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=2.266e^-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	0.004465
In_2R_NS	0.070339
In_3R_K	0.004053

Kruskal-Wallis test

Covariate	χ²	p-value	Significance
In_2L_t	10.0918	0.0064
In_3R_K	8.3924	0.0151

PNG PDF

QQplot

PNG PDF

Manhattan plot

GWAS results

2501 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	12591369	3R_12591369_SNP [dm3] 3R_16765647_SNP [dm6]	C	A	9.977e^-8	0.187	UPSTREAM tre-2 INTRON bxd EXON tre-1	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_Ubx
3R	15393938	3R_15393938_SNP [dm3] 3R_19568216_SNP [dm6]	A	T	6.206e^-7	0.333	UPSTREAM Dys INTRON Dys	TF binding site BDTNP1_TFBS_z
3R	15393934	3R_15393934_SNP [dm3] 3R_19568212_SNP [dm6]	A	G	6.611e^-7	0.333	UPSTREAM Dys INTRON Dys	TF binding site BDTNP1_TFBS_z
3R	12590937	3R_12590937_SNP [dm3] 3R_16765215_SNP [dm6]	A	C	7.880e^-7	0.333	UPSTREAM tre-2 DOWNSTREAM tre-1 INTRON bxd	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_HSA mE1_TFBS_Ubx
3R	18188513	3R_18188513_SNP [dm3] 3R_22362791_SNP [dm6]	G	T	9.644e^-7	0.333	START_GAINED Muted & 1 other UTR_5_PRIME Muted & 1 other UPSTREAM CG7071 & 2 others	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_Trl mE1_TFBS_Ubx
3R	12590494	3R_12590494_SNP [dm3] 3R_16764772_SNP [dm6]	G	T	1.107e^-6	0.333	DOWNSTREAM tre-1 INTRON bxd EXON tre-2	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_Trl
3R	12590079	3R_12590079_SNP [dm3] 3R_16764357_SNP [dm6]	G	T	1.245e^-6	0.333	UPSTREAM tre-3 INTRON bxd EXON tre-2	regulatory region REDfly_CRMs silencer mE1_HDAC_PRE TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_ftz BDTNP1_TFBS_hb BDTNP1_TFBS_kni BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_cnc mE1_TFBS_eve mE1_TFBS_HSA mE1_TFBS_kn mE1_TFBS_sens mE1_TFBS_Trl mE1_TFBS_Ubx
3R	12590912	3R_12590912_SNP [dm3] 3R_16765190_SNP [dm6]	G	A	1.578e^-6	0.34	UPSTREAM tre-2 DOWNSTREAM tre-1 INTRON bxd	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_HSA mE1_TFBS_Ubx
3R	12591125	3R_12591125_SNP [dm3] 3R_16765403_SNP [dm6]	G	A	1.644e^-6	0.34	UPSTREAM tre-2 DOWNSTREAM tre-1 INTRON bxd	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_HSA mE1_TFBS_Ubx
3R	18188486	3R_18188486_SNP [dm3] 3R_22362764_SNP [dm6]	C	T	1.815e^-6	0.34	UTR_5_PRIME Muted & 1 other UPSTREAM CG7071 & 2 others	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_Trl mE1_TFBS_Ubx
3R	18188518	3R_18188518_SNP [dm3] 3R_22362796_SNP [dm6]	C	T	2.092e^-6	0.357	UTR_5_PRIME Muted & 1 other UPSTREAM CG7071 & 2 others	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_Trl mE1_TFBS_Ubx
3R	11603389	3R_11603389_SNP [dm3] 3R_15777667_SNP [dm6]	A	C	2.417e^-6	0.378	DOWNSTREAM CG4525 INTERGENIC
3R	15245740	3R_15245740_SNP [dm3] 3R_19420018_SNP [dm6]	A	G	2.868e^-6	0.414	INTRON CG31221
3R	25791708	3R_25791708_SNP [dm3] 3R_29965986_SNP [dm6]	G	A	3.193e^-6	0.428	INTRON TkR99D
2L	16318586	2L_16318586_SNP [dm3] 2L_16318586_SNP [dm6]	T	A	3.964e^-6	0.496	INTRON cact	TF binding site BDTNP1_TFBS_twi
3R	22613955	3R_22613955_DEL [dm3] 3R_26788233_DEL [dm6]	GG	G	4.338e^-6	0.508	INTERGENIC
3R	12590482	3R_12590482_SNP [dm3] 3R_16764760_SNP [dm6]	T	C	4.715e^-6	0.508	DOWNSTREAM tre-1 INTRON bxd EXON tre-2	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_Trl
3R	12581869	3R_12581869_SNP [dm3] 3R_16756147_SNP [dm6]	T	A	4.876e^-6	0.508	INTRON bxd	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
3R	12589112	3R_12589112_SNP [dm3] 3R_16763390_SNP [dm6]	A	G	5.710e^-6	0.528	DOWNSTREAM tre-2 INTRON bxd EXON tre-3	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_Trl mE1_TFBS_Ubx
3R	12589603	3R_12589603_SNP [dm3] 3R_16763881_SNP [dm6]	C	T	5.982e^-6	0.528	UPSTREAM tre-3 INTRON bxd EXON tre-2	regulatory region REDfly_CRMs silencer mE1_HDAC_PRE TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_ftz BDTNP1_TFBS_hb BDTNP1_TFBS_kni BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_cnc mE1_TFBS_D mE1_TFBS_HSA mE1_TFBS_inv mE1_TFBS_kn mE1_TFBS_sens mE1_TFBS_Trl mE1_TFBS_Ubx
3L	18822982	3L_18822982_SNP [dm3] 3L_18829882_SNP [dm6]	T	C	6.299e^-6	0.528	SYNONYMOUS_CODING Indy	TF binding site mE1_TFBS_cad
2R	10484430	2R_10484430_SNP [dm3] 2R_14596925_SNP [dm6]	G	T	6.673e^-6	0.528	SYNONYMOUS_CODING RpI1
3R	11967326	3R_11967326_INS [dm3] 3R_16141604_INS [dm6]	G	GG	6.698e^-6	0.528	INTRON Sb	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
3R	15153994	3R_15153994_SNP [dm3] 3R_19328272_SNP [dm6]	T	A	7.496e^-6	0.528	UPSTREAM CR44175 INTERGENIC
3R	19546958	3R_19546958_SNP [dm3] 3R_23721236_SNP [dm6]	T	A	7.601e^-6	0.528	INTRON CG10232
3L	3811785	3L_3811785_SNP [dm3] 3L_3811785_SNP [dm6]	G	T	7.622e^-6	0.528	UPSTREAM CG32263 INTRON CG12006	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA
3R	11603420	3R_11603420_SNP [dm3] 3R_15777698_SNP [dm6]	A	T	7.705e^-6	0.528	DOWNSTREAM CG4525 INTERGENIC
2R	10483497	2R_10483497_SNP [dm3] 2R_14595992_SNP [dm6]	C	T	8.332e^-6	0.528	SYNONYMOUS_CODING RpI1 DOWNSTREAM CG12869	TF binding site mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_sens
3L	16736775	3L_16736775_SNP [dm3] 3L_16743675_SNP [dm6]	T	C	8.497e^-6	0.528	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl mE1_TFBS_eve mE1_TFBS_HSA mE1_TFBS_Kr
3R	12588668	3R_12588668_SNP [dm3] 3R_16762946_SNP [dm6]	T	C	8.829e^-6	0.528	DOWNSTREAM tre-3 & 1 other INTRON bxd	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_HSA
3R	17879485	3R_17879485_DEL [dm3] 3R_22053763_DEL [dm6]	TGA	T	9.663e^-6	0.528	INTRON how
3R	17879508	3R_17879508_SNP [dm3] 3R_22053786_SNP [dm6]	C	G	9.703e^-6	0.528	INTRON how	TF binding site BDTNP1_TFBS_dl
2R	10483150	2R_10483150_SNP [dm3] 2R_14595645_SNP [dm6]	A	G	9.725e^-6	0.528	UTR_3_PRIME RpI1 DOWNSTREAM CG12869	TF binding site mE1_TFBS_cad mE1_TFBS_HSA
2R	9277841	2R_9277841_SNP [dm3] 2R_13390336_SNP [dm6]	A	G	9.770e^-6	0.528	SYNONYMOUS_CODING CG43691
3R	12590423	3R_12590423_SNP [dm3] 3R_16764701_SNP [dm6]	A	T	9.855e^-6	0.528	UPSTREAM tre-3 DOWNSTREAM tre-1 INTRON bxd EXON tre-2	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_Trl mE1_TFBS_Ubx
2R	10483916	2R_10483916_SNP [dm3] 2R_14596411_SNP [dm6]	C	T	1.069e^-5	0.546	DOWNSTREAM CG12869 INTRON RpI1	TF binding site mE1_TFBS_cad
3R	26088821	3R_26088821_SNP [dm3] 3R_30263099_SNP [dm6]	T	C	1.082e^-5	0.546	INTERGENIC
2R	19540466	2R_19540466_SNP [dm3] 2R_23652943_SNP [dm6]	T	C	1.120e^-5	0.546	SYNONYMOUS_CODING retn	TF binding site BDTNP1_TFBS_dl mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_sens
3R	12590495	3R_12590495_SNP [dm3] 3R_16764773_SNP [dm6]	G	T	1.152e^-5	0.546	DOWNSTREAM tre-1 INTRON bxd EXON tre-2	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_Trl
3R	17879472	3R_17879472_SNP [dm3] 3R_22053750_SNP [dm6]	T	C	1.210e^-5	0.546	INTRON how
3R	17879496	3R_17879496_SNP [dm3] 3R_22053774_SNP [dm6]	A	T	1.265e^-5	0.546	INTRON how
3L	10355353	3L_10355353_SNP [dm3] 3L_10362253_SNP [dm6]	T	A	1.277e^-5	0.546	EXON CR44327	TF binding site BDTNP1_TFBS_dl
3L	3754590	3L_3754590_SNP [dm3] 3L_3754590_SNP [dm6]	T	C	1.279e^-5	0.546	NON_SYNONYMOUS_CODING ppk27 INTRON CG32264
X	9205787	X_9205787_SNP [dm3] X_9311754_SNP [dm6]	G	A	1.280e^-5	0.546	INTERGENIC
3R	12581868	3R_12581868_SNP [dm3] 3R_16756146_SNP [dm6]	G	A	1.310e^-5	0.546	INTRON bxd	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
3R	12588689	3R_12588689_SNP [dm3] 3R_16762967_SNP [dm6]	A	G	1.375e^-5	0.56	DOWNSTREAM tre-3 & 1 other INTRON bxd	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_HSA
3L	11640582	3L_11640582_SNP [dm3] 3L_11647482_SNP [dm6]	C	G	1.403e^-5	0.56	SYNONYMOUS_CODING RIOK1	TF binding site mE1_TFBS_sens
3R	23505699	3R_23505699_SNP [dm3] 3R_27679977_SNP [dm6]	T	A	1.461e^-5	0.565	UTR_3_PRIME CG12883 DOWNSTREAM CG5590 & 1 other	TF binding site mE1_TFBS_HSA
X	14643794	X_14643794_SNP [dm3] X_14749761_SNP [dm6]	G	A	1.476e^-5	0.565	UPSTREAM NetB INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_bab1 mE1_TFBS_HSA mE1_TFBS_Trl mE1_TFBS_zfh1
2L	17711141	2L_17711141_SNP [dm3] 2L_17711141_SNP [dm6]	T	C	1.585e^-5	0.576	INTRON CadN	TF binding site mE1_TFBS_sbb
3R	20998498	3R_20998498_SNP [dm3] 3R_25172776_SNP [dm6]	A	T	1.597e^-5	0.576	INTRON lobo	TF binding site BDTNP1_TFBS_bcd 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_D mE1_TFBS_HSA mE1_TFBS_Kr
3R	22950351	3R_22950351_SNP [dm3] 3R_27124629_SNP [dm6]	G	T	1.619e^-5	0.576	UTR_5_PRIME CG6059 DOWNSTREAM CG6051	TF binding site mE1_TFBS_cad
3L	3848469	3L_3848469_SNP [dm3] 3L_3848469_SNP [dm6]	T	C	1.664e^-5	0.576	INTRON Awh	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_shn BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_disco mE1_TFBS_HSA
3R	14700750	3R_14700750_SNP [dm3] 3R_18875028_SNP [dm6]	C	G	1.687e^-5	0.576	UPSTREAM CG14298 INTERGENIC
3R	16867238	3R_16867238_SNP [dm3] 3R_21041516_SNP [dm6]	G	A	1.708e^-5	0.576	INTRON Dhc93AB	TF binding site mE1_TFBS_cad
3R	15399259	3R_15399259_SNP [dm3] 3R_19573537_SNP [dm6]	G	A	1.757e^-5	0.576	INTRON Dys
3L	11640552	3L_11640552_SNP [dm3] 3L_11647452_SNP [dm6]	C	T	1.790e^-5	0.576	SYNONYMOUS_CODING RIOK1	TF binding site mE1_TFBS_sens
3R	22000418	3R_22000418_SNP [dm3] 3R_26174696_SNP [dm6]	G	A	1.824e^-5	0.576	INTRON CG31323
2L	21901118	2L_21901118_SNP [dm3] 2L_21901118_SNP [dm6]	A	G	1.827e^-5	0.576	INTERGENIC
3L	11640621	3L_11640621_SNP [dm3] 3L_11647521_SNP [dm6]	T	G	1.877e^-5	0.576	SYNONYMOUS_CODING RIOK1	TF binding site mE1_TFBS_sens
3L	11640561	3L_11640561_SNP [dm3] 3L_11647461_SNP [dm6]	C	T	1.885e^-5	0.576	SYNONYMOUS_CODING RIOK1	TF binding site mE1_TFBS_sens
3R	12590950	3R_12590950_SNP [dm3] 3R_16765228_SNP [dm6]	G	A	1.905e^-5	0.576	UPSTREAM tre-2 DOWNSTREAM tre-1 INTRON bxd	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_HSA mE1_TFBS_Ubx
2L	10179297	2L_10179297_SNP [dm3] 2L_10179297_SNP [dm6]	C	T	1.974e^-5	0.587	INTRON CG44153
3L	10814142	3L_10814142_SNP [dm3] 3L_10821042_SNP [dm6]	A	C	2.004e^-5	0.587	INTERGENIC
2R	602938	2R_602938_INS [dm3] 2R_4715433_INS [dm6]	A	ATTTAAGCGA	2.048e^-5	0.591	INTRON Nipped-B	TF binding site BDTNP1_TFBS_twi mE1_TFBS_HSA transposable element FlyBase
3L	2094525	3L_2094525_SNP [dm3] 3L_2094525_SNP [dm6]	C	T	2.116e^-5	0.593	INTRON sls
3R	4770746	3R_4770746_SNP [dm3] 3R_8945024_SNP [dm6]	A	G	2.134e^-5	0.593	UPSTREAM CG11964 INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med mE1_TFBS_HSA
2R	4552999	2R_4552999_SNP [dm3] 2R_8665494_SNP [dm6]	T	A	2.159e^-5	0.593	UPSTREAM Acsl DOWNSTREAM ptc INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_bab1 mE1_TFBS_HSA mE1_TFBS_Trl
3R	11040490	3R_11040490_SNP [dm3] 3R_15214768_SNP [dm6]	T	G	2.231e^-5	0.593	UTR_3_PRIME CG4210 & 1 other
2L	13851355	2L_13851355_SNP [dm3] 2L_13851355_SNP [dm6]	A	G	2.255e^-5	0.593	INTRON CenG1A	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_eve mE1_TFBS_HSA
3L	11640159	3L_11640159_SNP [dm3] 3L_11647059_SNP [dm6]	T	C	2.264e^-5	0.593	SYNONYMOUS_CODING RIOK1	TF binding site mE1_TFBS_sens
3R	22987040	3R_22987040_SNP [dm3] 3R_27161318_SNP [dm6]	C	T	2.276e^-5	0.593	UTR_5_PRIME CG5909
3L	2094832	3L_2094832_SNP [dm3] 3L_2094832_SNP [dm6]	T	C	2.358e^-5	0.598	SYNONYMOUS_CODING sls
X	5399926	X_5399926_SNP [dm3] X_5505893_SNP [dm6]	A	G	2.362e^-5	0.598	UPSTREAM CR45519 INTERGENIC
3L	15995416	3L_15995416_SNP [dm3] 3L_16002316_SNP [dm6]	C	T	2.389e^-5	0.598	INTRON CG5830	TF binding site BDTNP1_TFBS_hb
3R	22000446	3R_22000446_SNP [dm3] 3R_26174724_SNP [dm6]	C	A	2.422e^-5	0.598	INTRON CG31323
2R	8441693	2R_8441693_SNP [dm3] 2R_12554188_SNP [dm6]	A	T	2.477e^-5	0.598	INTRON fra	TF binding site BDTNP1_TFBS_da mE1_TFBS_HSA mE1_TFBS_Kr
3L	13376315	3L_13376315_SNP [dm3] 3L_13383215_SNP [dm6]	T	C	2.485e^-5	0.598	SYNONYMOUS_CODING ImpL1	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
3L	11640624	3L_11640624_SNP [dm3] 3L_11647524_SNP [dm6]	T	C	2.524e^-5	0.598	SYNONYMOUS_CODING RIOK1	TF binding site mE1_TFBS_sens
3R	15958246	3R_15958246_DEL [dm3] 3R_20132524_DEL [dm6]	GCG	G	2.583e^-5	0.598	INTERGENIC
3R	15399561	3R_15399561_SNP [dm3] 3R_19573839_SNP [dm6]	G	A	2.628e^-5	0.598	INTRON Dys
2R	4553206	2R_4553206_SNP [dm3] 2R_8665701_SNP [dm6]	C	T	2.636e^-5	0.598	UPSTREAM Acsl DOWNSTREAM ptc INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_bab1 mE1_TFBS_D mE1_TFBS_HSA mE1_TFBS_Trl
3R	15245807	3R_15245807_SNP [dm3] 3R_19420085_SNP [dm6]	C	A	2.648e^-5	0.598	INTRON CG31221
3L	11640789	3L_11640789_SNP [dm3] 3L_11647689_SNP [dm6]	T	C	2.727e^-5	0.607	SYNONYMOUS_CODING RIOK1	TF binding site mE1_TFBS_sens
3L	16483188	3L_16483188_SNP [dm3] 3L_16490088_SNP [dm6]	G	A	2.767e^-5	0.607	INTRON CG33158	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_sens
3L	11640156	3L_11640156_SNP [dm3] 3L_11647056_SNP [dm6]	A	C	2.799e^-5	0.607	SYNONYMOUS_CODING RIOK1	TF binding site mE1_TFBS_sens
3R	12080007	3R_12080007_SNP [dm3] 3R_16254285_SNP [dm6]	G	A	2.840e^-5	0.607	INTRON tara	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi
2R	17644807	2R_17644807_SNP [dm3] 2R_21757302_SNP [dm6]	G	T	2.878e^-5	0.607	UPSTREAM Grx-1 INTERGENIC
2R	6395315	2R_6395315_DEL [dm3] 2R_10507810_DEL [dm6]	TT	T	2.885e^-5	0.607	UTR_3_PRIME lola INTRON lola
3R	19547001	3R_19547001_SNP [dm3] 3R_23721279_SNP [dm6]	A	C	2.964e^-5	0.607	INTRON CG10232
3R	18335711	3R_18335711_SNP [dm3] 3R_22509989_SNP [dm6]	G	T	2.971e^-5	0.607	SYNONYMOUS_CODING Octbeta1R
3L	14145749	3L_14145749_SNP [dm3] 3L_14152649_SNP [dm6]	T	A	2.979e^-5	0.607	INTERGENIC	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_gt BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_shn BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_D mE1_TFBS_HSA
2L	6976977	2L_6976977_SNP [dm3] 2L_6976977_SNP [dm6]	C	T	3.139e^-5	0.633	SYNONYMOUS_CODING uif	TF binding site BDTNP1_TFBS_sna mE1_TFBS_cad mE1_TFBS_chinmo
3L	13376252	3L_13376252_SNP [dm3] 3L_13383152_SNP [dm6]	C	G	3.275e^-5	0.642	SYNONYMOUS_CODING ImpL1	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
3R	15245856	3R_15245856_SNP [dm3] 3R_19420134_SNP [dm6]	A	C	3.276e^-5	0.642	INTRON CG31221
3L	9132751	3L_9132751_INS [dm3] 3L_9139651_INS [dm6]	A	ACTGTCCAGTTTTA...	3.301e^-5	0.642	INTRON nwk
3R	12591600	3R_12591600_SNP [dm3] 3R_16765878_SNP [dm6]	C	A	3.319e^-5	0.642	INTRON bxd EXON tre-1	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_Ubx
3L	13375992	3L_13375992_SNP [dm3] 3L_13382892_SNP [dm6]	G	C	3.482e^-5	0.65	NON_SYNONYMOUS_CODING ImpL1 INTRON ImpL1	TF binding site mE1_TFBS_cad
2R	17032719	2R_17032719_SNP [dm3] 2R_21145214_SNP [dm6]	G	A	3.512e^-5	0.65	NON_SYNONYMOUS_CODING Xbp1 UTR_3_PRIME Xbp1 UPSTREAM Hmg-2
3R	11040466	3R_11040466_SNP [dm3] 3R_15214744_SNP [dm6]	T	G	3.519e^-5	0.65	SYNONYMOUS_CODING CG4210 DOWNSTREAM SIDL

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=1.186e^-1)
Null hypothesis is not rejected (p>0.05).
Interpretation: 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	0.004751
In_3R_K	0.034535

Kruskal-Wallis test

Covariate	χ²	p-value
In_2L_t	9.3923	0.0091
In_3R_P	5.33	0.0696
In_3R_K	6.0655	0.0482

PNG PDF

QQplot

PNG PDF

Manhattan plot

GWAS results

2176 significant hits at p-value < 0.001. The 1000 top results are displayed in the table below.

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	12591369	3R_12591369_SNP [dm3] 3R_16765647_SNP [dm6]	C	A	4.839e^-7	0.33	UPSTREAM tre-2 INTRON bxd EXON tre-1	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_Ubx
3R	11603389	3R_11603389_SNP [dm3] 3R_15777667_SNP [dm6]	A	C	5.053e^-7	0.33	DOWNSTREAM CG4525 INTERGENIC
3L	16483188	3L_16483188_SNP [dm3] 3L_16490088_SNP [dm6]	G	A	5.286e^-7	0.33	INTRON CG33158	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_sens
X	9107630	X_9107630_SNP [dm3] X_9213597_SNP [dm6]	A	C	1.133e^-6	0.473	INTERGENIC
3R	11603420	3R_11603420_SNP [dm3] 3R_15777698_SNP [dm6]	A	T	1.286e^-6	0.473	DOWNSTREAM CG4525 INTERGENIC
3L	2094525	3L_2094525_SNP [dm3] 3L_2094525_SNP [dm6]	C	T	1.512e^-6	0.473	INTRON sls
3R	11967326	3R_11967326_INS [dm3] 3R_16141604_INS [dm6]	G	GG	2.163e^-6	0.58	INTRON Sb	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
3R	12590912	3R_12590912_SNP [dm3] 3R_16765190_SNP [dm6]	G	A	3.336e^-6	0.608	UPSTREAM tre-2 DOWNSTREAM tre-1 INTRON bxd	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_HSA mE1_TFBS_Ubx
3L	16483138	3L_16483138_SNP [dm3] 3L_16490038_SNP [dm6]	T	G	3.342e^-6	0.608	INTRON CG33158	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_sens
3R	15393934	3R_15393934_SNP [dm3] 3R_19568212_SNP [dm6]	A	G	3.976e^-6	0.608	UPSTREAM Dys INTRON Dys	TF binding site BDTNP1_TFBS_z
3L	16483145	3L_16483145_SNP [dm3] 3L_16490045_SNP [dm6]	C	T	4.043e^-6	0.608	INTRON CG33158	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_sens
3R	15393938	3R_15393938_SNP [dm3] 3R_19568216_SNP [dm6]	A	T	4.343e^-6	0.608	UPSTREAM Dys INTRON Dys	TF binding site BDTNP1_TFBS_z
3R	12590494	3R_12590494_SNP [dm3] 3R_16764772_SNP [dm6]	G	T	4.408e^-6	0.608	DOWNSTREAM tre-1 INTRON bxd EXON tre-2	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_Trl
3L	16483144	3L_16483144_SNP [dm3] 3L_16490044_SNP [dm6]	A	C	4.784e^-6	0.608	INTRON CG33158	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_sens
2L	10179297	2L_10179297_SNP [dm3] 2L_10179297_SNP [dm6]	C	T	4.986e^-6	0.608	INTRON CG44153
X	3085586	X_3085586_SNP [dm3] X_3191553_SNP [dm6]	C	T	5.360e^-6	0.608	INTRON dnc	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_z mE1_TFBS_HSA mE1_TFBS_Trl
3R	8384777	3R_8384777_SNP [dm3] 3R_12559055_SNP [dm6]	G	A	5.722e^-6	0.608	INTRON Octbeta2R
3R	12590079	3R_12590079_SNP [dm3] 3R_16764357_SNP [dm6]	G	T	5.836e^-6	0.608	UPSTREAM tre-3 INTRON bxd EXON tre-2	regulatory region REDfly_CRMs silencer mE1_HDAC_PRE TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_ftz BDTNP1_TFBS_hb BDTNP1_TFBS_kni BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_cnc mE1_TFBS_eve mE1_TFBS_HSA mE1_TFBS_kn mE1_TFBS_sens mE1_TFBS_Trl mE1_TFBS_Ubx
3L	2094832	3L_2094832_SNP [dm3] 3L_2094832_SNP [dm6]	T	C	6.657e^-6	0.612	SYNONYMOUS_CODING sls
3R	13784701	3R_13784701_SNP [dm3] 3R_17958979_SNP [dm6]	C	T	6.714e^-6	0.612	INTRON cpo
3R	11898025	3R_11898025_SNP [dm3] 3R_16072303_SNP [dm6]	G	A	6.853e^-6	0.612	UPSTREAM Mhcl INTRON Mhcl	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_Trl
2R	9277841	2R_9277841_SNP [dm3] 2R_13390336_SNP [dm6]	A	G	7.421e^-6	0.63	SYNONYMOUS_CODING CG43691
3R	22950351	3R_22950351_SNP [dm3] 3R_27124629_SNP [dm6]	G	T	7.876e^-6	0.63	UTR_5_PRIME CG6059 DOWNSTREAM CG6051	TF binding site mE1_TFBS_cad
3L	10355353	3L_10355353_SNP [dm3] 3L_10362253_SNP [dm6]	T	A	8.329e^-6	0.63	EXON CR44327	TF binding site BDTNP1_TFBS_dl
3R	11897665	3R_11897665_SNP [dm3] 3R_16071943_SNP [dm6]	A	C	8.401e^-6	0.63	UTR_5_PRIME Mhcl INTRON Mhcl	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_eve mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_Trl
3R	15153994	3R_15153994_SNP [dm3] 3R_19328272_SNP [dm6]	T	A	8.809e^-6	0.635	UPSTREAM CR44175 INTERGENIC
3L	2265280	3L_2265280_SNP [dm3] 3L_2265280_SNP [dm6]	G	A	9.516e^-6	0.642	SYNONYMOUS_CODING ecd	TF binding site BDTNP1_TFBS_dl mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_sens
3L	16483131	3L_16483131_SNP [dm3] 3L_16490031_SNP [dm6]	C	A	9.710e^-6	0.642	INTRON CG33158	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_sens
2L	13873658	2L_13873658_SNP [dm3] 2L_13873658_SNP [dm6]	C	T	9.925e^-6	0.642	INTRON CenG1A
2L	18387264	2L_18387264_SNP [dm3] 2L_18387264_SNP [dm6]	A	C	1.110e^-5	0.694	DOWNSTREAM Fas3 INTRON Fas3
3R	12591125	3R_12591125_SNP [dm3] 3R_16765403_SNP [dm6]	G	A	1.194e^-5	0.722	UPSTREAM tre-2 DOWNSTREAM tre-1 INTRON bxd	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_HSA mE1_TFBS_Ubx
2L	7669095	2L_7669095_SNP [dm3] 2L_7669095_SNP [dm6]	C	G	1.359e^-5	0.743	INTRON Slob & 1 other
3R	12590937	3R_12590937_SNP [dm3] 3R_16765215_SNP [dm6]	A	C	1.368e^-5	0.743	UPSTREAM tre-2 DOWNSTREAM tre-1 INTRON bxd	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_HSA mE1_TFBS_Ubx
2L	13866153	2L_13866153_SNP [dm3] 2L_13866153_SNP [dm6]	A	T	1.412e^-5	0.743	INTRON CenG1A EXON CR44848	TF binding site BDTNP1_TFBS_dl mE1_TFBS_eve mE1_TFBS_HSA mE1_TFBS_Kr
3L	3754590	3L_3754590_SNP [dm3] 3L_3754590_SNP [dm6]	T	C	1.429e^-5	0.743	NON_SYNONYMOUS_CODING ppk27 INTRON CG32264
3R	26353092	3R_26353092_SNP [dm3] 3R_30527370_SNP [dm6]	A	T	1.434e^-5	0.743	UPSTREAM jdp DOWNSTREAM CR45552 INTERGENIC
2L	13866074	2L_13866074_SNP [dm3] 2L_13866074_SNP [dm6]	A	T	1.466e^-5	0.743	INTRON CenG1A EXON CR44848	TF binding site BDTNP1_TFBS_dl mE1_TFBS_eve mE1_TFBS_HSA mE1_TFBS_Kr
2L	13851355	2L_13851355_SNP [dm3] 2L_13851355_SNP [dm6]	A	G	1.539e^-5	0.745	INTRON CenG1A	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_eve mE1_TFBS_HSA
3R	4770746	3R_4770746_SNP [dm3] 3R_8945024_SNP [dm6]	A	G	1.602e^-5	0.745	UPSTREAM CG11964 INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med mE1_TFBS_HSA
3R	12590482	3R_12590482_SNP [dm3] 3R_16764760_SNP [dm6]	T	C	1.634e^-5	0.745	DOWNSTREAM tre-1 INTRON bxd EXON tre-2	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_Trl
3L	9132751	3L_9132751_INS [dm3] 3L_9139651_INS [dm6]	A	ACTGTCCAGTTTTA...	1.648e^-5	0.745	INTRON nwk
3R	12588668	3R_12588668_SNP [dm3] 3R_16762946_SNP [dm6]	T	C	1.714e^-5	0.745	DOWNSTREAM tre-3 & 1 other INTRON bxd	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_HSA
3L	3983458	3L_3983458_SNP [dm3] 3L_3983458_SNP [dm6]	T	C	1.737e^-5	0.745	UPSTREAM scrt INTERGENIC	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_Trl
3R	25534216	3R_25534216_SNP [dm3] 3R_29708494_SNP [dm6]	G	A	1.753e^-5	0.745	INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA
2L	13935220	2L_13935220_SNP [dm3] 2L_13935220_SNP [dm6]	A	C	1.820e^-5	0.745	UPSTREAM CG16885 INTRON Ance-3
2L	13935214	2L_13935214_SNP [dm3] 2L_13935214_SNP [dm6]	C	G	1.849e^-5	0.745	UPSTREAM CG16885 INTRON Ance-3
3R	12590423	3R_12590423_SNP [dm3] 3R_16764701_SNP [dm6]	A	T	1.870e^-5	0.745	UPSTREAM tre-3 DOWNSTREAM tre-1 INTRON bxd EXON tre-2	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_Trl mE1_TFBS_Ubx
3R	22984209	3R_22984209_SNP [dm3] 3R_27158487_SNP [dm6]	A	C	1.907e^-5	0.745	DOWNSTREAM Men-b INTRON grass	TF binding site mE1_TFBS_chinmo mE1_TFBS_HSA
3R	26547432	3R_26547432_SNP [dm3] 3R_30721710_SNP [dm6]	C	A	2.067e^-5	0.755	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi mE1_TFBS_HSA
2L	1051890	2L_1051890_SNP [dm3] 2L_1051890_SNP [dm6]	C	G	2.085e^-5	0.755	UTR_3_PRIME S	TF binding site mE1_TFBS_cad
3L	16736775	3L_16736775_SNP [dm3] 3L_16743675_SNP [dm6]	T	C	2.186e^-5	0.755	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl mE1_TFBS_eve mE1_TFBS_HSA mE1_TFBS_Kr
2R	17947219	2R_17947219_SNP [dm3] 2R_22059714_SNP [dm6]	C	A	2.192e^-5	0.755	NON_SYNONYMOUS_CODING CG13501	TF binding site mE1_TFBS_chinmo mE1_TFBS_HSA
2R	602938	2R_602938_INS [dm3] 2R_4715433_INS [dm6]	A	ATTTAAGCGA	2.204e^-5	0.755	INTRON Nipped-B	TF binding site BDTNP1_TFBS_twi mE1_TFBS_HSA transposable element FlyBase
2L	9732430	2L_9732430_SNP [dm3] 2L_9732430_SNP [dm6]	C	A	2.264e^-5	0.755	INTRON Nckx30C	TF binding site BDTNP1_TFBS_dl
3R	12588689	3R_12588689_SNP [dm3] 3R_16762967_SNP [dm6]	A	G	2.354e^-5	0.755	DOWNSTREAM tre-3 & 1 other INTRON bxd	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_HSA
3L	2141428	3L_2141428_SNP [dm3] 3L_2141428_SNP [dm6]	G	A	2.401e^-5	0.755	SYNONYMOUS_CODING zormin	TF binding site mE1_TFBS_cad mE1_TFBS_HSA
2R	10483150	2R_10483150_SNP [dm3] 2R_14595645_SNP [dm6]	A	G	2.536e^-5	0.755	UTR_3_PRIME RpI1 DOWNSTREAM CG12869	TF binding site mE1_TFBS_cad mE1_TFBS_HSA
2L	10808623	2L_10808623_SNP [dm3] 2L_10808623_SNP [dm6]	G	T	2.537e^-5	0.755	INTRON Nos
3L	9225765	3L_9225765_SNP [dm3] 3L_9232665_SNP [dm6]	C	A	2.541e^-5	0.755	INTERGENIC
2R	14548798	2R_14548798_SNP [dm3] 2R_18661293_SNP [dm6]	G	A	2.631e^-5	0.755	UTR_5_PRIME Gint3 & 1 other UPSTREAM Gint3 & 1 other	TF binding site BDTNP1_TFBS_dl
3R	12581869	3R_12581869_SNP [dm3] 3R_16756147_SNP [dm6]	T	A	2.669e^-5	0.755	INTRON bxd	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
2L	1053347	2L_1053347_SNP [dm3] 2L_1053347_SNP [dm6]	A	G	2.730e^-5	0.755	INTRON S	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
3R	12589112	3R_12589112_SNP [dm3] 3R_16763390_SNP [dm6]	A	G	2.877e^-5	0.755	DOWNSTREAM tre-2 INTRON bxd EXON tre-3	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_Trl mE1_TFBS_Ubx
3R	12589603	3R_12589603_SNP [dm3] 3R_16763881_SNP [dm6]	C	T	2.881e^-5	0.755	UPSTREAM tre-3 INTRON bxd EXON tre-2	regulatory region REDfly_CRMs silencer mE1_HDAC_PRE TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_ftz BDTNP1_TFBS_hb BDTNP1_TFBS_kni BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_cnc mE1_TFBS_D mE1_TFBS_HSA mE1_TFBS_inv mE1_TFBS_kn mE1_TFBS_sens mE1_TFBS_Trl mE1_TFBS_Ubx
3L	9132732	3L_9132732_SNP [dm3] 3L_9139632_SNP [dm6]	A	T	2.963e^-5	0.755	INTRON nwk
2R	19367793	2R_19367793_SNP [dm3] 2R_23480270_SNP [dm6]	G	T	3.020e^-5	0.755	INTRON CG43795
3R	15399255	3R_15399255_SNP [dm3] 3R_19573533_SNP [dm6]	G	A	3.039e^-5	0.755	INTRON Dys
2R	8870973	2R_8870973_SNP [dm3] 2R_12983468_SNP [dm6]	T	C	3.060e^-5	0.755	INTERGENIC	TF binding site BDTNP1_TFBS_dl
3R	15399259	3R_15399259_SNP [dm3] 3R_19573537_SNP [dm6]	G	A	3.067e^-5	0.755	INTRON Dys
3R	23167640	3R_23167640_SNP [dm3] 3R_27341918_SNP [dm6]	G	A	3.094e^-5	0.755	INTRON CG42534
3L	11641089	3L_11641089_SNP [dm3] 3L_11647989_SNP [dm6]	A	G	3.151e^-5	0.755	SYNONYMOUS_CODING RIOK1 UPSTREAM CG7339	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_sens
3R	11896481	3R_11896481_SNP [dm3] 3R_16070759_SNP [dm6]	C	T	3.164e^-5	0.755	SYNONYMOUS_CODING Mhcl	TF binding site mE1_TFBS_cad mE1_TFBS_sens
3R	22984339	3R_22984339_SNP [dm3] 3R_27158617_SNP [dm6]	T	C	3.374e^-5	0.755	INTRON grass	TF binding site mE1_TFBS_chinmo
2R	8441693	2R_8441693_SNP [dm3] 2R_12554188_SNP [dm6]	A	T	3.400e^-5	0.755	INTRON fra	TF binding site BDTNP1_TFBS_da mE1_TFBS_HSA mE1_TFBS_Kr
3R	26353159	3R_26353159_SNP [dm3] 3R_30527437_SNP [dm6]	A	G	3.457e^-5	0.755	UPSTREAM jdp DOWNSTREAM CR45552 INTERGENIC
2L	13935207	2L_13935207_SNP [dm3] 2L_13935207_SNP [dm6]	T	G	3.505e^-5	0.755	UPSTREAM CG16885 INTRON Ance-3
X	6709973	X_6709973_SNP [dm3] X_6815940_SNP [dm6]	G	T	3.506e^-5	0.755	INTRON iav
3L	2491663	3L_2491663_SNP [dm3] 3L_2491663_SNP [dm6]	C	T	3.521e^-5	0.755	SYNONYMOUS_CODING CG1146 INTRON CG45186	TF binding site mE1_TFBS_chinmo mE1_TFBS_HSA
3L	10700125	3L_10700125_DEL [dm3] 3L_10707025_DEL [dm6]	CA	G	3.599e^-5	0.755	INTERGENIC
3R	26353227	3R_26353227_SNP [dm3] 3R_30527505_SNP [dm6]	C	T	3.600e^-5	0.755	UPSTREAM jdp DOWNSTREAM CR45552 INTERGENIC
3L	11640552	3L_11640552_SNP [dm3] 3L_11647452_SNP [dm6]	C	T	3.665e^-5	0.755	SYNONYMOUS_CODING RIOK1	TF binding site mE1_TFBS_sens
2L	13954546	2L_13954546_SNP [dm3] 2L_13954546_SNP [dm6]	G	T	3.681e^-5	0.755	INTRON Ance-3
3R	18188513	3R_18188513_SNP [dm3] 3R_22362791_SNP [dm6]	G	T	3.719e^-5	0.755	START_GAINED Muted & 1 other UTR_5_PRIME Muted & 1 other UPSTREAM CG7071 & 2 others	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_Trl mE1_TFBS_Ubx
2L	13934071	2L_13934071_SNP [dm3] 2L_13934071_SNP [dm6]	C	G	3.791e^-5	0.755	INTRON Ance-3 & 1 other	TF binding site mE1_TFBS_cad
X	20474238	X_20474238_SNP [dm3] X_20603211_SNP [dm6]	T	A	3.809e^-5	0.755	INTRON RunxA
3L	9462385	3L_9462385_SNP [dm3] 3L_9469285_SNP [dm6]	T	C	3.841e^-5	0.755	INTRON CG44838	TF binding site BDTNP1_TFBS_dl
3R	12581868	3R_12581868_SNP [dm3] 3R_16756146_SNP [dm6]	G	A	3.963e^-5	0.755	INTRON bxd	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
3R	11674396	3R_11674396_SNP [dm3] 3R_15848674_SNP [dm6]	G	T	4.013e^-5	0.755	DOWNSTREAM CG4546 INTRON cv-d
2L	13934087	2L_13934087_SNP [dm3] 2L_13934087_SNP [dm6]	C	T	4.083e^-5	0.755	INTRON Ance-3 & 1 other	TF binding site mE1_TFBS_cad
3R	20273463	3R_20273463_SNP [dm3] 3R_24447741_SNP [dm6]	G	A	4.103e^-5	0.755	INTRON nAChRalpha1
3L	11642015	3L_11642015_SNP [dm3] 3L_11648915_SNP [dm6]	C	T	4.105e^-5	0.755	SYNONYMOUS_CODING CG7339 UPSTREAM RIOK1	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_Ubx
3L	3920223	3L_3920223_SNP [dm3] 3L_3920223_SNP [dm6]	C	T	4.136e^-5	0.755	INTRON Eip63F-1
3R	9840977	3R_9840977_SNP [dm3] 3R_14015255_SNP [dm6]	A	G	4.155e^-5	0.755	INTRON rdx
3R	14169042	3R_14169042_SNP [dm3] 3R_18343320_SNP [dm6]	T	C	4.177e^-5	0.755	INTRON CG15803
3L	11640561	3L_11640561_SNP [dm3] 3L_11647461_SNP [dm6]	C	T	4.179e^-5	0.755	SYNONYMOUS_CODING RIOK1	TF binding site mE1_TFBS_sens
3L	10699554	3L_10699554_SNP [dm3] 3L_10706454_SNP [dm6]	T	A	4.214e^-5	0.755	INTERGENIC
3L	1789388	3L_1789388_SNP [dm3] 3L_1789388_SNP [dm6]	C	A	4.261e^-5	0.755	DOWNSTREAM dlt INTRON alpha-Spec
2L	17710653	2L_17710653_SNP [dm3] 2L_17710653_SNP [dm6]	A	T	4.383e^-5	0.755	INTRON CadN	TF binding site mE1_TFBS_HSA mE1_TFBS_sbb
3L	11640582	3L_11640582_SNP [dm3] 3L_11647482_SNP [dm6]	C	G	4.421e^-5	0.755	SYNONYMOUS_CODING RIOK1	TF binding site mE1_TFBS_sens
3L	11640621	3L_11640621_SNP [dm3] 3L_11647521_SNP [dm6]	T	G	4.455e^-5	0.755	SYNONYMOUS_CODING RIOK1	TF binding site mE1_TFBS_sens

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By genomic position
Variant impact
Gene name

mn_StartleResp_CTRL 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