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=2.485e^-2)
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

Covariate	p-value	Significance
In_2L_t	0.02137

Kruskal-Wallis test

Covariate	χ²	p-value	Significance
In_2L_t	5.3536	0.0688

PNG PDF

QQplot

PNG PDF

Manhattan plot

GWAS results

2409 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
3R	24716095	3R_24716095_SNP [dm3] 3R_28890373_SNP [dm6]	A	G	1.508e^-6	0.426	INTRON Doa	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi
3R	11855092	3R_11855092_SNP [dm3] 3R_16029370_SNP [dm6]	A	T	1.525e^-6	0.426	INTRON pnr	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_ftz BDTNP1_TFBS_gt BDTNP1_TFBS_hb BDTNP1_TFBS_kni BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_shn BDTNP1_TFBS_slp1 BDTNP1_TFBS_sna BDTNP1_TFBS_tll BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_Kr
3R	26580807	3R_26580807_INS [dm3] 3R_30755085_INS [dm6]	T	TGAAATT	1.535e^-6	0.426	INTERGENIC	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_twi mE1_TFBS_HSA
2L	794788	2L_794788_SNP [dm3] 2L_794788_SNP [dm6]	G	C	1.567e^-6	0.426	INTERGENIC
3R	14455328	3R_14455328_INS [dm3] 3R_18629606_INS [dm6]	A	AGT	1.754e^-6	0.426	UTR_3_PRIME CG14301 INTRON qin
3R	11855047	3R_11855047_SNP [dm3] 3R_16029325_SNP [dm6]	T	C	1.910e^-6	0.426	INTRON pnr	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_ftz BDTNP1_TFBS_gt BDTNP1_TFBS_hb BDTNP1_TFBS_kni BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_shn BDTNP1_TFBS_sna BDTNP1_TFBS_tll BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_Kr
3R	14405079	3R_14405079_DEL [dm3] 3R_18579357_DEL [dm6]	GT	A	2.285e^-6	0.426	INTRON fray & 1 other
3R	25288112	3R_25288112_SNP [dm3] 3R_29462390_SNP [dm6]	A	C	2.338e^-6	0.426	NON_SYNONYMOUS_CODING Ptp99A INTRON Ptp99A	TF binding site mE1_TFBS_chinmo mE1_TFBS_HSA
3R	24708824	3R_24708824_SNP [dm3] 3R_28883102_SNP [dm6]	T	C	2.343e^-6	0.426	UPSTREAM CG14526 DOWNSTREAM CG14527 INTRON CG33203
3L	16755086	3L_16755086_INS [dm3] 3L_16761986_INS [dm6]	C	CA	2.475e^-6	0.426	INTERGENIC	TF binding site mE1_TFBS_cnc
3L	20211750	3L_20211750_SNP [dm3] 3L_20218650_SNP [dm6]	C	T	2.532e^-6	0.426	NON_SYNONYMOUS_CODING CG6933	TF binding site mE1_TFBS_cad
3R	14405162	3R_14405162_SNP [dm3] 3R_18579440_SNP [dm6]	C	G	3.280e^-6	0.426	INTRON fray & 1 other
3R	14405167	3R_14405167_SNP [dm3] 3R_18579445_SNP [dm6]	C	G	3.280e^-6	0.426	INTRON fray & 1 other
2L	14394854	2L_14394854_SNP [dm3] 2L_14394854_SNP [dm6]	T	A	3.316e^-6	0.426	INTRON elB	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
2L	14394849	2L_14394849_DEL [dm3] 2L_14394849_DEL [dm6]	AT	A	3.406e^-6	0.426	INTRON elB	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
3R	24716130	3R_24716130_SNP [dm3] 3R_28890408_SNP [dm6]	T	C	5.029e^-6	0.568	INTRON Doa	TF binding site BDTNP1_TFBS_dl
2L	12969392	2L_12969392_SNP [dm3] 2L_12969392_SNP [dm6]	G	T	5.148e^-6	0.568	INTERGENIC
3R	14881354	3R_14881354_SNP [dm3] 3R_19055632_SNP [dm6]	T	C	5.643e^-6	0.579	INTRON cdi	TF binding site BDTNP1_TFBS_twi
2L	4784866	2L_4784866_SNP [dm3] 2L_4784866_SNP [dm6]	A	G	5.919e^-6	0.579	INTRON CG15630
3L	15270784	3L_15270784_SNP [dm3] 3L_15277684_SNP [dm6]	C	T	6.404e^-6	0.579	INTERGENIC
3R	24716074	3R_24716074_SNP [dm3] 3R_28890352_SNP [dm6]	C	A	6.575e^-6	0.579	INTRON Doa	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi
3R	19248215	3R_19248215_SNP [dm3] 3R_23422493_SNP [dm6]	T	C	6.929e^-6	0.579	INTRON CG4374	TF binding site BDTNP1_TFBS_da
2R	20200009	2R_20200009_SNP [dm3] 2R_24312486_SNP [dm6]	T	A	7.293e^-6	0.579	UTR_3_PRIME betaTub60D	TF binding site BDTNP1_TFBS_da mE1_TFBS_HSA
3R	25249837	3R_25249837_INS [dm3] 3R_29424115_INS [dm6]	G	GAGCGCGAG	7.414e^-6	0.579	INTRON Ptp99A
X	6628402	X_6628402_SNP [dm3] X_6734369_SNP [dm6]	G	C	8.255e^-6	0.584	INTRON CG3168 & 1 other
2R	20200155	2R_20200155_SNP [dm3] 2R_24312632_SNP [dm6]	C	T	8.533e^-6	0.584	UTR_3_PRIME betaTub60D	TF binding site mE1_TFBS_HSA
2R	20200176	2R_20200176_SNP [dm3] 2R_24312653_SNP [dm6]	C	T	8.533e^-6	0.584	UTR_3_PRIME betaTub60D
3R	19248112	3R_19248112_SNP [dm3] 3R_23422390_SNP [dm6]	T	C	8.718e^-6	0.584	INTRON CG4374	TF binding site BDTNP1_TFBS_da
2L	8085141	2L_8085141_SNP [dm3] 2L_8085141_SNP [dm6]	T	A	9.662e^-6	0.625	INTRON Bsg	TF binding site BDTNP1_TFBS_dl mE1_TFBS_sens mE1_TFBS_Trl
3L	2330998	3L_2330998_SNP [dm3] 3L_2330998_SNP [dm6]	G	C	1.013e^-5	0.633	INTRON MsR1
2R	20181697	2R_20181697_SNP [dm3] 2R_24294174_SNP [dm6]	T	C	1.069e^-5	0.647	UTR_5_PRIME CG3394 UPSTREAM mir-4985	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA mE1_TFBS_inv mE1_TFBS_Trl
2L	18884313	2L_18884313_SNP [dm3] 2L_18884313_SNP [dm6]	G	C	1.210e^-5	0.69	INTERGENIC
3R	26579199	3R_26579199_SNP [dm3] 3R_30753477_SNP [dm6]	T	G	1.224e^-5	0.69	INTERGENIC	TF binding site BDTNP1_TFBS_twi
3R	25330405	3R_25330405_DEL [dm3] 3R_29504683_DEL [dm6]	ACTATTGTTATTA...	A	1.373e^-5	0.69	UPSTREAM Trc8 INTERGENIC	TF binding site mE1_TFBS_HSA
3L	11478577	3L_11478577_SNP [dm3] 3L_11485477_SNP [dm6]	C	T	1.521e^-5	0.69	INTERGENIC
2R	14715919	2R_14715919_SNP [dm3] 2R_18828414_SNP [dm6]	C	A	1.529e^-5	0.69	INTRON CG15097
3R	25604497	3R_25604497_SNP [dm3] 3R_29778775_SNP [dm6]	G	C	1.604e^-5	0.69	DOWNSTREAM fig INTRON kay	TF binding site BDTNP1_TFBS_z mE1_TFBS_HSA mE1_TFBS_Trl
2L	8085319	2L_8085319_SNP [dm3] 2L_8085319_SNP [dm6]	T	A	1.617e^-5	0.69	INTRON Bsg	TF binding site BDTNP1_TFBS_dl mE1_TFBS_sens mE1_TFBS_Trl
3L	43682	3L_43682_SNP [dm3] 3L_43682_SNP [dm6]	T	G	1.702e^-5	0.69	INTERGENIC
X	7146780	X_7146780_SNP [dm3] X_7252747_SNP [dm6]	C	A	1.742e^-5	0.69	INTRON CR44357	TF binding site BDTNP1_TFBS_dl mE1_TFBS_Kr
2R	15465933	2R_15465933_SNP [dm3] 2R_19578428_SNP [dm6]	A	C	1.784e^-5	0.69	INTRON sm
3R	24817518	3R_24817518_SNP [dm3] 3R_28991796_SNP [dm6]	T	A	1.857e^-5	0.69	INTERGENIC
3L	2311920	3L_2311920_SNP [dm3] 3L_2311920_SNP [dm6]	A	C	1.857e^-5	0.69	INTERGENIC
3R	24733936	3R_24733936_SNP [dm3] 3R_28908214_SNP [dm6]	G	A	1.995e^-5	0.69	NON_SYNONYMOUS_CODING Doa INTRON Doa	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
2L	8089251	2L_8089251_SNP [dm3] 2L_8089251_SNP [dm6]	C	A	1.996e^-5	0.69	UTR_5_PRIME Bsg INTRON Bsg	TF binding site BDTNP1_TFBS_dl
3R	25340300	3R_25340300_SNP [dm3] 3R_29514578_SNP [dm6]	G	T	2.003e^-5	0.69	INTERGENIC
X	7037140	X_7037140_SNP [dm3] X_7143107_SNP [dm6]	C	A	2.005e^-5	0.69	INTRON CG9650
2L	13489765	2L_13489765_SNP [dm3] 2L_13489765_SNP [dm6]	T	G	2.178e^-5	0.69	INTRON CG42784	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
2L	4685082	2L_4685082_SNP [dm3] 2L_4685082_SNP [dm6]	C	T	2.210e^-5	0.69	NON_SYNONYMOUS_CODING CG11929 UPSTREAM Bsg25A	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA
2L	4685083	2L_4685083_SNP [dm3] 2L_4685083_SNP [dm6]	A	C	2.210e^-5	0.69	SYNONYMOUS_CODING CG11929 UPSTREAM Bsg25A	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA
3L	44987	3L_44987_DEL [dm3] 3L_44987_DEL [dm6]	AAATAAATAAAA...	CCAATATT	2.250e^-5	0.69	INTERGENIC
3R	10866242	3R_10866242_SNP [dm3] 3R_15040520_SNP [dm6]	G	A	2.267e^-5	0.69	DOWNSTREAM CR44944 INTERGENIC	TF binding site BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_sbb
2L	4685090	2L_4685090_SNP [dm3] 2L_4685090_SNP [dm6]	C	A	2.420e^-5	0.69	NON_SYNONYMOUS_CODING CG11929 UPSTREAM Bsg25A	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA
3L	15521032	3L_15521032_SNP [dm3] 3L_15527932_SNP [dm6]	G	T	2.457e^-5	0.69	NON_SYNONYMOUS_CODING CG42728 UPSTREAM CG42729 DOWNSTREAM obst-H	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_Med BDTNP1_TFBS_sna mE1_TFBS_HSA
2L	14003613	2L_14003613_SNP [dm3] 2L_14003613_SNP [dm6]	A	T	2.529e^-5	0.69	INTERGENIC
3L	3296455	3L_3296455_SNP [dm3] 3L_3296455_SNP [dm6]	C	T	2.542e^-5	0.69	SYNONYMOUS_CODING CG12009	TF binding site mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_inv
2L	10024796	2L_10024796_SNP [dm3] 2L_10024796_SNP [dm6]	C	T	2.571e^-5	0.69	INTERGENIC
2L	1215735	2L_1215735_SNP [dm3] 2L_1215735_SNP [dm6]	A	G	2.654e^-5	0.69	UPSTREAM CR45346 INTERGENIC
3R	17234196	3R_17234196_SNP [dm3] 3R_21408474_SNP [dm6]	T	C	2.688e^-5	0.69	UPSTREAM CheB93b DOWNSTREAM CheB93a INTERGENIC	TF binding site mE1_TFBS_bab1 mE1_TFBS_HSA
2L	13360058	2L_13360058_SNP [dm3] 2L_13360058_SNP [dm6]	C	T	2.694e^-5	0.69	NON_SYNONYMOUS_CODING CG9377	TF binding site mE1_TFBS_cad
X	13140901	X_13140901_SNP [dm3] X_13246868_SNP [dm6]	T	G	2.704e^-5	0.69	INTRON mew	TF binding site BDTNP1_TFBS_da mE1_TFBS_HSA mE1_TFBS_inv
2R	15260223	2R_15260223_SNP [dm3] 2R_19372718_SNP [dm6]	A	T	2.704e^-5	0.69	INTRON CG9416	TF binding site BDTNP1_TFBS_z mE1_TFBS_HSA mE1_TFBS_Trl
3R	10435265	3R_10435265_SNP [dm3] 3R_14609543_SNP [dm6]	T	C	2.720e^-5	0.69	UPSTREAM CG14853 INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA mE1_TFBS_Trl
2L	9825479	2L_9825479_SNP [dm3] 2L_9825479_SNP [dm6]	A	G	2.745e^-5	0.69	INTRON nAChRalpha6
3L	15293218	3L_15293218_SNP [dm3] 3L_15300118_SNP [dm6]	T	C	2.760e^-5	0.69	SPLICE_SITE_REGION Best4 DOWNSTREAM Best3 INTRON Best4
2L	8085493	2L_8085493_DEL [dm3] 2L_8085493_DEL [dm6]	CAGTC	C	2.794e^-5	0.69	INTRON Bsg	TF binding site BDTNP1_TFBS_dl mE1_TFBS_Trl
3R	21013010	3R_21013010_SNP [dm3] 3R_25187288_SNP [dm6]	C	T	2.800e^-5	0.69	INTRON lobo & 1 other	TF binding site BDTNP1_TFBS_dl
3L	13534518	3L_13534518_SNP [dm3] 3L_13541418_SNP [dm6]	T	A	2.814e^-5	0.69	INTRON bru-3
3R	26582897	3R_26582897_SNP [dm3] 3R_30757175_SNP [dm6]	G	A	2.835e^-5	0.69	INTERGENIC	TF binding site BDTNP1_TFBS_twi
3R	1773885	3R_1773885_SNP [dm3] 3R_5948163_SNP [dm6]	T	C	2.841e^-5	0.69	INTRON CG34113
2R	16685844	2R_16685844_SNP [dm3] 2R_20798339_SNP [dm6]	C	T	2.845e^-5	0.69	INTERGENIC
2L	14428628	2L_14428628_SNP [dm3] 2L_14428628_SNP [dm6]	C	A	2.862e^-5	0.69	EXON CR44732	TF binding site mE1_TFBS_cnc mE1_TFBS_HSA
3L	9131810	3L_9131810_SNP [dm3] 3L_9138710_SNP [dm6]	T	A	2.932e^-5	0.69	INTRON nwk
3L	5286493	3L_5286493_INS [dm3] 3L_5293393_INS [dm6]	G	GGG	2.969e^-5	0.69	INTERGENIC
3L	5286843	3L_5286843_SNP [dm3] 3L_5293743_SNP [dm6]	G	C	2.977e^-5	0.69	INTERGENIC
3L	45029	3L_45029_SNP [dm3] 3L_45029_SNP [dm6]	G	T	2.993e^-5	0.69	INTERGENIC
3L	6372128	3L_6372128_SNP [dm3] 3L_6379028_SNP [dm6]	G	A	3.092e^-5	0.69	INTERGENIC
2R	10969602	2R_10969602_SNP [dm3] 2R_15082097_SNP [dm6]	A	T	3.161e^-5	0.69	INTERGENIC
3L	6372130	3L_6372130_SNP [dm3] 3L_6379030_SNP [dm6]	A	T	3.161e^-5	0.69	INTERGENIC
X	7890335	X_7890335_SNP [dm3] X_7996302_SNP [dm6]	C	T	3.173e^-5	0.69	INTRON Tbh	TF binding site mE1_TFBS_sbb
2L	18884296	2L_18884296_SNP [dm3] 2L_18884296_SNP [dm6]	G	A	3.296e^-5	0.69	INTERGENIC
3L	2331004	3L_2331004_SNP [dm3] 3L_2331004_SNP [dm6]	A	G	3.342e^-5	0.69	INTRON MsR1
3R	14879964	3R_14879964_DEL [dm3] 3R_19054242_DEL [dm6]	CAG	C	3.345e^-5	0.69	INTRON cdi	TF binding site BDTNP1_TFBS_twi
3R	14885695	3R_14885695_SNP [dm3] 3R_19059973_SNP [dm6]	A	G	3.362e^-5	0.69	INTRON cdi	TF binding site BDTNP1_TFBS_dl
2R	16584145	2R_16584145_SNP [dm3] 2R_20696640_SNP [dm6]	A	T	3.432e^-5	0.69	INTERGENIC
3R	1999217	3R_1999217_SNP [dm3] 3R_6173495_SNP [dm6]	G	T	3.487e^-5	0.69	UPSTREAM Osi1 INTERGENIC	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
3L	44465	3L_44465_SNP [dm3] 3L_44465_SNP [dm6]	A	G	3.494e^-5	0.69	INTERGENIC
2R	16689706	2R_16689706_SNP [dm3] 2R_20802201_SNP [dm6]	A	G	3.518e^-5	0.69	INTERGENIC
2L	795002	2L_795002_SNP [dm3] 2L_795002_SNP [dm6]	C	T	3.549e^-5	0.69	INTERGENIC
2R	15465823	2R_15465823_DEL [dm3] 2R_19578318_DEL [dm6]	AG	T	3.582e^-5	0.69	INTRON sm
X	15667705	X_15667705_SNP [dm3] X_15773672_SNP [dm6]	G	A	3.668e^-5	0.69	NON_SYNONYMOUS_CODING CG43672 DOWNSTREAM CG33172	TF binding site mE1_TFBS_sens
2L	14696906	2L_14696906_SNP [dm3] 2L_14696906_SNP [dm6]	G	A	3.670e^-5	0.69	INTERGENIC
2R	18137564	2R_18137564_SNP [dm3] 2R_22250059_SNP [dm6]	A	T	3.693e^-5	0.69	INTRON dve	TF binding site BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_inv mE1_TFBS_sens
2L	9886102	2L_9886102_SNP [dm3] 2L_9886102_SNP [dm6]	C	T	3.750e^-5	0.69	UTR_5_PRIME nAChRalpha6 UPSTREAM CR44701
X	3860303	X_3860303_SNP [dm3] X_3966270_SNP [dm6]	T	C	3.760e^-5	0.69	SYNONYMOUS_CODING CG6428 UPSTREAM lva	TF binding site mE1_TFBS_chinmo mE1_TFBS_sens
X	19284340	X_19284340_DEL [dm3] X_19390307_DEL [dm6]	AA	A	3.772e^-5	0.69	INTRON kek5
3R	26579105	3R_26579105_SNP [dm3] 3R_30753383_SNP [dm6]	T	C	3.782e^-5	0.69	INTERGENIC
3R	25210425	3R_25210425_SNP [dm3] 3R_29384703_SNP [dm6]	C	T	3.799e^-5	0.69	INTRON Ptp99A
3R	25210430	3R_25210430_SNP [dm3] 3R_29384708_SNP [dm6]	T	A	3.799e^-5	0.69	INTRON Ptp99A
3R	14882977	3R_14882977_SNP [dm3] 3R_19057255_SNP [dm6]	A	C	3.860e^-5	0.69	INTRON cdi

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By genomic position
Variant impact
Gene name

LifespanBoricAcid phenotype

Phenotype distribution and association to known covariates

QQplot

Manhattan plot

GWAS results