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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 FBGN0003900 through 18771 annotations produced 1 hits



Twist (twi):

Annotation Number : CG2956
FlyAtlas2 : Click Here for expression data based on RNA-Seq and or miRNA-Seq analyses
Flybase ID : FBgn0003900
Gbrowse : chr2R:18933630-18935849 (+) // 100.0 //
Probeset : 1631682_at
Accessions : protein= NP_001033967; /// NP_523816;, nucleotide= NM_001038878; /// NM_079092;
Pathway : 0005634 // nucleus // inferred from sequence or structural similarity /// 0005634 // nucleus // non-traceable author sta
Interpro : 0003677 // DNA binding // inferred from direct assay /// 0003677 // DNA binding // non-traceable author statement /// 00
FlyMine data for FBgn0003900.
BDGP gene expression has embryonic in situ data for twi: 40 pix of staining in 13 body parts.
Homophila reports that CG2956 is a close match (4e-21) to human gene TWIST;ACS3;SCS (NP_000465), a gene associated with Saethre-Chotzen syndrome with eyelid anomalies, 101400 (3);Saethre-Chotzen syndrome, 101400 (3).
BioGrid reports that CG2956 interacts with CG5102 CG9559 CG9375 CG4889 .
TRiP has 2 RNAi stocks for FBgn0003900 available for purchase.
VDRC has 2 RNAi stocks for FBgn0003900 available for purchase.


TissuemRNA SignalPresent CallEnrichmentAffy Call
Brain4 ± 10 of 4 0.30Down
Head10 ± 20 of 4 0.60None
Eye1 ± 00 of 4 0.09Down
Thoracicoabdominal ganglion10 ± 10 of 4 0.60Down
Salivary gland12 ± 20 of 4 0.73None
Crop51 ± 44 of 4 3.00Up
Midgut6 ± 10 of 4 0.40Down
Tubule6 ± 00 of 4 0.40Down
Hindgut67 ± 44 of 4 4.00Up
Heart15 ± 20 of 4 0.89None
Fat body10 ± 30 of 4 0.60Down
Ovary2 ± 10 of 4 0.20Down
Testis94 ± 74 of 4 5.50Up
Male accessory glands82 ± 54 of 4 4.90Up
Virgin spermatheca19 ± 20 of 4 1.16None
Mated spermatheca21 ± 41 of 4 1.29None
Adult carcass15 ± 32 of 4 0.90None
Larval CNS8 ± 10 of 4 0.52Down
Larval Salivary gland7 ± 20 of 4 0.45Down
Larval midgut11 ± 10 of 4 0.67Down
Larval tubule9 ± 10 of 4 0.50Down
Larval hindgut76 ± 64 of 4 4.48Up
Larval fat body14 ± 20 of 4 0.80None
Larval trachea5 ± 40 of 4 0.35Down
Larval carcass28 ± 02 of 4 1.68Up
S2 cells (growing)243 ± 134 of 414.32Up
Whole fly17 ± 01 of 4

Looking for FBgn0003900. 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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