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=7.409e^-6)
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	0.07678
In_3R_K	0.01908

Kruskal-Wallis test

Covariate	χ²	p-value	Significance
In_2L_t	4.7837	0.0915
In_3R_K	8.2719	0.016

PNG PDF

QQplot

PNG PDF

Manhattan plot

GWAS results

2421 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
2L	16581122	2L_16581122_SNP [dm3] 2L_16581122_SNP [dm6]	T	G	2.693e^-8	0.051	INTRON CG42389
3R	16167064	3R_16167064_SNP [dm3] 3R_20341342_SNP [dm6]	A	G	1.418e^-6	0.711	INTRON Ir92a	TF binding site mE1_TFBS_cad
X	12295572	X_12295572_SNP [dm3] X_12401539_SNP [dm6]	T	C	1.879e^-6	0.711	INTERGENIC
2L	3303502	2L_3303502_SNP [dm3] 2L_3303502_SNP [dm6]	C	T	2.175e^-6	0.711	UPSTREAM CG3277 & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_D mE1_TFBS_HSA mE1_TFBS_Trl
2R	9655986	2R_9655986_SNP [dm3] 2R_13768481_SNP [dm6]	G	A	2.479e^-6	0.711	INTERGENIC
2L	19848803	2L_19848803_SNP [dm3] 2L_19848803_SNP [dm6]	G	A	3.042e^-6	0.711	INTRON sick
3R	20830577	3R_20830577_SNP [dm3] 3R_25004855_SNP [dm6]	A	T	3.460e^-6	0.711	INTRON tnc
3R	1946747	3R_1946747_SNP [dm3] 3R_6121025_SNP [dm6]	T	C	3.736e^-6	0.711	INTERGENIC
3R	10244242	3R_10244242_SNP [dm3] 3R_14418520_SNP [dm6]	C	T	4.509e^-6	0.711	UPSTREAM natalisin INTRON cv-c	TF binding site mE1_TFBS_chinmo
3L	2002034	3L_2002034_SNP [dm3] 3L_2002034_SNP [dm6]	A	G	4.595e^-6	0.711	INTERGENIC
3R	20223588	3R_20223588_SNP [dm3] 3R_24397866_SNP [dm6]	G	A	5.903e^-6	0.711	UTR_3_PRIME nAChRalpha1
3L	6610686	3L_6610686_SNP [dm3] 3L_6617586_SNP [dm6]	G	T	6.768e^-6	0.711	INTRON CG8398
2L	6014323	2L_6014323_SNP [dm3] 2L_6014323_SNP [dm6]	G	A	6.835e^-6	0.711	INTRON H2.0
3L	7812474	3L_7812474_SNP [dm3] 3L_7819374_SNP [dm6]	T	G	6.927e^-6	0.711	INTRON Pdp1
3L	7208272	3L_7208272_SNP [dm3] 3L_7215172_SNP [dm6]	A	T	8.718e^-6	0.711	INTERGENIC
2R	1298917	2R_1298917_DEL [dm3] 2R_5411412_DEL [dm6]	TGGCAATAACT...	T	8.979e^-6	0.711	INTERGENIC	transposable element FlyBase
2L	15771494	2L_15771494_SNP [dm3] 2L_15771494_SNP [dm6]	C	T	9.680e^-6	0.711	SYNONYMOUS_CODING CG31826 UPSTREAM Ku80	TF binding site BDTNP1_TFBS_dl mE1_TFBS_D mE1_TFBS_h mE1_TFBS_HSA
3L	10593021	3L_10593021_SNP [dm3] 3L_10599921_SNP [dm6]	A	G	1.032e^-5	0.711	INTERGENIC
3R	19566780	3R_19566780_SNP [dm3] 3R_23741058_SNP [dm6]	C	T	1.148e^-5	0.711	INTRON Hmgcr
2L	5103996	2L_5103996_SNP [dm3] 2L_5103996_SNP [dm6]	T	C	1.166e^-5	0.711	INTRON Msp300
2L	7968714	2L_7968714_SNP [dm3] 2L_7968714_SNP [dm6]	A	T	1.234e^-5	0.711	INTRON Snoo
3R	8667358	3R_8667358_SNP [dm3] 3R_12841636_SNP [dm6]	G	A	1.247e^-5	0.711	UTR_3_PRIME beat-Va DOWNSTREAM beat-Va
3R	10040195	3R_10040195_SNP [dm3] 3R_14214473_SNP [dm6]	A	G	1.302e^-5	0.711	UTR_5_PRIME Dop1R1 DOWNSTREAM CG9649
3R	5655544	3R_5655544_INS [dm3] 3R_9829822_INS [dm6]	T	TTGCTTT	1.336e^-5	0.711	INTRON Teh1
2L	9182925	2L_9182925_SNP [dm3] 2L_9182925_SNP [dm6]	T	C	1.482e^-5	0.711	INTRON tai	TF binding site mE1_TFBS_HSA mE1_TFBS_Trl
2L	8660055	2L_8660055_SNP [dm3] 2L_8660055_SNP [dm6]	A	G	1.501e^-5	0.711	INTRON Sema-1a
2L	20297257	2L_20297257_SNP [dm3] 2L_20297257_SNP [dm6]	G	C	1.518e^-5	0.711	EXON CR43414
2R	1231034	2R_1231034_SNP [dm3] 2R_5343529_SNP [dm6]	T	A	1.552e^-5	0.711	INTERGENIC	TF binding site BDTNP1_TFBS_da mE1_TFBS_HSA transposable element FlyBase
3L	9159906	3L_9159906_SNP [dm3] 3L_9166806_SNP [dm6]	G	T	1.600e^-5	0.711	INTRON Rdl
2R	8916669	2R_8916669_SNP [dm3] 2R_13029164_SNP [dm6]	C	T	1.649e^-5	0.711	INTERGENIC	silencer mE1_HDAC_PRE TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_HSA mE1_TFBS_inv
2L	11750312	2L_11750312_SNP [dm3] 2L_11750312_SNP [dm6]	A	T	1.682e^-5	0.711	INTERGENIC
2R	4294818	2R_4294818_SNP [dm3] 2R_8407313_SNP [dm6]	C	T	1.687e^-5	0.711	INTRON CG2121
2L	4454364	2L_4454364_SNP [dm3] 2L_4454364_SNP [dm6]	A	T	1.721e^-5	0.711	UTR_5_PRIME CG15440 UPSTREAM CG15434 DOWNSTREAM Gs1l	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_h mE1_TFBS_HSA mE1_TFBS_jumu mE1_TFBS_sens
3R	14369191	3R_14369191_SNP [dm3] 3R_18543469_SNP [dm6]	G	T	1.731e^-5	0.711	INTRON fru
3L	9769580	3L_9769580_SNP [dm3] 3L_9776480_SNP [dm6]	C	A	1.741e^-5	0.711	INTRON CG8177
3R	21624591	3R_21624591_SNP [dm3] 3R_25798869_SNP [dm6]	A	T	1.801e^-5	0.711	INTERGENIC
2L	2023006	2L_2023006_SNP [dm3] 2L_2023006_SNP [dm6]	C	A	1.816e^-5	0.711	INTRON CG4238
3R	16167252	3R_16167252_SNP [dm3] 3R_20341530_SNP [dm6]	T	G	1.861e^-5	0.711	INTRON Ir92a
2L	1058162	2L_1058162_DEL [dm3] 2L_1058162_DEL [dm6]	TGATTGCAAGCCGAT...	T	1.880e^-5	0.711	INTRON S	TF binding site mE1_TFBS_hkb mE1_TFBS_HSA
3R	21624581	3R_21624581_SNP [dm3] 3R_25798859_SNP [dm6]	G	A	1.920e^-5	0.711	INTERGENIC
2R	2450114	2R_2450114_SNP [dm3] 2R_6562609_SNP [dm6]	G	T	1.943e^-5	0.711	INTRON jing	TF binding site mE1_TFBS_cad
2L	4273735	2L_4273735_SNP [dm3] 2L_4273735_SNP [dm6]	T	A	1.994e^-5	0.711	INTERGENIC
2R	1236422	2R_1236422_SNP [dm3] 2R_5348917_SNP [dm6]	G	T	2.010e^-5	0.711	INTERGENIC	transposable element FlyBase
3R	10643738	3R_10643738_SNP [dm3] 3R_14818016_SNP [dm6]	G	A	2.086e^-5	0.711	NON_SYNONYMOUS_CODING btsz UPSTREAM btsz INTRON btsz	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_gt BDTNP1_TFBS_hb BDTNP1_TFBS_Mad 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_sens mE1_TFBS_Trl
2L	9804343	2L_9804343_SNP [dm3] 2L_9804343_SNP [dm6]	T	C	2.087e^-5	0.711	INTRON nAChRalpha6
2L	15771544	2L_15771544_SNP [dm3] 2L_15771544_SNP [dm6]	G	C	2.108e^-5	0.711	UPSTREAM Ku80 INTRON CG31826	TF binding site BDTNP1_TFBS_dl mE1_TFBS_h mE1_TFBS_HSA
2L	16381118	2L_16381118_SNP [dm3] 2L_16381118_SNP [dm6]	T	A	2.145e^-5	0.711	INTERGENIC
2L	14430274	2L_14430274_SNP [dm3] 2L_14430274_SNP [dm6]	T	G	2.197e^-5	0.711	EXON CR44732	TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_gt BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_D mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_sens
2L	16329299	2L_16329299_INS [dm3] 2L_16329299_INS [dm6]	T	TATTATAT	2.254e^-5	0.711	UPSTREAM CG4440 & 1 other INTERGENIC	insulator Insulator_Class_I.mE01 TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
3L	13266197	3L_13266197_SNP [dm3] 3L_13273097_SNP [dm6]	C	A	2.261e^-5	0.711	INTRON caps
2R	14289920	2R_14289920_SNP [dm3] 2R_18402415_SNP [dm6]	A	T	2.262e^-5	0.711	UPSTREAM CR43688 & 1 other DOWNSTREAM GstE3 & 1 other INTERGENIC	TF binding site mE1_TFBS_Trl
2L	8538278	2L_8538278_SNP [dm3] 2L_8538278_SNP [dm6]	C	T	2.325e^-5	0.711	DOWNSTREAM CG17834 INTRON CG17834
3R	9822569	3R_9822569_INS [dm3] 3R_13996847_INS [dm6]	T	TAT	2.343e^-5	0.711	INTRON rdx
2L	20341371	2L_20341371_SNP [dm3] 2L_20341371_SNP [dm6]	T	C	2.381e^-5	0.711	UPSTREAM spir INTRON spir
3R	10244212	3R_10244212_SNP [dm3] 3R_14418490_SNP [dm6]	A	C	2.413e^-5	0.711	UPSTREAM natalisin INTRON cv-c
2L	14851961	2L_14851961_INS [dm3] 2L_14851961_INS [dm6]	A	AATGC	2.429e^-5	0.711	UPSTREAM CG15279 INTERGENIC	TF binding site mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_HSA
2R	14296509	2R_14296509_SNP [dm3] 2R_18409004_SNP [dm6]	G	A	2.439e^-5	0.711	UPSTREAM GstE9 DOWNSTREAM GstE8 & 1 other INTERGENIC
2L	14852148	2L_14852148_SNP [dm3] 2L_14852148_SNP [dm6]	T	A	2.497e^-5	0.711	UPSTREAM CG15279 INTERGENIC	TF binding site mE1_TFBS_bab1 mE1_TFBS_cad
3R	14609346	3R_14609346_SNP [dm3] 3R_18783624_SNP [dm6]	G	A	2.507e^-5	0.711	INTRON CG7720
2L	8001981	2L_8001981_SNP [dm3] 2L_8001981_SNP [dm6]	T	A	2.578e^-5	0.711	INTRON Wwox
2L	14852137	2L_14852137_SNP [dm3] 2L_14852137_SNP [dm6]	A	C	2.610e^-5	0.711	UPSTREAM CG15279 INTERGENIC	TF binding site mE1_TFBS_bab1 mE1_TFBS_cad
2R	14296491	2R_14296491_SNP [dm3] 2R_18408986_SNP [dm6]	T	A	2.673e^-5	0.711	UPSTREAM GstE9 DOWNSTREAM GstE8 & 1 other INTERGENIC
2R	18474864	2R_18474864_SNP [dm3] 2R_22587359_SNP [dm6]	G	T	2.686e^-5	0.711	INTRON dnr1
2R	1224969	2R_1224969_DEL [dm3] 2R_5337464_DEL [dm6]	CC	C	2.704e^-5	0.711	INTERGENIC	transposable element FlyBase
3R	26134383	3R_26134383_SNP [dm3] 3R_30308661_SNP [dm6]	A	T	2.733e^-5	0.711	INTRON hdc
2L	14852138	2L_14852138_SNP [dm3] 2L_14852138_SNP [dm6]	C	A	2.794e^-5	0.711	UPSTREAM CG15279 INTERGENIC	TF binding site mE1_TFBS_bab1 mE1_TFBS_cad
3L	11032678	3L_11032678_SNP [dm3] 3L_11039578_SNP [dm6]	C	T	2.811e^-5	0.711	INTRON CG43693
3R	13789143	3R_13789143_SNP [dm3] 3R_17963421_SNP [dm6]	G	A	2.847e^-5	0.711	INTRON cpo
3R	24823343	3R_24823343_INS [dm3] 3R_28997621_INS [dm6]	G	GGT	2.870e^-5	0.711	INTRON wat
3L	18214850	3L_18214850_SNP [dm3] 3L_18221750_SNP [dm6]	C	A	2.932e^-5	0.711	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
2L	20297240	2L_20297240_DEL [dm3] 2L_20297240_DEL [dm6]	CCCTGTGCC	A	2.994e^-5	0.711	EXON CR43414
3L	21268313	3L_21268313_SNP [dm3] 3L_21275213_SNP [dm6]	G	T	3.208e^-5	0.711	INTRON AcCoAS
3R	5096048	3R_5096048_DEL [dm3] 3R_9270326_DEL [dm6]	CC	C	3.224e^-5	0.711	DOWNSTREAM Vps16A INTERGENIC
3L	18891220	3L_18891220_SNP [dm3] 3L_18898120_SNP [dm6]	G	A	3.258e^-5	0.711	UPSTREAM RpL26 INTRON CG3902
3R	16069665	3R_16069665_SNP [dm3] 3R_20243943_SNP [dm6]	A	T	3.299e^-5	0.711	INTRON Nlg4	TF binding site BDTNP1_TFBS_sna
3L	10678860	3L_10678860_SNP [dm3] 3L_10685760_SNP [dm6]	A	G	3.365e^-5	0.711	SYNONYMOUS_CODING simj	TF binding site BDTNP1_TFBS_sna mE1_TFBS_chinmo mE1_TFBS_HSA
2L	4454403	2L_4454403_SNP [dm3] 2L_4454403_SNP [dm6]	C	A	3.372e^-5	0.711	UTR_5_PRIME CG15440 UPSTREAM CG15434 DOWNSTREAM Gs1l	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_h mE1_TFBS_HSA mE1_TFBS_jumu mE1_TFBS_sens
2L	13349208	2L_13349208_SNP [dm3] 2L_13349208_SNP [dm6]	C	T	3.456e^-5	0.711	DOWNSTREAM CG9395 & 1 other INTERGENIC
X	18736621	X_18736621_SNP [dm3] X_18842588_SNP [dm6]	T	A	3.551e^-5	0.711	UTR_3_PRIME Pvf1
3L	11445857	3L_11445857_SNP [dm3] 3L_11452757_SNP [dm6]	G	A	3.600e^-5	0.711	INTERGENIC
2L	15771536	2L_15771536_SNP [dm3] 2L_15771536_SNP [dm6]	T	A	3.617e^-5	0.711	UPSTREAM Ku80 INTRON CG31826	TF binding site BDTNP1_TFBS_dl mE1_TFBS_h mE1_TFBS_HSA
2R	8702557	2R_8702557_SNP [dm3] 2R_12815052_SNP [dm6]	G	A	3.636e^-5	0.711	INTERGENIC
3L	18214835	3L_18214835_DEL [dm3] 3L_18221735_DEL [dm6]	AAGATACAGA	A	3.667e^-5	0.711	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
2R	11594130	2R_11594130_SNP [dm3] 2R_15706625_SNP [dm6]	G	T	3.668e^-5	0.711	INTERGENIC
2R	2473529	2R_2473529_SNP [dm3] 2R_6586024_SNP [dm6]	A	G	3.725e^-5	0.711	INTRON jing	TF binding site BDTNP1_TFBS_bcd 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_twi mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_Kr mE1_TFBS_sens
3R	20971364	3R_20971364_SNP [dm3] 3R_25145642_SNP [dm6]	T	C	3.869e^-5	0.711	INTERGENIC
2L	15100020	2L_15100020_SNP [dm3] 2L_15100020_SNP [dm6]	C	T	4.020e^-5	0.711	INTERGENIC	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
3R	5207434	3R_5207434_SNP [dm3] 3R_9381712_SNP [dm6]	A	G	4.066e^-5	0.711	INTRON FER
2L	13935214	2L_13935214_SNP [dm3] 2L_13935214_SNP [dm6]	C	G	4.166e^-5	0.711	UPSTREAM CG16885 INTRON Ance-3
3L	18214890	3L_18214890_SNP [dm3] 3L_18221790_SNP [dm6]	A	G	4.178e^-5	0.711	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_cad mE1_TFBS_HSA
3R	10244193	3R_10244193_SNP [dm3] 3R_14418471_SNP [dm6]	G	A	4.235e^-5	0.711	UPSTREAM natalisin INTRON cv-c
3L	21082051	3L_21082051_SNP [dm3] 3L_21088951_SNP [dm6]	T	G	4.237e^-5	0.711	UTR_5_PRIME CG33285 INTRON ko	regulatory region REDfly_CRMs
2L	14922814	2L_14922814_SNP [dm3] 2L_14922814_SNP [dm6]	G	A	4.417e^-5	0.711	INTRON CG42313
2R	609183	2R_609183_SNP [dm3] 2R_4721678_SNP [dm6]	C	T	4.469e^-5	0.711	INTRON Nipped-B	TF binding site mE1_TFBS_inv transposable element FlyBase
2R	6184017	2R_6184017_SNP [dm3] 2R_10296512_SNP [dm6]	G	C	4.490e^-5	0.711	NON_SYNONYMOUS_CODING CAP INTRON CAP
2R	1237424	2R_1237424_SNP [dm3] 2R_5349919_SNP [dm6]	A	T	4.506e^-5	0.711	UPSTREAM CG10395 INTERGENIC	transposable element FlyBase
2R	14296515	2R_14296515_SNP [dm3] 2R_18409010_SNP [dm6]	A	C	4.547e^-5	0.711	UPSTREAM GstE9 DOWNSTREAM GstE8 & 1 other INTERGENIC
2L	21868256	2L_21868256_SNP [dm3] 2L_21868256_SNP [dm6]	C	T	4.647e^-5	0.711	UPSTREAM CR44919 DOWNSTREAM CR44917 EXON CR44917	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_cad
3R	19300699	3R_19300699_SNP [dm3] 3R_23474977_SNP [dm6]	T	A	4.758e^-5	0.711	INTERGENIC	TF binding site BDTNP1_TFBS_prd
3L	6575514	3L_6575514_DEL [dm3] 3L_6582414_DEL [dm6]	AA	A	4.845e^-5	0.711	INTRON CG18769 & 1 other

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=3.681e^-6)
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	0.024571
In_3R_K	0.001155
In_3R_Mo	0.069026

Kruskal-Wallis test

Covariate	χ²	p-value
In_2L_t	8.5714	0.0138
In_3R_K	8.3352	0.0155
In_3R_Mo	6.2072	0.0449

PNG PDF

QQplot

PNG PDF

Manhattan plot

GWAS results

2209 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	6610686	3L_6610686_SNP [dm3] 3L_6617586_SNP [dm6]	G	T	3.647e^-7	0.498	INTRON CG8398
X	6513837	X_6513837_SNP [dm3] X_6619804_SNP [dm6]	G	C	8.494e^-7	0.498	INTRON pigs
2L	16620673	2L_16620673_SNP [dm3] 2L_16620673_SNP [dm6]	G	T	1.302e^-6	0.498	INTRON CG42389
X	17933478	X_17933478_SNP [dm3] X_18039445_SNP [dm6]	T	G	1.840e^-6	0.498	UTR_5_PRIME Sh
2L	16620567	2L_16620567_SNP [dm3] 2L_16620567_SNP [dm6]	A	G	2.091e^-6	0.498	INTRON CG42389
2R	5357791	2R_5357791_SNP [dm3] 2R_9470286_SNP [dm6]	G	A	2.477e^-6	0.498	INTRON Camta
X	12295572	X_12295572_SNP [dm3] X_12401539_SNP [dm6]	T	C	3.074e^-6	0.498	INTERGENIC
3L	9791124	3L_9791124_SNP [dm3] 3L_9798024_SNP [dm6]	G	A	3.490e^-6	0.498	UPSTREAM Ilp1 & 1 other INTERGENIC
2L	16620588	2L_16620588_SNP [dm3] 2L_16620588_SNP [dm6]	C	T	3.846e^-6	0.498	INTRON CG42389
X	17625919	X_17625919_SNP [dm3] X_17731886_SNP [dm6]	G	A	3.944e^-6	0.498	INTRON CG42684
3R	14173543	3R_14173543_SNP [dm3] 3R_18347821_SNP [dm6]	T	A	3.984e^-6	0.498	INTRON CG15803
2L	16581122	2L_16581122_SNP [dm3] 2L_16581122_SNP [dm6]	T	G	4.152e^-6	0.498	INTRON CG42389
3L	9791112	3L_9791112_SNP [dm3] 3L_9798012_SNP [dm6]	C	T	4.164e^-6	0.498	UPSTREAM Ilp1 & 1 other INTERGENIC
3R	26106746	3R_26106746_SNP [dm3] 3R_30281024_SNP [dm6]	T	C	4.256e^-6	0.498	INTRON hdc	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA
2R	11766803	2R_11766803_SNP [dm3] 2R_15879298_SNP [dm6]	A	T	4.317e^-6	0.498	INTRON sli
3L	2123236	3L_2123236_SNP [dm3] 3L_2123236_SNP [dm6]	G	T	4.461e^-6	0.498	INTRON zormin
3R	1890479	3R_1890479_INS [dm3] 3R_6064757_INS [dm6]	A	AT	4.788e^-6	0.498	INTERGENIC
3L	9791116	3L_9791116_SNP [dm3] 3L_9798016_SNP [dm6]	A	T	4.922e^-6	0.498	UPSTREAM Ilp1 & 1 other INTERGENIC
3R	14173584	3R_14173584_SNP [dm3] 3R_18347862_SNP [dm6]	A	T	5.041e^-6	0.498	INTRON CG15803
X	17625840	X_17625840_INS [dm3] X_17731807_INS [dm6]	T	TATAATATATTATAATATAT...	5.524e^-6	0.518	INTRON CG42684
3L	9791142	3L_9791142_SNP [dm3] 3L_9798042_SNP [dm6]	T	C	6.167e^-6	0.527	UPSTREAM Ilp1 & 1 other INTERGENIC
3L	9791132	3L_9791132_SNP [dm3] 3L_9798032_SNP [dm6]	C	T	6.185e^-6	0.527	UPSTREAM Ilp1 & 1 other INTERGENIC
X	6513855	X_6513855_SNP [dm3] X_6619822_SNP [dm6]	G	A	7.573e^-6	0.618	INTRON pigs
2L	17400969	2L_17400969_SNP [dm3] 2L_17400969_SNP [dm6]	G	A	7.909e^-6	0.618	SYNONYMOUS_CODING CLIP-190	TF binding site mE1_TFBS_HSA
2R	9655986	2R_9655986_SNP [dm3] 2R_13768481_SNP [dm6]	G	A	8.850e^-6	0.639	INTERGENIC
3L	2002034	3L_2002034_SNP [dm3] 3L_2002034_SNP [dm6]	A	G	9.111e^-6	0.639	INTERGENIC
3L	9791120	3L_9791120_SNP [dm3] 3L_9798020_SNP [dm6]	A	G	9.393e^-6	0.639	UPSTREAM Ilp1 & 1 other INTERGENIC
3L	13052088	3L_13052088_DEL [dm3] 3L_13058988_DEL [dm6]	ACAAA	A	9.535e^-6	0.639	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
2L	4294765	2L_4294765_SNP [dm3] 2L_4294765_SNP [dm6]	G	A	1.054e^-5	0.643	INTRON tutl	TF binding site mE1_TFBS_chinmo
2L	9182925	2L_9182925_SNP [dm3] 2L_9182925_SNP [dm6]	T	C	1.077e^-5	0.643	INTRON tai	TF binding site mE1_TFBS_HSA mE1_TFBS_Trl
X	17268953	X_17268953_SNP [dm3] X_17374920_SNP [dm6]	C	T	1.092e^-5	0.643	INTERGENIC
3L	15918281	3L_15918281_SNP [dm3] 3L_15925181_SNP [dm6]	A	C	1.097e^-5	0.643	UPSTREAM sff DOWNSTREAM Pka-C3 INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_Trl
3R	14173589	3R_14173589_SNP [dm3] 3R_18347867_SNP [dm6]	T	C	1.163e^-5	0.643	INTRON CG15803
X	17268932	X_17268932_SNP [dm3] X_17374899_SNP [dm6]	C	T	1.165e^-5	0.643	INTERGENIC
3L	3919520	3L_3919520_SNP [dm3] 3L_3919520_SNP [dm6]	C	T	1.242e^-5	0.661	INTRON Eip63F-1
2R	16851692	2R_16851692_SNP [dm3] 2R_20964187_SNP [dm6]	G	A	1.302e^-5	0.661	INTERGENIC	TF binding site BDTNP1_TFBS_dl
3R	13789143	3R_13789143_SNP [dm3] 3R_17963421_SNP [dm6]	G	A	1.399e^-5	0.661	INTRON cpo
2R	11766821	2R_11766821_SNP [dm3] 2R_15879316_SNP [dm6]	A	T	1.426e^-5	0.661	INTRON sli
3R	26106610	3R_26106610_SNP [dm3] 3R_30280888_SNP [dm6]	C	T	1.486e^-5	0.661	INTRON hdc	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA
3L	8425240	3L_8425240_SNP [dm3] 3L_8432140_SNP [dm6]	G	A	1.520e^-5	0.661	UTR_3_PRIME Cbl DOWNSTREAM Unr
X	17625778	X_17625778_SNP [dm3] X_17731745_SNP [dm6]	G	T	1.526e^-5	0.661	INTRON CG42684
3L	16731463	3L_16731463_INS [dm3] 3L_16738363_INS [dm6]	T	TC	1.550e^-5	0.661	INTRON CG9701	TF binding site mE1_TFBS_sens
2R	18101144	2R_18101144_INS [dm3] 2R_22213639_INS [dm6]	T	TAT	1.608e^-5	0.661	DOWNSTREAM CG11291 INTRON ari-2	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_Trl
X	9242536	X_9242536_SNP [dm3] X_9348503_SNP [dm6]	C	T	1.612e^-5	0.661	INTRON CG34449
X	17625671	X_17625671_SNP [dm3] X_17731638_SNP [dm6]	A	G	1.615e^-5	0.661	INTRON CG42684
X	17626269	X_17626269_DEL [dm3] X_17732236_DEL [dm6]	AAATTAAA	A	1.658e^-5	0.661	INTRON CG42684	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl mE1_TFBS_HSA
3L	13427241	3L_13427241_SNP [dm3] 3L_13434141_SNP [dm6]	A	C	1.738e^-5	0.661	UPSTREAM tRNA:V4:70BCa INTRON CG10713	TF binding site BDTNP1_TFBS_twi mE1_TFBS_HSA
3L	15070666	3L_15070666_SNP [dm3] 3L_15077566_SNP [dm6]	A	G	1.753e^-5	0.661	NON_SYNONYMOUS_CODING Or71a INTRON cp309
X	19875880	X_19875880_SNP [dm3] X_19981847_SNP [dm6]	T	C	1.757e^-5	0.661	INTERGENIC
2R	16850837	2R_16850837_SNP [dm3] 2R_20963332_SNP [dm6]	T	G	1.761e^-5	0.661	INTERGENIC	TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_gt BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_Trl
3R	26083415	3R_26083415_SNP [dm3] 3R_30257693_SNP [dm6]	C	G	1.862e^-5	0.676	INTERGENIC
2R	11766805	2R_11766805_SNP [dm3] 2R_15879300_SNP [dm6]	C	G	1.919e^-5	0.676	INTRON sli
3L	8079688	3L_8079688_SNP [dm3] 3L_8086588_SNP [dm6]	G	A	1.924e^-5	0.676	INTRON Ect4	TF binding site mE1_TFBS_D mE1_TFBS_HSA
3R	1945208	3R_1945208_SNP [dm3] 3R_6119486_SNP [dm6]	T	A	1.947e^-5	0.676	INTERGENIC
3L	13427240	3L_13427240_SNP [dm3] 3L_13434140_SNP [dm6]	G	C	1.985e^-5	0.677	UPSTREAM tRNA:V4:70BCa INTRON CG10713	TF binding site BDTNP1_TFBS_twi mE1_TFBS_HSA
X	17625845	X_17625845_SNP [dm3] X_17731812_SNP [dm6]	G	A	2.090e^-5	0.7	INTRON CG42684
3R	14173629	3R_14173629_SNP [dm3] 3R_18347907_SNP [dm6]	A	T	2.146e^-5	0.706	INTRON CG15803
3L	2265904	3L_2265904_SNP [dm3] 3L_2265904_SNP [dm6]	G	A	2.235e^-5	0.708	UPSTREAM CG13806 & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_slp1 mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_HSA
3R	20332580	3R_20332580_SNP [dm3] 3R_24506858_SNP [dm6]	A	T	2.300e^-5	0.708	INTERGENIC
2R	16748251	2R_16748251_SNP [dm3] 2R_20860746_SNP [dm6]	C	A	2.376e^-5	0.708	INTERGENIC
3L	2265951	3L_2265951_SNP [dm3] 3L_2265951_SNP [dm6]	G	T	2.408e^-5	0.708	UPSTREAM CG13806 & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_slp1 mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_D mE1_TFBS_disco mE1_TFBS_HSA
3L	3518882	3L_3518882_SNP [dm3] 3L_3518882_SNP [dm6]	C	T	2.418e^-5	0.708	INTRON Eip63E
X	9242517	X_9242517_SNP [dm3] X_9348484_SNP [dm6]	T	A	2.436e^-5	0.708	INTRON CG34449
3L	18876986	3L_18876986_SNP [dm3] 3L_18883886_SNP [dm6]	T	C	2.607e^-5	0.708	INTRON CG3961
2L	7968714	2L_7968714_SNP [dm3] 2L_7968714_SNP [dm6]	A	T	2.707e^-5	0.708	INTRON Snoo
3L	2266067	3L_2266067_SNP [dm3] 3L_2266067_SNP [dm6]	A	T	2.724e^-5	0.708	UPSTREAM CG13806 & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_slp1 mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_D mE1_TFBS_disco mE1_TFBS_HSA
X	7245369	X_7245369_SNP [dm3] X_7351336_SNP [dm6]	C	T	2.756e^-5	0.708	INTRON CR44357 & 1 other
3R	19584208	3R_19584208_SNP [dm3] 3R_23758486_SNP [dm6]	T	C	2.767e^-5	0.708	UTR_5_PRIME Hrd3 & 1 other UPSTREAM Plip & 1 other DOWNSTREAM CG10219	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_inv mE1_TFBS_sens mE1_TFBS_Ubx
3L	14355550	3L_14355550_SNP [dm3] 3L_14362450_SNP [dm6]	G	A	2.773e^-5	0.708	INTRON fz
3L	14350320	3L_14350320_SNP [dm3] 3L_14357220_SNP [dm6]	A	G	2.861e^-5	0.708	INTRON fz	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_sna mE1_TFBS_cad mE1_TFBS_HSA
2R	19216523	2R_19216523_SNP [dm3] 2R_23329000_SNP [dm6]	C	A	2.876e^-5	0.708	DOWNSTREAM CG30413 INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
2L	17034800	2L_17034800_SNP [dm3] 2L_17034800_SNP [dm6]	T	A	2.999e^-5	0.708	INTERGENIC
2L	520004	2L_520004_SNP [dm3] 2L_520004_SNP [dm6]	T	C	3.041e^-5	0.708	INTRON ush	regulatory region REDfly_CRMs silencer mE1_HDAC_PRE TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_Med BDTNP1_TFBS_tll BDTNP1_TFBS_twi mE1_TFBS_cad
2R	8547675	2R_8547675_SNP [dm3] 2R_12660170_SNP [dm6]	T	A	3.068e^-5	0.708	UTR_3_PRIME nemy DOWNSTREAM CG8646
3L	3918643	3L_3918643_SNP [dm3] 3L_3918643_SNP [dm6]	A	G	3.078e^-5	0.708	INTRON Eip63F-1
3R	3862288	3R_3862288_SNP [dm3] 3R_8036566_SNP [dm6]	A	T	3.143e^-5	0.708	UTR_3_PRIME unc-45
X	7245395	X_7245395_SNP [dm3] X_7351362_SNP [dm6]	G	A	3.156e^-5	0.708	INTRON CR44357 & 1 other
2L	16056187	2L_16056187_SNP [dm3] 2L_16056187_SNP [dm6]	G	T	3.243e^-5	0.708	INTRON beat-Ia
3L	5824375	3L_5824375_SNP [dm3] 3L_5831275_SNP [dm6]	T	C	3.306e^-5	0.708	INTRON vn	TF binding site BDTNP1_TFBS_da mE1_TFBS_HSA
3L	5824379	3L_5824379_INS [dm3] 3L_5831279_INS [dm6]	C	CCT	3.306e^-5	0.708	INTRON vn	TF binding site BDTNP1_TFBS_da mE1_TFBS_HSA
X	2365030	X_2365030_INS [dm3] X_2470997_INS [dm6]	T	TAGTTTT	3.328e^-5	0.708	UTR_3_PRIME trol UPSTREAM boi	TF binding site mE1_TFBS_Trl
3R	21624469	3R_21624469_SNP [dm3] 3R_25798747_SNP [dm6]	T	C	3.334e^-5	0.708	UPSTREAM CR43847 INTERGENIC
X	5605827	X_5605827_SNP [dm3] X_5711794_SNP [dm6]	A	G	3.337e^-5	0.708	SYNONYMOUS_CODING CG33080 UTR_5_PRIME CG33080
2R	3677295	2R_3677295_SNP [dm3] 2R_7789790_SNP [dm6]	C	T	3.361e^-5	0.708	SYNONYMOUS_CODING CG12825 UPSTREAM CG12824 DOWNSTREAM CanB2
2R	14293879	2R_14293879_SNP [dm3] 2R_18406374_SNP [dm6]	C	T	3.379e^-5	0.708	SYNONYMOUS_CODING GstE6 UPSTREAM GstE7	TF binding site mE1_TFBS_cnc mE1_TFBS_sens mE1_TFBS_Trl
3R	22279814	3R_22279814_SNP [dm3] 3R_26454092_SNP [dm6]	G	A	3.386e^-5	0.708	UTR_3_PRIME CG5447 UPSTREAM CG43117
2L	15803532	2L_15803532_SNP [dm3] 2L_15803532_SNP [dm6]	C	T	3.414e^-5	0.708	INTERGENIC
X	17625854	X_17625854_INS [dm3] X_17731821_INS [dm6]	T	TTAT	3.445e^-5	0.708	INTRON CG42684
3L	18874113	3L_18874113_SNP [dm3] 3L_18881013_SNP [dm6]	G	T	3.481e^-5	0.708	INTRON CG3961	TF binding site mE1_TFBS_cad
3R	11568299	3R_11568299_SNP [dm3] 3R_15742577_SNP [dm6]	A	G	3.543e^-5	0.708	INTERGENIC
2L	14438169	2L_14438169_SNP [dm3] 2L_14438169_SNP [dm6]	T	C	3.544e^-5	0.708	INTERGENIC	TF binding site mE1_TFBS_cad
X	9499586	X_9499586_SNP [dm3] X_9605553_SNP [dm6]	T	C	3.545e^-5	0.708	SYNONYMOUS_CODING Lst8 DOWNSTREAM Aats-lys	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_Ubx
2R	8809439	2R_8809439_SNP [dm3] 2R_12921934_SNP [dm6]	C	A	3.571e^-5	0.708	NON_SYNONYMOUS_CODING NAT1	TF binding site mE1_TFBS_cad mE1_TFBS_sens
X	9500123	X_9500123_SNP [dm3] X_9606090_SNP [dm6]	C	T	3.619e^-5	0.708	UPSTREAM Lst8 DOWNSTREAM Aats-lys INTERGENIC
2L	3535788	2L_3535788_SNP [dm3] 2L_3535788_SNP [dm6]	A	T	3.641e^-5	0.708	INTERGENIC
2R	9366154	2R_9366154_DEL [dm3] 2R_13478649_DEL [dm6]	TATACG	T	3.643e^-5	0.708	DOWNSTREAM CG43192 INTRON arr
3L	14015779	3L_14015779_SNP [dm3] 3L_14022679_SNP [dm6]	G	A	3.704e^-5	0.708	SYNONYMOUS_CODING ptip	TF binding site mE1_TFBS_chinmo
2L	16056191	2L_16056191_SNP [dm3] 2L_16056191_SNP [dm6]	T	A	3.740e^-5	0.708	INTRON beat-Ia
3R	22487082	3R_22487082_SNP [dm3] 3R_26661360_SNP [dm6]	C	G	3.767e^-5	0.708	INTRON beat-VII
3R	17358439	3R_17358439_SNP [dm3] 3R_21532717_SNP [dm6]	T	C	3.774e^-5	0.708	EXON CR43372

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By genomic position
Variant impact
Gene name

mn_NegGeotaxis_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