DGRPool

GWAS results were computed on dm3 genome.

If you want to make an independent analysis with DGRP2 or PLINK2, you can find here prepared input files for this phenotype: DGRP2 results PLINK2 results

Full results

Phenotype distribution and association to known covariates

Shapiro-Wilk test of normality (p-value=3.189e^-7)
Null Hypothesis is rejected (p<=0.05).
Interpretation: NOT NORMAL distribution of this phenotype

We tested for association of this phenotype with 6 known covariates Huang et al., 2014 using both ANOVA and Kruskal-Wallis association tests.

ANOVA test
No significant result.

Kruskal-Wallis test

Covariate	χ²	p-value	Significance
wolba	5.8626	0.0155

PNG PDF

QQplot

PNG PDF

Manhattan plot

GWAS results

3503 significant hits at p-value < 0.001. The 1000 top results are displayed in the table below.

We performed a gene enrichment calculation (Fisher's exact test) of all GWAS-associated genes at p < 0.001. Genesets were taken from two database: the Gene Ontology (GO) and the FlyBase phenotypes. GO enrichment FlyBase phenotype enrichment

Variant impact HIGH MODERATE LOW MODIFIER

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Chromosome	Position	ID	Reference	Variant	p-value	FDR_BH	Transcript annotation	Binding site annotation
X	8678198	X_8678198_SNP [dm3] X_8784165_SNP [dm6]	T	C	7.200e^-8	0.076	INTRON Lim1
X	8678159	X_8678159_SNP [dm3] X_8784126_SNP [dm6]	C	G	8.059e^-8	0.076	INTRON Lim1
3L	18473937	3L_18473937_SNP [dm3] 3L_18480837_SNP [dm6]	G	A	5.086e^-7	0.273	INTERGENIC
X	8678233	X_8678233_SNP [dm3] X_8784200_SNP [dm6]	G	A	5.822e^-7	0.273	INTRON Lim1
2L	11919422	2L_11919422_SNP [dm3] 2L_11919422_SNP [dm6]	C	T	1.002e^-6	0.3	INTRON Pde1c
2L	7175145	2L_7175145_SNP [dm3] 2L_7175145_SNP [dm6]	G	T	1.142e^-6	0.3	UPSTREAM CR44610 INTERGENIC
X	6360789	X_6360789_SNP [dm3] X_6466756_SNP [dm6]	A	G	1.602e^-6	0.3	UTR_3_PRIME CG42340 INTRON CG42340	TF binding site BDTNP1_TFBS_sna
2L	15100047	2L_15100047_SNP [dm3] 2L_15100047_SNP [dm6]	T	C	1.732e^-6	0.3	INTERGENIC	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
2R	5138967	2R_5138967_SNP [dm3] 2R_9251462_SNP [dm6]	T	G	2.048e^-6	0.3	UPSTREAM CG30343 DOWNSTREAM Pkn INTERGENIC	TF binding site BDTNP1_TFBS_twi mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_Ubx
2L	9885006	2L_9885006_SNP [dm3] 2L_9885006_SNP [dm6]	A	T	2.255e^-6	0.3	INTRON nAChRalpha6
X	16734161	X_16734161_SNP [dm3] X_16840128_SNP [dm6]	G	A	2.255e^-6	0.3	UTR_3_PRIME RSG7 DOWNSTREAM RSG7	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_ftz BDTNP1_TFBS_twi mE1_TFBS_HSA
3R	19893881	3R_19893881_DEL [dm3] 3R_24068159_DEL [dm6]	TGGAAAGCGTTGC...	G	2.378e^-6	0.3	INTRON 4EHP
2L	11181321	2L_11181321_SNP [dm3] 2L_11181321_SNP [dm6]	G	A	2.484e^-6	0.3	DOWNSTREAM CG4788 INTRON Ca-beta	TF binding site mE1_TFBS_cad mE1_TFBS_HSA
2L	15100035	2L_15100035_DEL [dm3] 2L_15100035_DEL [dm6]	CC	T	3.097e^-6	0.3	INTERGENIC	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
3R	10340804	3R_10340804_SNP [dm3] 3R_14515082_SNP [dm6]	T	C	3.161e^-6	0.3	UTR_3_PRIME Pde6
3L	18473911	3L_18473911_DEL [dm3] 3L_18480811_DEL [dm6]	TT	T	3.177e^-6	0.3	INTERGENIC
3L	22599489	3L_22599489_SNP [dm3] 3L_22606389_SNP [dm6]	G	A	3.284e^-6	0.3	UTR_5_PRIME CG6914 INTRON CG14459	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
X	21838226	X_21838226_SNP [dm3] X_22436391_SNP [dm6]	T	A	3.653e^-6	0.3	INTERGENIC
2L	19680788	2L_19680788_SNP [dm3] 2L_19680788_SNP [dm6]	G	A	3.723e^-6	0.3	INTRON Lar	TF binding site mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_inv
3R	10351617	3R_10351617_SNP [dm3] 3R_14525895_SNP [dm6]	T	C	3.781e^-6	0.3	INTRON Pde6
3L	1167035	3L_1167035_SNP [dm3] 3L_1167035_SNP [dm6]	A	C	4.085e^-6	0.3	INTRON bab2	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_D mE1_TFBS_HSA
X	8678179	X_8678179_SNP [dm3] X_8784146_SNP [dm6]	C	T	4.265e^-6	0.3	INTRON Lim1
2R	2784101	2R_2784101_SNP [dm3] 2R_6896596_SNP [dm6]	T	C	4.478e^-6	0.3	INTRON CG30158	TF binding site mE1_TFBS_chinmo mE1_TFBS_HSA
2R	6063995	2R_6063995_SNP [dm3] 2R_10176490_SNP [dm6]	C	T	4.540e^-6	0.3	INTRON KCNQ
3R	6907511	3R_6907511_SNP [dm3] 3R_11081789_SNP [dm6]	A	T	5.174e^-6	0.3	INTERGENIC
3R	10339524	3R_10339524_SNP [dm3] 3R_14513802_SNP [dm6]	A	T	5.179e^-6	0.3	UPSTREAM CG8461 DOWNSTREAM Pde6 INTERGENIC	TF binding site BDTNP1_TFBS_Med mE1_TFBS_HSA
3R	10347648	3R_10347648_SNP [dm3] 3R_14521926_SNP [dm6]	A	G	5.355e^-6	0.3	SPLICE_SITE_REGION Cyp313a1 INTRON Pde6 & 1 other
2L	12059258	2L_12059258_SNP [dm3] 2L_12059258_SNP [dm6]	T	C	5.446e^-6	0.3	SYNONYMOUS_CODING Rab3-GAP
X	21845434	X_21845434_SNP [dm3] X_22443598_SNP [dm6]	G	T	5.470e^-6	0.3	UPSTREAM CG14621 INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_hb mE1_TFBS_HSA mE1_TFBS_kn mE1_TFBS_ttk mE1_TFBS_Ubx mE1_TFBS_zfh1
2L	15100021	2L_15100021_SNP [dm3] 2L_15100021_SNP [dm6]	A	T	5.514e^-6	0.3	INTERGENIC	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
2L	14490770	2L_14490770_SNP [dm3] 2L_14490770_SNP [dm6]	G	A	5.545e^-6	0.3	UPSTREAM noc INTERGENIC	TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_sna BDTNP1_TFBS_tll BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_cad mE1_TFBS_D mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_kn mE1_TFBS_sens mE1_TFBS_Trl
3R	19893962	3R_19893962_SNP [dm3] 3R_24068240_SNP [dm6]	G	A	5.732e^-6	0.3	INTRON 4EHP
3L	15230348	3L_15230348_SNP [dm3] 3L_15237248_SNP [dm6]	C	T	5.890e^-6	0.3	SYNONYMOUS_CODING Tollo	TF binding site mE1_TFBS_cad mE1_TFBS_sens
3R	19893967	3R_19893967_SNP [dm3] 3R_24068245_SNP [dm6]	C	T	5.999e^-6	0.3	INTRON 4EHP
3R	6904448	3R_6904448_SNP [dm3] 3R_11078726_SNP [dm6]	G	C	6.220e^-6	0.3	INTERGENIC
2R	11004087	2R_11004087_SNP [dm3] 2R_15116582_SNP [dm6]	C	T	6.274e^-6	0.3	INTRON chn	TF binding site BDTNP1_TFBS_dl mE1_TFBS_Trl
3L	22599913	3L_22599913_SNP [dm3] 3L_22606813_SNP [dm6]	C	G	6.418e^-6	0.3	SYNONYMOUS_CODING CG6914 INTRON CG14459	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
X	11852673	X_11852673_SNP [dm3] X_11958640_SNP [dm6]	G	T	6.534e^-6	0.3	INTRON cac
X	21837768	X_21837768_SNP [dm3] X_22435933_SNP [dm6]	G	A	6.804e^-6	0.3	INTERGENIC	transposable element FlyBase
2L	17541695	2L_17541695_SNP [dm3] 2L_17541695_SNP [dm6]	C	T	6.835e^-6	0.3	UPSTREAM CR43304 INTERGENIC
3L	7158752	3L_7158752_SNP [dm3] 3L_7165652_SNP [dm6]	G	T	7.101e^-6	0.3	SYNONYMOUS_CODING Dscam2	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
2R	17873896	2R_17873896_SNP [dm3] 2R_21986391_SNP [dm6]	T	C	7.255e^-6	0.3	DOWNSTREAM CG34370 INTRON CG30401	TF binding site mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_sens
2R	13449198	2R_13449198_SNP [dm3] 2R_17561693_SNP [dm6]	G	T	7.287e^-6	0.3	SPLICE_SITE_REGION Klp54D INTRON Klp54D
2R	9212867	2R_9212867_SNP [dm3] 2R_13325362_SNP [dm6]	G	A	7.513e^-6	0.3	INTERGENIC
2L	15100066	2L_15100066_SNP [dm3] 2L_15100066_SNP [dm6]	A	T	7.575e^-6	0.3	INTERGENIC	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
2L	15735639	2L_15735639_SNP [dm3] 2L_15735639_SNP [dm6]	C	A	7.599e^-6	0.3	INTRON CycE	regulatory region FlyBase REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_sens
2L	15735651	2L_15735651_SNP [dm3] 2L_15735651_SNP [dm6]	C	T	7.599e^-6	0.3	INTRON CycE	regulatory region FlyBase REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_sens
X	21847208	X_21847208_SNP [dm3] X_22445372_SNP [dm6]	T	A	8.231e^-6	0.3	INTRON CG14621	TF binding site BDTNP1_TFBS_dl
3L	13937668	3L_13937668_SNP [dm3] 3L_13944568_SNP [dm6]	T	C	8.237e^-6	0.3	INTRON CG32137
X	10557283	X_10557283_DEL [dm3] X_10663250_DEL [dm6]	GCCG	G	8.256e^-6	0.3	INTRON X11Lbeta
2L	13341297	2L_13341297_SNP [dm3] 2L_13341297_SNP [dm6]	G	T	8.437e^-6	0.3	INTERGENIC	TF binding site BDTNP1_TFBS_z mE1_TFBS_HSA mE1_TFBS_Trl
2L	15100083	2L_15100083_SNP [dm3] 2L_15100083_SNP [dm6]	A	C	8.488e^-6	0.3	INTERGENIC	TF binding site mE1_TFBS_HSA
2R	7525468	2R_7525468_SNP [dm3] 2R_11637963_SNP [dm6]	G	T	8.942e^-6	0.3	INTRON CG9005	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_D mE1_TFBS_Trl
3L	11039245	3L_11039245_SNP [dm3] 3L_11046145_SNP [dm6]	C	A	9.051e^-6	0.3	INTRON CG43693	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_Trl
3L	2033903	3L_2033903_SNP [dm3] 3L_2033903_SNP [dm6]	A	T	9.122e^-6	0.3	INTERGENIC
2L	17546478	2L_17546478_SNP [dm3] 2L_17546478_SNP [dm6]	T	G	9.346e^-6	0.3	UPSTREAM CR45697 INTERGENIC
3L	11526662	3L_11526662_SNP [dm3] 3L_11533562_SNP [dm6]	G	T	9.523e^-6	0.3	INTRON Mob2
3R	10349711	3R_10349711_SNP [dm3] 3R_14523989_SNP [dm6]	C	T	9.655e^-6	0.3	DOWNSTREAM Cyp313a1 INTRON Pde6
3L	18473897	3L_18473897_DEL [dm3] 3L_18480797_DEL [dm6]	AGA	A	9.865e^-6	0.3	INTERGENIC
3R	10348715	3R_10348715_SNP [dm3] 3R_14522993_SNP [dm6]	G	A	1.007e^-5	0.3	UTR_3_PRIME Cyp313a1 INTRON Pde6
3R	6907766	3R_6907766_SNP [dm3] 3R_11082044_SNP [dm6]	C	G	1.011e^-5	0.3	INTERGENIC
2L	11200963	2L_11200963_SNP [dm3] 2L_11200963_SNP [dm6]	T	G	1.018e^-5	0.3	INTRON Ca-beta
3R	13667483	3R_13667483_SNP [dm3] 3R_17841761_SNP [dm6]	G	A	1.033e^-5	0.3	INTRON tinc
2L	8495897	2L_8495897_SNP [dm3] 2L_8495897_SNP [dm6]	T	C	1.039e^-5	0.3	SYNONYMOUS_CODING Bace INTRON Dh31	TF binding site mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_sens
3L	7937503	3L_7937503_SNP [dm3] 3L_7944403_SNP [dm6]	C	T	1.065e^-5	0.3	INTERGENIC	TF binding site mE1_TFBS_inv
2L	11200921	2L_11200921_SNP [dm3] 2L_11200921_SNP [dm6]	T	A	1.088e^-5	0.3	INTRON Ca-beta
3R	10340425	3R_10340425_SNP [dm3] 3R_14514703_SNP [dm6]	G	T	1.106e^-5	0.3	UTR_3_PRIME Pde6
X	21846019	X_21846019_SNP [dm3] X_22444183_SNP [dm6]	T	G	1.124e^-5	0.3	UPSTREAM CG14621 INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_eve mE1_TFBS_HSA mE1_TFBS_kn mE1_TFBS_run mE1_TFBS_ttk mE1_TFBS_Ubx mE1_TFBS_zfh1
3L	13937661	3L_13937661_SNP [dm3] 3L_13944561_SNP [dm6]	C	T	1.148e^-5	0.3	INTRON CG32137
2L	17571289	2L_17571289_SNP [dm3] 2L_17571289_SNP [dm6]	C	G	1.151e^-5	0.3	INTERGENIC
2R	9409404	2R_9409404_SNP [dm3] 2R_13521899_SNP [dm6]	G	A	1.161e^-5	0.3	UTR_5_PRIME CG13331 INTRON Vmat	TF binding site mE1_TFBS_cad
3L	18474022	3L_18474022_SNP [dm3] 3L_18480922_SNP [dm6]	A	G	1.169e^-5	0.3	INTERGENIC
3L	4078907	3L_4078907_SNP [dm3] 3L_4078907_SNP [dm6]	T	A	1.184e^-5	0.3	INTRON Gad1
3R	4444518	3R_4444518_SNP [dm3] 3R_8618796_SNP [dm6]	A	G	1.185e^-5	0.3	INTRON 5-HT2B
X	21837782	X_21837782_SNP [dm3] X_22435947_SNP [dm6]	G	A	1.217e^-5	0.303	INTERGENIC	transposable element FlyBase
3R	18582453	3R_18582453_SNP [dm3] 3R_22756731_SNP [dm6]	C	T	1.227e^-5	0.303	INTRON Usp12-46 & 1 other
3L	8255981	3L_8255981_SNP [dm3] 3L_8262881_SNP [dm6]	T	C	1.270e^-5	0.303	INTRON Dscam4
2L	15761464	2L_15761464_SNP [dm3] 2L_15761464_SNP [dm6]	G	A	1.292e^-5	0.303	INTRON Gli	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_gt BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_Kr
2L	15100070	2L_15100070_DEL [dm3] 2L_15100070_DEL [dm6]	GTGGCCTTTCAG...	G	1.344e^-5	0.303	INTERGENIC	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
3R	10344076	3R_10344076_SNP [dm3] 3R_14518354_SNP [dm6]	A	C	1.351e^-5	0.303	DOWNSTREAM CG34273 INTRON Pde6
3R	8994381	3R_8994381_SNP [dm3] 3R_13168659_SNP [dm6]	C	G	1.421e^-5	0.303	INTERGENIC
2R	7525393	2R_7525393_SNP [dm3] 2R_11637888_SNP [dm6]	A	T	1.441e^-5	0.303	INTRON CG9005	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_D mE1_TFBS_Trl
2R	7525429	2R_7525429_SNP [dm3] 2R_11637924_SNP [dm6]	C	T	1.441e^-5	0.303	INTRON CG9005	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_D mE1_TFBS_Trl
X	21845912	X_21845912_SNP [dm3] X_22444076_SNP [dm6]	T	C	1.460e^-5	0.303	UPSTREAM CG14621 INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med mE1_TFBS_eve mE1_TFBS_HSA mE1_TFBS_kn mE1_TFBS_run mE1_TFBS_ttk mE1_TFBS_Ubx mE1_TFBS_zfh1
2R	13426203	2R_13426203_SNP [dm3] 2R_17538698_SNP [dm6]	G	C	1.460e^-5	0.303	SYNONYMOUS_CODING eIF3-S9 UPSTREAM CG43370	TF binding site mE1_TFBS_cad mE1_TFBS_eve mE1_TFBS_HSA mE1_TFBS_sens
2L	16371936	2L_16371936_SNP [dm3] 2L_16371936_SNP [dm6]	A	C	1.467e^-5	0.303	INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_cad mE1_TFBS_inv
2L	18814836	2L_18814836_SNP [dm3] 2L_18814836_SNP [dm6]	G	C	1.469e^-5	0.303	DOWNSTREAM CG17325 & 1 other INTERGENIC
3R	20722614	3R_20722614_SNP [dm3] 3R_24896892_SNP [dm6]	T	G	1.477e^-5	0.303	DOWNSTREAM CG13643 INTRON CG11069
2L	15458192	2L_15458192_SNP [dm3] 2L_15458192_SNP [dm6]	C	T	1.492e^-5	0.303	INTERGENIC	TF binding site BDTNP1_TFBS_da mE1_TFBS_HSA
2L	15458391	2L_15458391_DEL [dm3] 2L_15458391_DEL [dm6]	TTCACCCGCATT...	T	1.492e^-5	0.303	INTERGENIC	TF binding site BDTNP1_TFBS_da mE1_TFBS_HSA
3R	18591051	3R_18591051_SNP [dm3] 3R_22765329_SNP [dm6]	A	G	1.498e^-5	0.303	SYNONYMOUS_CODING CG4721 INTRON Usp12-46 & 1 other	TF binding site mE1_TFBS_cad mE1_TFBS_HSA
3R	6907097	3R_6907097_SNP [dm3] 3R_11081375_SNP [dm6]	T	C	1.519e^-5	0.303	INTERGENIC
3L	4864305	3L_4864305_SNP [dm3] 3L_4864305_SNP [dm6]	C	G	1.534e^-5	0.303	UTR_3_PRIME CG17150 INTRON CG17150
3R	10345321	3R_10345321_SNP [dm3] 3R_14519599_SNP [dm6]	G	T	1.539e^-5	0.303	INTRON Pde6
3R	25604258	3R_25604258_SNP [dm3] 3R_29778536_SNP [dm6]	C	T	1.547e^-5	0.303	DOWNSTREAM fig INTRON kay	TF binding site BDTNP1_TFBS_z
2L	13485378	2L_13485378_SNP [dm3] 2L_13485378_SNP [dm6]	T	A	1.570e^-5	0.303	INTRON CG42784
3R	10340607	3R_10340607_SNP [dm3] 3R_14514885_SNP [dm6]	C	T	1.583e^-5	0.303	UTR_3_PRIME Pde6
3L	22601213	3L_22601213_SNP [dm3] 3L_22608113_SNP [dm6]	C	T	1.594e^-5	0.303	DOWNSTREAM CG6914 INTRON CG14459
2L	15337302	2L_15337302_SNP [dm3] 2L_15337302_SNP [dm6]	G	C	1.616e^-5	0.303	INTERGENIC	TF binding site mE1_TFBS_cad mE1_TFBS_HSA
2L	2947900	2L_2947900_SNP [dm3] 2L_2947900_SNP [dm6]	G	A	1.617e^-5	0.303	NON_SYNONYMOUS_CODING lilli	TF binding site mE1_TFBS_chinmo

Showing 1 to 100 of 1,000 entries

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GWAS results were computed on dm3 genome.

If you want to make an independent analysis with DGRP2 or PLINK2, you can find here prepared input files for this phenotype: DGRP2 results PLINK2 results

Full results

Phenotype distribution and association to known covariates

Shapiro-Wilk test of normality (p-value=6.990e^-17)
Null Hypothesis is rejected (p<=0.05).
Interpretation: NOT NORMAL distribution of this phenotype

We tested for association of this phenotype with 6 known covariates Huang et al., 2014 using both ANOVA and Kruskal-Wallis association tests.

ANOVA test
No significant result.

Kruskal-Wallis test

Covariate	χ²	p-value	Significance
In_2L_t	8.3473	0.0154
In_3R_K	6.1576	0.046

PNG PDF

QQplot

PNG PDF

Manhattan plot

GWAS results

3102 significant hits at p-value < 0.001. The 1000 top results are displayed in the table below.

Variant impact HIGH MODERATE LOW MODIFIER

Show entries

Search:

Chromosome	Position	ID	Reference	Variant	p-value	FDR_BH	Transcript annotation	Binding site annotation
3R	7746312	3R_7746312_SNP [dm3] 3R_11920590_SNP [dm6]	G	A	2.150e^-7	0.237	INTRON Cad87A
3R	8165817	3R_8165817_SNP [dm3] 3R_12340095_SNP [dm6]	G	A	2.531e^-7	0.237	DOWNSTREAM CR44941 INTERGENIC
3R	8358059	3R_8358059_SNP [dm3] 3R_12532337_SNP [dm6]	C	T	4.883e^-7	0.246	INTRON Octbeta3R
3R	22938942	3R_22938942_SNP [dm3] 3R_27113220_SNP [dm6]	G	A	5.256e^-7	0.246	SYNONYMOUS_CODING CG5815 UPSTREAM gb	TF binding site BDTNP1_TFBS_dl mE1_TFBS_sens
3R	11719656	3R_11719656_INS [dm3] 3R_15893934_INS [dm6]	C	CC	7.759e^-7	0.267	INTRON CG14877
3R	8221792	3R_8221792_SNP [dm3] 3R_12396070_SNP [dm6]	T	G	1.140e^-6	0.267	UPSTREAM CG10096 & 1 other INTRON CG34402 EXON Cyp9f3Psi
3R	7734002	3R_7734002_SNP [dm3] 3R_11908280_SNP [dm6]	A	C	1.187e^-6	0.267	INTRON Cad87A
3R	8994381	3R_8994381_SNP [dm3] 3R_13168659_SNP [dm6]	C	G	1.290e^-6	0.267	INTERGENIC
2R	10998487	2R_10998487_SNP [dm3] 2R_15110982_SNP [dm6]	T	C	1.496e^-6	0.267	INTERGENIC
3R	19894978	3R_19894978_SNP [dm3] 3R_24069256_SNP [dm6]	T	A	1.763e^-6	0.267	INTRON 4EHP
3R	7734023	3R_7734023_SNP [dm3] 3R_11908301_SNP [dm6]	C	G	1.849e^-6	0.267	INTRON Cad87A
3R	7760866	3R_7760866_SNP [dm3] 3R_11935144_SNP [dm6]	G	A	1.911e^-6	0.267	INTRON Cad87A
3R	6549152	3R_6549152_SNP [dm3] 3R_10723430_SNP [dm6]	A	T	2.269e^-6	0.267	INTERGENIC
3R	6272794	3R_6272794_DEL [dm3] 3R_10447072_DEL [dm6]	GAAATTAAGCCCC...	G	2.635e^-6	0.267	INTERGENIC
3R	11724703	3R_11724703_SNP [dm3] 3R_15898981_SNP [dm6]	T	G	2.746e^-6	0.267	INTRON glob1
3R	6474640	3R_6474640_SNP [dm3] 3R_10648918_SNP [dm6]	G	T	3.121e^-6	0.267	INTERGENIC	TF binding site mE1_TFBS_D mE1_TFBS_HSA
3L	4114059	3L_4114059_SNP [dm3] 3L_4114059_SNP [dm6]	G	A	3.134e^-6	0.267	UTR_3_PRIME Ack DOWNSTREAM Chd64
3R	6550322	3R_6550322_SNP [dm3] 3R_10724600_SNP [dm6]	C	T	3.135e^-6	0.267	INTERGENIC
3L	6570836	3L_6570836_SNP [dm3] 3L_6577736_SNP [dm6]	C	T	3.294e^-6	0.267	INTRON CG18769 & 1 other
2L	14012555	2L_14012555_SNP [dm3] 2L_14012555_SNP [dm6]	T	C	3.518e^-6	0.267	UPSTREAM bgm INTERGENIC	TF binding site mE1_TFBS_HSA mE1_TFBS_inv
3L	21475879	3L_21475879_SNP [dm3] 3L_21482779_SNP [dm6]	G	T	3.659e^-6	0.267	INTERGENIC	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_slp1 BDTNP1_TFBS_tll BDTNP1_TFBS_twi
3R	19893881	3R_19893881_DEL [dm3] 3R_24068159_DEL [dm6]	TGGAAAGCGTTGC...	G	3.661e^-6	0.267	INTRON 4EHP
3R	8220563	3R_8220563_SNP [dm3] 3R_12394841_SNP [dm6]	A	G	3.676e^-6	0.267	NON_SYNONYMOUS_CODING CG10097 UTR_5_PRIME CG10096 INTRON CG34402
2L	15734502	2L_15734502_SNP [dm3] 2L_15734502_SNP [dm6]	T	C	3.778e^-6	0.267	INTRON CycE	regulatory region FlyBase REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_Kr
3L	8039336	3L_8039336_SNP [dm3] 3L_8046236_SNP [dm6]	T	C	3.787e^-6	0.267	INTRON nmo
X	9490774	X_9490774_SNP [dm3] X_9596741_SNP [dm6]	T	G	3.839e^-6	0.267	INTERGENIC
3R	8997008	3R_8997008_SNP [dm3] 3R_13171286_SNP [dm6]	C	T	3.935e^-6	0.267	INTERGENIC
3R	8221499	3R_8221499_SNP [dm3] 3R_12395777_SNP [dm6]	G	A	4.114e^-6	0.267	SYNONYMOUS_CODING CG10097 UTR_5_PRIME CG10096 DOWNSTREAM Cyp9f3Psi INTRON CG34402
3R	6288956	3R_6288956_SNP [dm3] 3R_10463234_SNP [dm6]	G	T	4.133e^-6	0.267	EXON CR44955
3R	7729799	3R_7729799_SNP [dm3] 3R_11904077_SNP [dm6]	C	T	4.454e^-6	0.274	INTRON Cad87A
3R	7733789	3R_7733789_SNP [dm3] 3R_11908067_SNP [dm6]	G	A	4.666e^-6	0.274	INTRON Cad87A
3R	5198177	3R_5198177_SNP [dm3] 3R_9372455_SNP [dm6]	C	T	4.671e^-6	0.274	SYNONYMOUS_CODING FER UPSTREAM FER INTRON FER
3R	6640823	3R_6640823_DEL [dm3] 3R_10815101_DEL [dm6]	GGCTCTAAG	G	4.911e^-6	0.275	UPSTREAM CG4089 & 1 other INTERGENIC
3L	18072017	3L_18072017_SNP [dm3] 3L_18078917_SNP [dm6]	T	G	5.077e^-6	0.275	DOWNSTREAM CR45392 INTERGENIC
3R	6661407	3R_6661407_SNP [dm3] 3R_10835685_SNP [dm6]	G	A	5.128e^-6	0.275	INTRON Cad86C
3R	6240000	3R_6240000_SNP [dm3] 3R_10414278_SNP [dm6]	C	T	6.205e^-6	0.323	SYNONYMOUS_CODING CG6345 DOWNSTREAM Rrp46	TF binding site mE1_TFBS_cad
2L	17213606	2L_17213606_SNP [dm3] 2L_17213606_SNP [dm6]	C	T	7.019e^-6	0.337	INTRON beat-IIIc	TF binding site BDTNP1_TFBS_dl mE1_TFBS_cad mE1_TFBS_HSA
3R	14845685	3R_14845685_SNP [dm3] 3R_19019963_SNP [dm6]	C	T	7.156e^-6	0.337	DOWNSTREAM gukh INTRON gukh
3R	6228184	3R_6228184_SNP [dm3] 3R_10402462_SNP [dm6]	C	T	7.471e^-6	0.337	SYNONYMOUS_CODING mthl11 DOWNSTREAM CG6325
3R	7724857	3R_7724857_SNP [dm3] 3R_11899135_SNP [dm6]	T	C	7.636e^-6	0.337	SYNONYMOUS_CODING Cad87A DOWNSTREAM CG34307	TF binding site mE1_TFBS_sens
2L	6887682	2L_6887682_SNP [dm3] 2L_6887682_SNP [dm6]	C	A	7.990e^-6	0.337	INTRON Nlg2
3R	6537736	3R_6537736_SNP [dm3] 3R_10712014_SNP [dm6]	G	A	8.136e^-6	0.337	UPSTREAM CG14689 INTERGENIC
3R	18384118	3R_18384118_DEL [dm3] 3R_22558396_DEL [dm6]	TT	T	8.610e^-6	0.337	UTR_3_PRIME CG5278
3L	9594502	3L_9594502_DEL [dm3] 3L_9601402_DEL [dm6]	ATCTTG	A	8.657e^-6	0.337	UPSTREAM CG3306 & 1 other INTERGENIC
3R	5464895	3R_5464895_SNP [dm3] 3R_9639173_SNP [dm6]	C	T	9.066e^-6	0.337	INTRON Dh44	TF binding site BDTNP1_TFBS_twi
2L	15553812	2L_15553812_INS [dm3] 2L_15553812_INS [dm6]	T	TG	9.447e^-6	0.337	INTRON kek3
3L	8214115	3L_8214115_SNP [dm3] 3L_8221015_SNP [dm6]	G	T	9.577e^-6	0.337	INTERGENIC
3R	6474322	3R_6474322_SNP [dm3] 3R_10648600_SNP [dm6]	A	T	9.590e^-6	0.337	INTERGENIC
3R	8220292	3R_8220292_SNP [dm3] 3R_12394570_SNP [dm6]	T	C	9.676e^-6	0.337	SYNONYMOUS_CODING CG10097 START_GAINED CG10096 UTR_5_PRIME CG10096 INTRON CG34402
3R	7975272	3R_7975272_SNP [dm3] 3R_12149550_SNP [dm6]	C	T	9.766e^-6	0.337	INTRON dpr15
3R	6251148	3R_6251148_SNP [dm3] 3R_10425426_SNP [dm6]	C	A	1.005e^-5	0.337	INTERGENIC
3R	2594753	3R_2594753_SNP [dm3] 3R_6769031_SNP [dm6]	A	G	1.006e^-5	0.337	INTRON CR42721	silencer mE1_HDAC_PRE TF binding site BDTNP1_TFBS_dl mE1_TFBS_cad mE1_TFBS_HSA
3R	7727619	3R_7727619_SNP [dm3] 3R_11901897_SNP [dm6]	G	A	1.008e^-5	0.337	SYNONYMOUS_CODING Cad87A
3R	6231815	3R_6231815_SNP [dm3] 3R_10406093_SNP [dm6]	G	A	1.009e^-5	0.337	SYNONYMOUS_CODING CG6325
3R	6509171	3R_6509171_SNP [dm3] 3R_10683449_SNP [dm6]	A	G	1.044e^-5	0.337	INTRON CR44230
3L	9594498	3L_9594498_SNP [dm3] 3L_9601398_SNP [dm6]	G	C	1.064e^-5	0.337	UPSTREAM CG3306 & 1 other INTERGENIC
3R	6665005	3R_6665005_SNP [dm3] 3R_10839283_SNP [dm6]	A	T	1.080e^-5	0.337	NON_SYNONYMOUS_CODING Cad86C INTRON Cad86C
3L	18687881	3L_18687881_SNP [dm3] 3L_18694781_SNP [dm6]	A	T	1.112e^-5	0.337	SYNONYMOUS_CODING CG6893 UPSTREAM CR43987
3R	7988054	3R_7988054_SNP [dm3] 3R_12162332_SNP [dm6]	C	A	1.124e^-5	0.337	DOWNSTREAM Cpn INTERGENIC
3R	7727598	3R_7727598_SNP [dm3] 3R_11901876_SNP [dm6]	T	C	1.132e^-5	0.337	SYNONYMOUS_CODING Cad87A
3R	6281138	3R_6281138_SNP [dm3] 3R_10455416_SNP [dm6]	T	C	1.136e^-5	0.337	INTERGENIC
3L	3755942	3L_3755942_INS [dm3] 3L_3755942_INS [dm6]	A	ATTCACA	1.150e^-5	0.337	UPSTREAM ppk27 INTRON CG32264
2L	16334400	2L_16334400_SNP [dm3] 2L_16334400_SNP [dm6]	T	A	1.160e^-5	0.337	SYNONYMOUS_CODING CG31817	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
2L	15736224	2L_15736224_DEL [dm3] 2L_15736224_DEL [dm6]	GG	G	1.202e^-5	0.337	INTRON CycE	regulatory region FlyBase REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA
3R	6497431	3R_6497431_SNP [dm3] 3R_10671709_SNP [dm6]	C	T	1.211e^-5	0.337	INTERGENIC	TF binding site mE1_TFBS_sens
3R	8363127	3R_8363127_SNP [dm3] 3R_12537405_SNP [dm6]	A	G	1.213e^-5	0.337	INTRON Octbeta3R
3R	8358015	3R_8358015_SNP [dm3] 3R_12532293_SNP [dm6]	C	A	1.217e^-5	0.337	INTRON Octbeta3R
2L	15585853	2L_15585853_SNP [dm3] 2L_15585853_SNP [dm6]	G	A	1.256e^-5	0.337	INTERGENIC	TF binding site mE1_TFBS_chinmo
3R	6509176	3R_6509176_SNP [dm3] 3R_10683454_SNP [dm6]	A	T	1.257e^-5	0.337	INTRON CR44230
2L	6887676	2L_6887676_SNP [dm3] 2L_6887676_SNP [dm6]	A	T	1.314e^-5	0.337	INTRON Nlg2
3L	19096461	3L_19096461_DEL [dm3] 3L_19103361_DEL [dm6]	ATGGCAAAACCGA...	A	1.338e^-5	0.337	INTERGENIC
3R	2937922	3R_2937922_SNP [dm3] 3R_7112200_SNP [dm6]	T	C	1.358e^-5	0.337	UPSTREAM Alh INTRON Alh	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_ftz BDTNP1_TFBS_gt BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_sna BDTNP1_TFBS_tll BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_eve mE1_TFBS_HSA mE1_TFBS_sens
3L	9594519	3L_9594519_SNP [dm3] 3L_9601419_SNP [dm6]	T	A	1.422e^-5	0.337	UPSTREAM CG3306 & 1 other INTERGENIC
X	16032341	X_16032341_SNP [dm3] X_16138308_SNP [dm6]	G	T	1.427e^-5	0.337	INTRON disco-r
3R	6549159	3R_6549159_SNP [dm3] 3R_10723437_SNP [dm6]	T	C	1.466e^-5	0.337	INTERGENIC
X	16032172	X_16032172_SNP [dm3] X_16138139_SNP [dm6]	A	T	1.494e^-5	0.337	INTRON disco-r
3R	2937888	3R_2937888_SNP [dm3] 3R_7112166_SNP [dm6]	T	A	1.538e^-5	0.337	UPSTREAM Alh INTRON Alh	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_ftz BDTNP1_TFBS_gt BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_sna BDTNP1_TFBS_tll BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_eve mE1_TFBS_HSA mE1_TFBS_sens
3R	7734348	3R_7734348_SNP [dm3] 3R_11908626_SNP [dm6]	T	C	1.565e^-5	0.337	INTRON Cad87A
3R	6549161	3R_6549161_SNP [dm3] 3R_10723439_SNP [dm6]	T	C	1.582e^-5	0.337	INTERGENIC
3R	6562999	3R_6562999_SNP [dm3] 3R_10737277_SNP [dm6]	G	C	1.602e^-5	0.337	DOWNSTREAM TkR86C INTERGENIC
3R	11719649	3R_11719649_SNP [dm3] 3R_15893927_SNP [dm6]	A	G	1.652e^-5	0.337	INTRON CG14877
3R	16472598	3R_16472598_SNP [dm3] 3R_20646876_SNP [dm6]	C	T	1.670e^-5	0.337	SPLICE_SITE_REGION GluRIIE INTRON GluRIIE
3L	1867462	3L_1867462_SNP [dm3] 3L_1867462_SNP [dm6]	C	T	1.698e^-5	0.337	SYNONYMOUS_CODING CG12025	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi mE1_TFBS_HSA
3R	3480855	3R_3480855_SNP [dm3] 3R_7655133_SNP [dm6]	T	C	1.705e^-5	0.337	INTERGENIC
3R	7945137	3R_7945137_SNP [dm3] 3R_12119415_SNP [dm6]	T	A	1.715e^-5	0.337	INTERGENIC
3R	14503318	3R_14503318_SNP [dm3] 3R_18677596_SNP [dm6]	G	C	1.720e^-5	0.337	UPSTREAM CG7706 & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_cnc mE1_TFBS_HSA
2L	15944024	2L_15944024_SNP [dm3] 2L_15944024_SNP [dm6]	C	G	1.744e^-5	0.337	INTRON beat-Ib
3R	6514764	3R_6514764_SNP [dm3] 3R_10689042_SNP [dm6]	C	A	1.767e^-5	0.337	INTRON Skeletor	TF binding site mE1_TFBS_cad
3R	7755363	3R_7755363_SNP [dm3] 3R_11929641_SNP [dm6]	A	T	1.796e^-5	0.337	INTRON Cad87A
3L	9594490	3L_9594490_DEL [dm3] 3L_9601390_DEL [dm6]	ATTTCT	A	1.806e^-5	0.337	UPSTREAM CG3306 & 1 other INTERGENIC
3R	6282506	3R_6282506_SNP [dm3] 3R_10456784_SNP [dm6]	C	A	1.810e^-5	0.337	INTERGENIC
2L	13087494	2L_13087494_SNP [dm3] 2L_13087494_SNP [dm6]	C	A	1.820e^-5	0.337	INTERGENIC
3R	7988292	3R_7988292_SNP [dm3] 3R_12162570_SNP [dm6]	G	C	1.842e^-5	0.337	DOWNSTREAM Cpn INTERGENIC
3R	20610616	3R_20610616_SNP [dm3] 3R_24784894_SNP [dm6]	G	A	1.856e^-5	0.337	UTR_3_PRIME CG5805 DOWNSTREAM CG42331
3L	19096539	3L_19096539_SNP [dm3] 3L_19103439_SNP [dm6]	C	A	1.913e^-5	0.337	INTERGENIC
3R	22924361	3R_22924361_SNP [dm3] 3R_27098639_SNP [dm6]	G	T	1.964e^-5	0.337	NON_SYNONYMOUS_CODING eater	TF binding site mE1_TFBS_sens
2L	4916296	2L_4916296_SNP [dm3] 2L_4916296_SNP [dm6]	C	A	1.970e^-5	0.337	UPSTREAM hoe1 INTRON hoe1
X	4291380	X_4291380_SNP [dm3] X_4397347_SNP [dm6]	T	G	1.985e^-5	0.337	INTRON CR32773	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_HSA
3L	9594518	3L_9594518_SNP [dm3] 3L_9601418_SNP [dm6]	C	T	2.017e^-5	0.337	UPSTREAM CG3306 & 1 other INTERGENIC
3R	2304603	3R_2304603_SNP [dm3] 3R_6478881_SNP [dm6]	G	T	2.018e^-5	0.337	UTR_5_PRIME CG15186

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By genomic position
Variant impact
Gene name

Cuticul_9_C23_1 phenotype

Phenotype distribution and association to known covariates

QQplot

Manhattan plot

GWAS results

Phenotype distribution and association to known covariates

QQplot

Manhattan plot

GWAS results