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=6.617e^-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	0.08831

Kruskal-Wallis test
No significant result.

PNG PDF

QQplot

PNG PDF

Manhattan plot

GWAS results

2250 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

Show entries

Search:

Chromosome	Position	ID	Reference	Variant	p-value	FDR_BH	Transcript annotation	Binding site annotation
2L	3638900	2L_3638900_DEL [dm3] 2L_3638900_DEL [dm6]	AATAA	A	9.989e^-7	0.428	INTRON for	TF binding site mE1_TFBS_chinmo mE1_TFBS_HSA
3L	3910709	3L_3910709_SNP [dm3] 3L_3910709_SNP [dm6]	G	T	1.340e^-6	0.428	UTR_3_PRIME Eip63F-1 UPSTREAM mge DOWNSTREAM Eip63F-1
X	12929494	X_12929494_SNP [dm3] X_13035461_SNP [dm6]	A	G	1.582e^-6	0.428	INTRON rad
X	12929532	X_12929532_SNP [dm3] X_13035499_SNP [dm6]	G	A	1.670e^-6	0.428	INTRON rad
X	9459739	X_9459739_SNP [dm3] X_9565706_SNP [dm6]	C	A	1.680e^-6	0.428	SYNONYMOUS_CODING Cubn
X	12929483	X_12929483_SNP [dm3] X_13035450_SNP [dm6]	C	A	1.788e^-6	0.428	INTRON rad
2L	3154459	2L_3154459_SNP [dm3] 2L_3154459_SNP [dm6]	A	T	1.823e^-6	0.428	INTRON Mad
2R	14991552	2R_14991552_SNP [dm3] 2R_19104047_SNP [dm6]	T	C	1.828e^-6	0.428	INTRON 5-HT1A
X	12929562	X_12929562_SNP [dm3] X_13035529_SNP [dm6]	T	A	2.921e^-6	0.515	INTRON rad
3L	16570715	3L_16570715_SNP [dm3] 3L_16577615_SNP [dm6]	C	G	3.049e^-6	0.515	NON_SYNONYMOUS_CODING nxf2 DOWNSTREAM mbf1	transposable element FlyBase
3L	16570632	3L_16570632_SNP [dm3] 3L_16577532_SNP [dm6]	T	C	3.156e^-6	0.515	NON_SYNONYMOUS_CODING nxf2 DOWNSTREAM mbf1	transposable element FlyBase
3R	20551315	3R_20551315_DEL [dm3] 3R_24725593_DEL [dm6]	CA	C	3.295e^-6	0.515	INTRON tok	TF binding site BDTNP1_TFBS_dl
X	12929518	X_12929518_INS [dm3] X_13035485_INS [dm6]	T	TT	3.700e^-6	0.534	INTRON rad
X	5251346	X_5251346_SNP [dm3] X_5357313_SNP [dm6]	G	A	6.405e^-6	0.814	UPSTREAM SK INTRON SK
2L	939164	2L_939164_SNP [dm3] 2L_939164_SNP [dm6]	T	C	6.512e^-6	0.814	INTRON CG4341	TF binding site mE1_TFBS_chinmo
2L	17255468	2L_17255468_SNP [dm3] 2L_17255468_SNP [dm6]	G	T	7.054e^-6	0.818	INTRON beat-IIIc
2L	12249089	2L_12249089_SNP [dm3] 2L_12249089_SNP [dm6]	A	C	8.683e^-6	0.818	INTRON aret
2R	9328321	2R_9328321_SNP [dm3] 2R_13440816_SNP [dm6]	T	C	8.916e^-6	0.818	SYNONYMOUS_CODING cnn	TF binding site mE1_TFBS_cad
2L	7646262	2L_7646262_SNP [dm3] 2L_7646262_SNP [dm6]	T	A	9.092e^-6	0.818	DOWNSTREAM Slob INTRON Slob
3L	16576258	3L_16576258_SNP [dm3] 3L_16583158_SNP [dm6]	C	A	1.141e^-5	0.818	NON_SYNONYMOUS_CODING Rpn12 UPSTREAM CG4169 DOWNSTREAM CR43727	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_cnc mE1_TFBS_h mE1_TFBS_HSA mE1_TFBS_sens
3L	7477102	3L_7477102_SNP [dm3] 3L_7484002_SNP [dm6]	G	C	1.185e^-5	0.818	INTERGENIC
3L	1720452	3L_1720452_SNP [dm3] 3L_1720452_SNP [dm6]	T	C	1.270e^-5	0.818	DOWNSTREAM CG18171 INTRON drpr
3R	24094969	3R_24094969_SNP [dm3] 3R_28269247_SNP [dm6]	A	C	1.278e^-5	0.818	INTERGENIC	TF binding site BDTNP1_TFBS_da
X	9459779	X_9459779_SNP [dm3] X_9565746_SNP [dm6]	G	T	1.306e^-5	0.818	SPLICE_SITE_REGION Cubn INTRON Cubn
2L	2389910	2L_2389910_SNP [dm3] 2L_2389910_SNP [dm6]	A	G	1.325e^-5	0.818	SYNONYMOUS_CODING CG43750
2R	14648346	2R_14648346_SNP [dm3] 2R_18760841_SNP [dm6]	G	A	1.328e^-5	0.818	UPSTREAM Jabba & 1 other INTRON Jabba
X	6451744	X_6451744_SNP [dm3] X_6557711_SNP [dm6]	C	A	1.455e^-5	0.818	NON_SYNONYMOUS_CODING CG34417 INTRON CG34417
2R	12457959	2R_12457959_SNP [dm3] 2R_16570454_SNP [dm6]	T	C	1.481e^-5	0.818	DOWNSTREAM CG4945 INTRON RpS15	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_sens
3L	22419832	3L_22419832_SNP [dm3] 3L_22426732_SNP [dm6]	A	G	1.496e^-5	0.818	INTERGENIC	TF binding site BDTNP1_TFBS_twi
3R	14728302	3R_14728302_SNP [dm3] 3R_18902580_SNP [dm6]	A	T	1.593e^-5	0.818	SYNONYMOUS_CODING CG34284 UPSTREAM CG14294
X	6877763	X_6877763_SNP [dm3] X_6983730_SNP [dm6]	G	C	1.701e^-5	0.818	START_GAINED ogre UTR_5_PRIME ogre UPSTREAM CR44084 INTRON ogre	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_Trl
X	16710047	X_16710047_SNP [dm3] X_16816014_SNP [dm6]	C	T	1.709e^-5	0.818	UPSTREAM CG4829 & 1 other INTRON CG4829
2L	7707923	2L_7707923_SNP [dm3] 2L_7707923_SNP [dm6]	A	G	1.727e^-5	0.818	SYNONYMOUS_CODING Tep3 DOWNSTREAM CR44990
3L	1086740	3L_1086740_SNP [dm3] 3L_1086740_SNP [dm6]	G	A	1.820e^-5	0.818	INTRON bab1
3L	1344895	3L_1344895_SNP [dm3] 3L_1344895_SNP [dm6]	G	A	1.863e^-5	0.818	SYNONYMOUS_CODING Ptp61F	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_sens
2L	11849740	2L_11849740_SNP [dm3] 2L_11849740_SNP [dm6]	A	G	1.868e^-5	0.818	UPSTREAM Mal-B2 DOWNSTREAM Mal-B1 INTRON Pde1c
2R	16863939	2R_16863939_SNP [dm3] 2R_20976434_SNP [dm6]	T	A	1.903e^-5	0.818	UPSTREAM CG9344 INTRON CG34115	TF binding site mE1_TFBS_cad mE1_TFBS_HSA
2L	2076368	2L_2076368_SNP [dm3] 2L_2076368_SNP [dm6]	T	A	1.911e^-5	0.818	INTRON dpr3
3L	11621381	3L_11621381_SNP [dm3] 3L_11628281_SNP [dm6]	G	T	1.952e^-5	0.818	DOWNSTREAM PCID2 INTRON CG18815	TF binding site BDTNP1_TFBS_da mE1_TFBS_HSA
3L	1912355	3L_1912355_SNP [dm3] 3L_1912355_SNP [dm6]	A	C	1.991e^-5	0.818	INTERGENIC
2L	14009777	2L_14009777_SNP [dm3] 2L_14009777_SNP [dm6]	A	T	2.018e^-5	0.818	DOWNSTREAM CG42692 & 1 other INTERGENIC
2L	7646289	2L_7646289_SNP [dm3] 2L_7646289_SNP [dm6]	G	T	2.042e^-5	0.818	DOWNSTREAM Slob INTRON Slob
3R	14728278	3R_14728278_SNP [dm3] 3R_18902556_SNP [dm6]	G	C	2.071e^-5	0.818	SYNONYMOUS_CODING CG34284 UPSTREAM CG14294
3L	14320848	3L_14320848_SNP [dm3] 3L_14327748_SNP [dm6]	C	T	2.111e^-5	0.818	INTRON fz
3L	978878	3L_978878_SNP [dm3] 3L_978878_SNP [dm6]	T	C	2.228e^-5	0.818	INTRON Glut1
3L	18626712	3L_18626712_SNP [dm3] 3L_18633612_SNP [dm6]	G	A	2.279e^-5	0.818	INTRON MYPT-75D
3L	18626744	3L_18626744_SNP [dm3] 3L_18633644_SNP [dm6]	G	T	2.282e^-5	0.818	INTRON MYPT-75D
2L	11849737	2L_11849737_SNP [dm3] 2L_11849737_SNP [dm6]	G	A	2.432e^-5	0.818	UPSTREAM Mal-B2 DOWNSTREAM Mal-B1 INTRON Pde1c
2L	4136103	2L_4136103_SNP [dm3] 2L_4136103_SNP [dm6]	T	G	2.464e^-5	0.818	INTERGENIC
2R	14648374	2R_14648374_SNP [dm3] 2R_18760869_SNP [dm6]	C	T	2.480e^-5	0.818	UTR_5_PRIME Jabba UPSTREAM Jabba & 1 other
2L	14009843	2L_14009843_SNP [dm3] 2L_14009843_SNP [dm6]	T	C	2.650e^-5	0.818	DOWNSTREAM tRNA:Q:34E INTERGENIC
2R	19897692	2R_19897692_SNP [dm3] 2R_24010169_SNP [dm6]	G	A	2.718e^-5	0.818	SYNONYMOUS_CODING Unc-89 INTRON Unc-89	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA mE1_TFBS_sens
3L	13982428	3L_13982428_SNP [dm3] 3L_13989328_SNP [dm6]	G	T	2.737e^-5	0.818	DOWNSTREAM CG9040 INTRON CG17364
2L	11352014	2L_11352014_SNP [dm3] 2L_11352014_SNP [dm6]	G	C	2.740e^-5	0.818	INTERGENIC	regulatory region REDfly_CRMs
3R	27383165	3R_27383165_SNP [dm3] 3R_31557443_SNP [dm6]	A	G	2.886e^-5	0.818	INTRON nyo	TF binding site mE1_TFBS_chinmo mE1_TFBS_HSA
3R	4338778	3R_4338778_SNP [dm3] 3R_8513056_SNP [dm6]	T	C	2.892e^-5	0.818	UPSTREAM Or85c INTERGENIC
3L	2998145	3L_2998145_SNP [dm3] 3L_2998145_SNP [dm6]	T	C	2.933e^-5	0.818	INTERGENIC
X	5251324	X_5251324_DEL [dm3] X_5357291_DEL [dm6]	TAT	T	2.973e^-5	0.818	UPSTREAM SK INTRON SK
2L	11820732	2L_11820732_SNP [dm3] 2L_11820732_SNP [dm6]	G	A	3.009e^-5	0.818	INTRON Pde1c
X	6448608	X_6448608_SNP [dm3] X_6554575_SNP [dm6]	C	T	3.014e^-5	0.818	SYNONYMOUS_CODING CG34417 INTRON CG34417	TF binding site mE1_TFBS_chinmo
2L	14689608	2L_14689608_SNP [dm3] 2L_14689608_SNP [dm6]	A	G	3.029e^-5	0.818	UPSTREAM osp INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA mE1_TFBS_Trl
X	18253604	X_18253604_SNP [dm3] X_18359571_SNP [dm6]	C	T	3.038e^-5	0.818	INTRON CG6106
2L	8370098	2L_8370098_SNP [dm3] 2L_8370098_SNP [dm6]	A	T	3.039e^-5	0.818	UPSTREAM CG17292 DOWNSTREAM CR45341 & 1 other INTERGENIC
3L	9132397	3L_9132397_SNP [dm3] 3L_9139297_SNP [dm6]	T	C	3.096e^-5	0.818	SYNONYMOUS_CODING nwk	TF binding site mE1_TFBS_sens
2L	16165586	2L_16165586_SNP [dm3] 2L_16165586_SNP [dm6]	G	T	3.144e^-5	0.818	UPSTREAM Ca-alpha1D INTERGENIC
3R	4338756	3R_4338756_SNP [dm3] 3R_8513034_SNP [dm6]	A	G	3.203e^-5	0.818	UPSTREAM Or85c INTERGENIC
2R	4887439	2R_4887439_SNP [dm3] 2R_8999934_SNP [dm6]	C	T	3.285e^-5	0.818	INTRON Np
X	18253510	X_18253510_SNP [dm3] X_18359477_SNP [dm6]	C	T	3.344e^-5	0.818	SYNONYMOUS_CODING CG6106
X	5251321	X_5251321_SNP [dm3] X_5357288_SNP [dm6]	A	T	3.348e^-5	0.818	UPSTREAM SK INTRON SK
X	4461691	X_4461691_SNP [dm3] X_4567658_SNP [dm6]	G	A	3.348e^-5	0.818	INTRON CR32773
2L	4178443	2L_4178443_SNP [dm3] 2L_4178443_SNP [dm6]	G	A	3.554e^-5	0.818	INTERGENIC
3R	10668779	3R_10668779_SNP [dm3] 3R_14843057_SNP [dm6]	T	C	3.705e^-5	0.818	INTRON btsz
2R	16863923	2R_16863923_SNP [dm3] 2R_20976418_SNP [dm6]	C	G	3.722e^-5	0.818	UPSTREAM CG9344 INTRON CG34115	TF binding site mE1_TFBS_cad mE1_TFBS_HSA
X	12929574	X_12929574_SNP [dm3] X_13035541_SNP [dm6]	A	G	3.723e^-5	0.818	INTRON rad
X	12929584	X_12929584_SNP [dm3] X_13035551_SNP [dm6]	C	G	3.723e^-5	0.818	INTRON rad
2L	15912630	2L_15912630_SNP [dm3] 2L_15912630_SNP [dm6]	A	T	3.829e^-5	0.818	DOWNSTREAM CR44867 INTRON beat-Ib EXON CR44868	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_z mE1_TFBS_HSA mE1_TFBS_Trl
2L	14376827	2L_14376827_SNP [dm3] 2L_14376827_SNP [dm6]	C	A	3.869e^-5	0.818	INTERGENIC
X	17567743	X_17567743_SNP [dm3] X_17673710_SNP [dm6]	A	G	3.872e^-5	0.818	SYNONYMOUS_CODING chas	TF binding site mE1_TFBS_chinmo mE1_TFBS_HSA mE1_TFBS_sens
X	18968786	X_18968786_SNP [dm3] X_19074753_SNP [dm6]	C	G	3.931e^-5	0.818	INTERGENIC
3L	11662552	3L_11662552_SNP [dm3] 3L_11669452_SNP [dm6]	C	T	3.992e^-5	0.818	INTRON CG32085
X	9459793	X_9459793_INS [dm3] X_9565760_INS [dm6]	G	GTGCACA	4.013e^-5	0.818	INTRON Cubn
3L	11662566	3L_11662566_SNP [dm3] 3L_11669466_SNP [dm6]	C	T	4.122e^-5	0.818	INTRON CG32085
3L	16693889	3L_16693889_SNP [dm3] 3L_16700789_SNP [dm6]	C	T	4.123e^-5	0.818	INTRON Lasp & 1 other
2L	4140925	2L_4140925_SNP [dm3] 2L_4140925_SNP [dm6]	T	G	4.272e^-5	0.818	INTERGENIC
2L	4147037	2L_4147037_SNP [dm3] 2L_4147037_SNP [dm6]	A	T	4.274e^-5	0.818	INTERGENIC
X	9459783	X_9459783_SNP [dm3] X_9565750_SNP [dm6]	G	A	4.303e^-5	0.818	INTRON Cubn
3R	16345013	3R_16345013_SNP [dm3] 3R_20519291_SNP [dm6]	G	A	4.445e^-5	0.818	INTERGENIC
X	4735299	X_4735299_DEL [dm3] X_4841266_DEL [dm6]	ATCGAA	A	4.470e^-5	0.818	UTR_5_PRIME CG42594	TF binding site BDTNP1_TFBS_twi mE1_TFBS_HSA
3L	11662518	3L_11662518_SNP [dm3] 3L_11669418_SNP [dm6]	C	T	4.474e^-5	0.818	INTRON CG32085
X	5251231	X_5251231_SNP [dm3] X_5357198_SNP [dm6]	G	A	4.527e^-5	0.818	INTRON SK
X	4234161	X_4234161_SNP [dm3] X_4340128_SNP [dm6]	T	A	4.559e^-5	0.818	INTRON norpA
3L	11662555	3L_11662555_SNP [dm3] 3L_11669455_SNP [dm6]	G	A	4.595e^-5	0.818	INTRON CG32085
3R	17057951	3R_17057951_SNP [dm3] 3R_21232229_SNP [dm6]	A	G	4.660e^-5	0.818	SYNONYMOUS_CODING e	TF binding site mE1_TFBS_cad
3L	11662509	3L_11662509_SNP [dm3] 3L_11669409_SNP [dm6]	A	G	4.710e^-5	0.818	INTRON CG32085
2R	13214739	2R_13214739_SNP [dm3] 2R_17327234_SNP [dm6]	C	G	4.717e^-5	0.818	INTRON mbl
3L	8730240	3L_8730240_SNP [dm3] 3L_8737140_SNP [dm6]	C	T	4.757e^-5	0.818	SYNONYMOUS_CODING Prm INTRON Prm	TF binding site BDTNP1_TFBS_sna mE1_TFBS_cad
2L	7646312	2L_7646312_SNP [dm3] 2L_7646312_SNP [dm6]	A	C	4.836e^-5	0.818	DOWNSTREAM Slob INTRON Slob
3R	4338745	3R_4338745_SNP [dm3] 3R_8513023_SNP [dm6]	T	A	4.845e^-5	0.818	UPSTREAM Or85c INTERGENIC
X	18329630	X_18329630_SNP [dm3] X_18435597_SNP [dm6]	C	T	4.875e^-5	0.818	DOWNSTREAM CG32548 INTERGENIC
3L	5884764	3L_5884764_SNP [dm3] 3L_5891664_SNP [dm6]	C	T	4.894e^-5	0.818	INTERGENIC

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=6.204e^-3)
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	0.07519
In_3R_P	0.09727

Kruskal-Wallis test

Covariate	χ²	p-value	Significance
In_3R_P	4.7664	0.0923

PNG PDF

QQplot

PNG PDF

Manhattan plot

GWAS results

2119 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
3L	3910709	3L_3910709_SNP [dm3] 3L_3910709_SNP [dm6]	G	T	7.992e^-7	0.824	UTR_3_PRIME Eip63F-1 UPSTREAM mge DOWNSTREAM Eip63F-1
3R	24413164	3R_24413164_SNP [dm3] 3R_28587442_SNP [dm6]	C	T	3.224e^-6	0.824	EXON MRE23	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_dl mE1_TFBS_cad
3L	5849474	3L_5849474_SNP [dm3] 3L_5856374_SNP [dm6]	C	T	3.922e^-6	0.824	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_ftz BDTNP1_TFBS_gt BDTNP1_TFBS_hb BDTNP1_TFBS_Mad BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_shn BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_sens
3L	18010104	3L_18010104_SNP [dm3] 3L_18017004_SNP [dm6]	T	G	4.966e^-6	0.824	INTRON Eip75B	TF binding site BDTNP1_TFBS_dl
3L	8151400	3L_8151400_SNP [dm3] 3L_8158300_SNP [dm6]	A	T	5.052e^-6	0.824	INTRON CG42445
3R	26841834	3R_26841834_SNP [dm3] 3R_31016112_SNP [dm6]	T	C	5.282e^-6	0.824	INTRON 5-HT7
3L	4391130	3L_4391130_SNP [dm3] 3L_4391130_SNP [dm6]	T	G	5.423e^-6	0.824	NON_SYNONYMOUS_CODING slow	TF binding site mE1_TFBS_cad mE1_TFBS_HSA
3R	14184710	3R_14184710_DEL [dm3] 3R_18358988_DEL [dm6]	AA	A	5.538e^-6	0.824	INTRON CG15803
3R	24412989	3R_24412989_SNP [dm3] 3R_28587267_SNP [dm6]	T	C	5.558e^-6	0.824	EXON MRE23	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_Kr
2R	7589745	2R_7589745_SNP [dm3] 2R_11702240_SNP [dm6]	G	T	6.109e^-6	0.824	SYNONYMOUS_CODING Ir48b
3L	20809588	3L_20809588_SNP [dm3] 3L_20816488_SNP [dm6]	G	A	6.622e^-6	0.824	UTR_5_PRIME Pka-R1 UPSTREAM CG3618 DOWNSTREAM Mst77F INTRON Pka-R1	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
3L	18645419	3L_18645419_SNP [dm3] 3L_18652319_SNP [dm6]	T	G	7.489e^-6	0.824	INTRON MYPT-75D
3L	18645429	3L_18645429_SNP [dm3] 3L_18652329_SNP [dm6]	A	C	8.498e^-6	0.824	INTRON MYPT-75D
3L	11599333	3L_11599333_SNP [dm3] 3L_11606233_SNP [dm6]	G	A	9.042e^-6	0.824	DOWNSTREAM CG7368 INTRON CG6091
2R	17424409	2R_17424409_SNP [dm3] 2R_21536904_SNP [dm6]	A	G	1.064e^-5	0.824	UTR_3_PRIME CG30287 UPSTREAM CG30286 INTRON Egfr	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
3R	20232899	3R_20232899_INS [dm3] 3R_24407177_INS [dm6]	C	CCAA	1.077e^-5	0.824	INTRON nAChRalpha1
3L	11599330	3L_11599330_SNP [dm3] 3L_11606230_SNP [dm6]	G	C	1.330e^-5	0.824	DOWNSTREAM CG7368 INTRON CG6091
3L	4537343	3L_4537343_SNP [dm3] 3L_4537343_SNP [dm6]	T	G	1.411e^-5	0.824	NON_SYNONYMOUS_CODING CG11353
3R	24412032	3R_24412032_SNP [dm3] 3R_28586310_SNP [dm6]	C	A	1.555e^-5	0.824	EXON MRE23	regulatory region REDfly_CRMs silencer mE1_HDAC_PRE TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_gt BDTNP1_TFBS_hb BDTNP1_TFBS_kni BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_cnc mE1_TFBS_HSA mE1_TFBS_Kr mE1_TFBS_sens mE1_TFBS_Trl
3R	20231634	3R_20231634_SNP [dm3] 3R_24405912_SNP [dm6]	G	A	1.693e^-5	0.824	INTRON nAChRalpha1
3R	12971257	3R_12971257_SNP [dm3] 3R_17145535_SNP [dm6]	A	C	1.765e^-5	0.824	UTR_3_PRIME m-cup	TF binding site mE1_TFBS_cad
3R	12971260	3R_12971260_DEL [dm3] 3R_17145538_DEL [dm6]	AGGTAAGCATCCTA...	G	1.765e^-5	0.824	UTR_3_PRIME m-cup	TF binding site mE1_TFBS_cad
3R	14180450	3R_14180450_SNP [dm3] 3R_18354728_SNP [dm6]	C	T	1.841e^-5	0.824	NON_SYNONYMOUS_CODING CG15803	TF binding site BDTNP1_TFBS_sna mE1_TFBS_chinmo mE1_TFBS_HSA
X	14825649	X_14825649_SNP [dm3] X_14931616_SNP [dm6]	C	T	1.861e^-5	0.824	INTRON Flo2
3R	25405876	3R_25405876_SNP [dm3] 3R_29580154_SNP [dm6]	A	G	1.911e^-5	0.824	INTERGENIC	TF binding site mE1_TFBS_chinmo
X	8473149	X_8473149_SNP [dm3] X_8579116_SNP [dm6]	A	G	1.920e^-5	0.824	INTRON CG12065
3R	23338745	3R_23338745_SNP [dm3] 3R_27513023_SNP [dm6]	T	A	1.944e^-5	0.824	INTERGENIC
3R	4606495	3R_4606495_SNP [dm3] 3R_8780773_SNP [dm6]	T	C	1.946e^-5	0.824	UTR_5_PRIME CG33189 UPSTREAM CG33191 & 1 other DOWNSTREAM Pif1A INTRON Pif1B & 1 other	TF binding site mE1_TFBS_cad
3L	4641657	3L_4641657_SNP [dm3] 3L_4641657_SNP [dm6]	A	G	1.992e^-5	0.824	DOWNSTREAM axo INTRON axo
3L	22439138	3L_22439138_SNP [dm3] 3L_22446038_SNP [dm6]	G	A	1.996e^-5	0.824	INTERGENIC	TF binding site mE1_TFBS_chinmo
2L	16309372	2L_16309372_SNP [dm3] 2L_16309372_SNP [dm6]	C	G	2.035e^-5	0.824	UTR_3_PRIME cni DOWNSTREAM cni & 1 other
3R	26841839	3R_26841839_SNP [dm3] 3R_31016117_SNP [dm6]	T	A	2.069e^-5	0.824	INTRON 5-HT7
2R	7590443	2R_7590443_SNP [dm3] 2R_11702938_SNP [dm6]	G	A	2.080e^-5	0.824	UPSTREAM Ir48b INTERGENIC
X	9096956	X_9096956_SNP [dm3] X_9202923_SNP [dm6]	C	T	2.129e^-5	0.824	INTERGENIC
2L	8450997	2L_8450997_SNP [dm3] 2L_8450997_SNP [dm6]	T	A	2.179e^-5	0.824	UTR_5_PRIME fu12
X	3792235	X_3792235_SNP [dm3] X_3898202_SNP [dm6]	T	C	2.186e^-5	0.824	INTRON CG42541
2L	698452	2L_698452_SNP [dm3] 2L_698452_SNP [dm6]	C	T	2.207e^-5	0.824	INTRON ds
2L	516236	2L_516236_SNP [dm3] 2L_516236_SNP [dm6]	C	T	2.208e^-5	0.824	INTRON ush	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_dl mE1_TFBS_cad mE1_TFBS_HSA
2L	7646289	2L_7646289_SNP [dm3] 2L_7646289_SNP [dm6]	G	T	2.300e^-5	0.824	DOWNSTREAM Slob INTRON Slob
3L	4274651	3L_4274651_SNP [dm3] 3L_4274651_SNP [dm6]	T	A	2.457e^-5	0.824	INTRON CG1273
2L	8448676	2L_8448676_SNP [dm3] 2L_8448676_SNP [dm6]	G	T	2.474e^-5	0.824	SYNONYMOUS_CODING U26
2L	9770657	2L_9770657_SNP [dm3] 2L_9770657_SNP [dm6]	T	C	2.485e^-5	0.824	DOWNSTREAM ppk16 & 1 other INTRON ppk18
2R	9074877	2R_9074877_SNP [dm3] 2R_13187372_SNP [dm6]	A	T	2.551e^-5	0.824	INTRON seq & 2 others	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_sens
3L	15075556	3L_15075556_SNP [dm3] 3L_15082456_SNP [dm6]	C	T	2.558e^-5	0.824	SYNONYMOUS_CODING cp309
2R	7590353	2R_7590353_SNP [dm3] 2R_11702848_SNP [dm6]	C	T	2.563e^-5	0.824	UPSTREAM Ir48b INTERGENIC
2L	8448106	2L_8448106_SNP [dm3] 2L_8448106_SNP [dm6]	G	A	2.576e^-5	0.824	SYNONYMOUS_CODING U26 UTR_3_PRIME U26	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
2R	7590024	2R_7590024_SNP [dm3] 2R_11702519_SNP [dm6]	G	A	2.685e^-5	0.824	UPSTREAM Ir48b INTERGENIC
X	8834016	X_8834016_SNP [dm3] X_8939983_SNP [dm6]	G	A	2.721e^-5	0.824	INTRON rdgA
2L	588413	2L_588413_SNP [dm3] 2L_588413_SNP [dm6]	T	C	2.725e^-5	0.824	INTRON Gsc	TF binding site BDTNP1_TFBS_dl
3R	9819633	3R_9819633_SNP [dm3] 3R_13993911_SNP [dm6]	A	G	2.733e^-5	0.824	INTRON rdx
2L	7707923	2L_7707923_SNP [dm3] 2L_7707923_SNP [dm6]	A	G	2.736e^-5	0.824	SYNONYMOUS_CODING Tep3 DOWNSTREAM CR44990
3L	1420838	3L_1420838_SNP [dm3] 3L_1420838_SNP [dm6]	G	T	2.892e^-5	0.824	DOWNSTREAM CG9173 INTRON Ptp61F
3L	18010841	3L_18010841_DEL [dm3] 3L_18017741_DEL [dm6]	CAGTAAGAGCTCAC...	C	3.022e^-5	0.824	INTRON Eip75B
2L	2797905	2L_2797905_SNP [dm3] 2L_2797905_SNP [dm6]	A	C	3.023e^-5	0.824	INTRON Syt1 EXON CR43821	TF binding site mE1_TFBS_HSA mE1_TFBS_inv mE1_TFBS_Trl
2L	3154459	2L_3154459_SNP [dm3] 2L_3154459_SNP [dm6]	A	T	3.024e^-5	0.824	INTRON Mad
3L	4443062	3L_4443062_SNP [dm3] 3L_4443062_SNP [dm6]	T	A	3.068e^-5	0.824	INTERGENIC
2L	4178443	2L_4178443_SNP [dm3] 2L_4178443_SNP [dm6]	G	A	3.139e^-5	0.824	INTERGENIC
2L	516246	2L_516246_SNP [dm3] 2L_516246_SNP [dm6]	T	C	3.150e^-5	0.824	INTRON ush	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_dl mE1_TFBS_cad mE1_TFBS_HSA
2L	588419	2L_588419_SNP [dm3] 2L_588419_SNP [dm6]	T	A	3.169e^-5	0.824	INTRON Gsc	TF binding site BDTNP1_TFBS_dl
3L	5726721	3L_5726721_INS [dm3] 3L_5733621_INS [dm6]	T	TG	3.196e^-5	0.824	INTRON sif
3R	17685147	3R_17685147_SNP [dm3] 3R_21859425_SNP [dm6]	T	A	3.315e^-5	0.824	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi
3R	11275275	3R_11275275_SNP [dm3] 3R_15449553_SNP [dm6]	C	A	3.374e^-5	0.824	NON_SYNONYMOUS_CODING AdamTS-A	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
3R	17732025	3R_17732025_SNP [dm3] 3R_21906303_SNP [dm6]	C	G	3.444e^-5	0.824	UTR_3_PRIME CG6678
X	10459766	X_10459766_SNP [dm3] X_10565733_SNP [dm6]	G	C	3.447e^-5	0.824	DOWNSTREAM CG15296 INTRON spri
X	11157328	X_11157328_SNP [dm3] X_11263295_SNP [dm6]	C	T	3.502e^-5	0.824	INTRON CG44422
3L	13142617	3L_13142617_SNP [dm3] 3L_13149517_SNP [dm6]	G	A	3.542e^-5	0.824	INTERGENIC
3L	9245944	3L_9245944_SNP [dm3] 3L_9252844_SNP [dm6]	T	C	3.630e^-5	0.824	INTRON GluRIB
2L	3719764	2L_3719764_SNP [dm3] 2L_3719764_SNP [dm6]	T	A	3.632e^-5	0.824	INTRON Shaw	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
3L	10960679	3L_10960679_DEL [dm3] 3L_10967579_DEL [dm6]	ACGCCATGGTCATGGCATGA...	A	3.709e^-5	0.824	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_chinmo
X	13215523	X_13215523_SNP [dm3] X_13321490_SNP [dm6]	T	G	3.793e^-5	0.824	INTRON IP3K2
3L	4533938	3L_4533938_SNP [dm3] 3L_4533938_SNP [dm6]	A	C	3.857e^-5	0.824	INTRON CG11353
3L	11922753	3L_11922753_SNP [dm3] 3L_11929653_SNP [dm6]	C	T	4.209e^-5	0.824	INTRON CG44837 & 1 other
3R	24251474	3R_24251474_SNP [dm3] 3R_28425752_SNP [dm6]	A	G	4.251e^-5	0.824	INTRON beat-VI
2R	18418701	2R_18418701_SNP [dm3] 2R_22531196_SNP [dm6]	A	C	4.291e^-5	0.824	INTRON px
2R	18418702	2R_18418702_SNP [dm3] 2R_22531197_SNP [dm6]	C	A	4.291e^-5	0.824	INTRON px
3L	2646080	3L_2646080_SNP [dm3] 3L_2646080_SNP [dm6]	C	T	4.323e^-5	0.824	SYNONYMOUS_CODING CG1143	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
3R	22054321	3R_22054321_SNP [dm3] 3R_26228599_SNP [dm6]	C	T	4.352e^-5	0.824	INTERGENIC
3L	10960574	3L_10960574_SNP [dm3] 3L_10967474_SNP [dm6]	T	C	4.376e^-5	0.824	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_cad
3R	2737086	3R_2737086_SNP [dm3] 3R_6911364_SNP [dm6]	C	T	4.425e^-5	0.824	INTRON Antp	TF binding site BDTNP1_TFBS_dl mE1_TFBS_cad mE1_TFBS_sens
3L	1932212	3L_1932212_SNP [dm3] 3L_1932212_SNP [dm6]	A	T	4.462e^-5	0.824	INTRON Dbx	TF binding site mE1_TFBS_chinmo
3L	3070578	3L_3070578_SNP [dm3] 3L_3070578_SNP [dm6]	T	C	4.489e^-5	0.824	UTR_5_PRIME CG32486 UPSTREAM CG11486	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_Trl
3R	11322539	3R_11322539_DEL [dm3] 3R_15496817_DEL [dm6]	TC	T	4.495e^-5	0.824	INTERGENIC
3L	11180875	3L_11180875_SNP [dm3] 3L_11187775_SNP [dm6]	A	T	4.531e^-5	0.824	INTRON GlcAT-P
3L	18134099	3L_18134099_SNP [dm3] 3L_18140999_SNP [dm6]	T	A	4.572e^-5	0.824	INTRON gk
2L	18982355	2L_18982355_SNP [dm3] 2L_18982355_SNP [dm6]	T	C	4.629e^-5	0.824	INTRON Swip-1	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi
3L	4378480	3L_4378480_SNP [dm3] 3L_4378480_SNP [dm6]	T	C	4.823e^-5	0.824	UPSTREAM CR44360 INTRON DopEcR
3L	19399612	3L_19399612_SNP [dm3] 3L_19406512_SNP [dm6]	A	C	4.832e^-5	0.824	DOWNSTREAM CR43966 INTRON CG32206
3L	11168317	3L_11168317_SNP [dm3] 3L_11175217_SNP [dm6]	A	T	4.843e^-5	0.824	INTRON CG14142
X	7622623	X_7622623_SNP [dm3] X_7728590_SNP [dm6]	G	A	4.848e^-5	0.824	UPSTREAM CG12155 & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_cad mE1_TFBS_D mE1_TFBS_HSA mE1_TFBS_Ubx
X	16811509	X_16811509_SNP [dm3] X_16917476_SNP [dm6]	C	A	4.873e^-5	0.824	INTRON CG4928
3R	26359965	3R_26359965_SNP [dm3] 3R_30534243_SNP [dm6]	A	G	5.056e^-5	0.824	INTRON tmod
3L	15000891	3L_15000891_INS [dm3] 3L_15007791_INS [dm6]	T	TAGTTGT	5.073e^-5	0.824	INTRON Reck
X	6890537	X_6890537_SNP [dm3] X_6996504_SNP [dm6]	T	A	5.092e^-5	0.824	INTRON Inx7 EXON CR43837	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_gt BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_Trl
2L	516834	2L_516834_SNP [dm3] 2L_516834_SNP [dm6]	C	G	5.108e^-5	0.824	INTRON ush	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_dl mE1_TFBS_cad mE1_TFBS_Trl
X	14841983	X_14841983_SNP [dm3] X_14947950_SNP [dm6]	A	G	5.156e^-5	0.824	INTRON pdgy	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
3L	22419832	3L_22419832_SNP [dm3] 3L_22426732_SNP [dm6]	A	G	5.238e^-5	0.824	INTERGENIC	TF binding site BDTNP1_TFBS_twi
3L	19424426	3L_19424426_SNP [dm3] 3L_19431326_SNP [dm6]	A	T	5.253e^-5	0.824	INTERGENIC
X	9816859	X_9816859_DEL [dm3] X_9922826_DEL [dm6]	CC	C	5.257e^-5	0.824	INTERGENIC
3L	16531080	3L_16531080_SNP [dm3] 3L_16537980_SNP [dm6]	A	G	5.267e^-5	0.824	INTRON CG43373
3R	22054266	3R_22054266_SNP [dm3] 3R_26228544_SNP [dm6]	C	T	5.269e^-5	0.824	INTERGENIC

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By genomic position
Variant impact
Gene name

Wing_L6_Vein_Length 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