 //
Probeset : 1638063_at
Accessions : protein= NP_001096892; /// NP_001096893; /// NP_001096895; /// NP_001096896; /// NP_001162679; /// NP_001162680;, nucleotide= NM_001103422; /// NM_001103423; /// NM_001103425; /// NM_001103426; /// NM_001169208; /// NM_001169209;
Pathway : 0005856 // cytoskeleton // inferred from sequence or structural similarity /// 0005875 // microtubule associated complex
Interpro : 0003779 // actin binding // inferred from sequence or structural similarity /// 0005200 // structural constituent of cyt
FlyMine data for FBgn0085446.
VDRC has 4 RNAi stocks for FBgn0085446 available for purchase.


TissuemRNA SignalPresent CallEnrichmentAffy Call
Brain14 ± 04 of 4 0.90Down
Head41 ± 74 of 4 2.40Up
Eye21 ± 04 of 4 1.26Up
Thoracicoabdominal ganglion15 ± 34 of 4 0.90None
Salivary gland43 ± 33 of 4 2.52Up
Crop67 ± 64 of 4 3.90Up
Midgut21 ± 20 of 4 1.20None
Tubule23 ± 12 of 4 1.40Up
Hindgut104 ± 34 of 4 6.10Up
Heart6 ± 10 of 4 0.38Down
Fat body17 ± 81 of 4 1.02None
Ovary2 ± 10 of 4 0.10Down
Testis12 ± 11 of 4 0.70None
Male accessory glands2 ± 00 of 4 0.10Down
Virgin spermatheca1 ± 00 of 4 0.07Down
Mated spermatheca2 ± 00 of 4 0.13Down
Adult carcass57 ± 54 of 4 3.30Up
Larval CNS17 ± 44 of 4 1.03None
Larval Salivary gland20 ± 51 of 4 1.21None
Larval midgut9 ± 30 of 4 0.54None
Larval tubule22 ± 14 of 4 1.30Up
Larval hindgut58 ± 44 of 4 3.40Up
Larval fat body32 ± 52 of 4 1.90None
Larval trachea37 ± 24 of 4 2.19Up
Larval carcass159 ± 404 of 4 9.29Up
S2 cells (growing)7 ± 10 of 4 0.41Down
Whole fly17 ± 03 of 4



CG3950 (CG34417):

Annotation Number : CG3960
FlyAtlas2 : Click Here for expression data based on RNA-Seq and or miRNA-Seq analyses
Flybase ID : FBgn0085446
Gbrowse : chrX:6474073-6479688 (+) // 99.86 //
Probeset : 1636450_at
Accessions : protein= NP_001096892; /// NP_001096893; /// NP_001096895; /// NP_001096896; /// NP_001162679; /// NP_001162680;, nucleotide= NM_001103422; /// NM_001103423; /// NM_001103425; /// NM_001103426; /// NM_001169208; /// NM_001169209;
Pathway : 0005856 // cytoskeleton // inferred from sequence or structural similarity /// 0005875 // microtubule associated complex
Interpro : 0003779 // actin binding // inferred from sequence or structural similarity /// 0005200 // structural constituent of cyt
FlyMine data for FBgn0085446.
Homophila reports that CG3960 is a close match (2e-13) to human gene BMD;CMD3B;DMD (NP_004001), a gene associated with Becker muscular dystrophy, 300376 (3);Cardiomyopathy, dilated, 3B, 302045 (3);Duchenne muscular dystrophy, 310200 (3).
VDRC has 4 RNAi stocks for FBgn0085446 available for purchase.


TissuemRNA SignalPresent CallEnrichmentAffy Call
Brain6 ± 10 of 4 0.80None
Head5 ± 20 of 4 0.70None
Eye12 ± 11 of 4 1.62None
Thoracicoabdominal ganglion11 ± 30 of 4 1.50None
Salivary gland48 ± 71 of 4 6.23Up
Crop39 ± 04 of 4 5.00Up
Midgut17 ± 10 of 4 2.20Up
Tubule28 ± 30 of 4 3.60Up
Hindgut38 ± 34 of 4 4.90Up
Heart35 ± 44 of 4 4.52Up
Fat body32 ± 131 of 4 4.11Up
Ovary2 ± 00 of 4 0.40None
Testis5 ± 10 of 4 0.70None
Male accessory glands12 ± 30 of 4 1.60None
Virgin spermatheca42 ± 20 of 4 5.40Up
Mated spermatheca54 ± 142 of 4 6.95Up
Adult carcass32 ± 30 of 4 4.20Up
Larval CNS35 ± 143 of 4 4.56Up
Larval Salivary gland34 ± 40 of 4 4.48Up
Larval midgut17 ± 10 of 4 2.29Up
Larval tubule9 ± 20 of 4 1.20None
Larval hindgut21 ± 20 of 4 2.80Up
Larval fat body4 ± 10 of 4 0.60None
Larval trachea39 ± 44 of 4 5.12Up
Larval carcass64 ± 74 of 4 8.26Up
S2 cells (growing)2 ± 10 of 4 0.29None
Whole fly7 ± 20 of 4

Looking for FBgn0085446. 3 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

measure downtime