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=1.021e^-7)
Null Hypothesis is rejected (p<=0.05).
Interpretation: NOT NORMAL distribution of this phenotype

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

ANOVA test

Covariate	p-value	Significance
In_2L_t	0.006130
In_3R_K	0.001328

Kruskal-Wallis test

Covariate	χ²	p-value	Significance
In_2L_t	14.7098	0.0006
In_3R_K	16.1995	0.0003

PNG PDF

QQplot

PNG PDF

Manhattan plot

GWAS results

2718 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	8221792	3R_8221792_SNP [dm3] 3R_12396070_SNP [dm6]	T	G	9.313e^-8	0.108	UPSTREAM CG10096 & 1 other INTRON CG34402 EXON Cyp9f3Psi
3R	11719656	3R_11719656_INS [dm3] 3R_15893934_INS [dm6]	C	CC	1.153e^-7	0.108	INTRON CG14877
2L	13842345	2L_13842345_SNP [dm3] 2L_13842345_SNP [dm6]	G	A	2.920e^-7	0.183	UPSTREAM CG33307 DOWNSTREAM CG33306 INTRON CenG1A	TF binding site mE1_TFBS_bab1
3R	6497116	3R_6497116_SNP [dm3] 3R_10671394_SNP [dm6]	T	A	4.387e^-7	0.206	INTERGENIC
2L	11468264	2L_11468264_SNP [dm3] 2L_11468264_SNP [dm6]	A	G	8.545e^-7	0.269	INTERGENIC
2L	13842350	2L_13842350_DEL [dm3] 2L_13842350_DEL [dm6]	CAAAT	C	1.090e^-6	0.269	UPSTREAM CG33307 DOWNSTREAM CG33306 INTRON CenG1A	TF binding site mE1_TFBS_bab1
2L	11468265	2L_11468265_SNP [dm3] 2L_11468265_SNP [dm6]	C	G	1.126e^-6	0.269	INTERGENIC
2L	11386564	2L_11386564_SNP [dm3] 2L_11386564_SNP [dm6]	A	T	1.172e^-6	0.269	INTERGENIC	regulatory region REDfly_CRMs
2L	13842371	2L_13842371_SNP [dm3] 2L_13842371_SNP [dm6]	A	T	1.519e^-6	0.269	UPSTREAM CG33307 DOWNSTREAM CG33306 INTRON CenG1A	TF binding site mE1_TFBS_bab1
3R	7746312	3R_7746312_SNP [dm3] 3R_11920590_SNP [dm6]	G	A	1.524e^-6	0.269	INTRON Cad87A
X	6409874	X_6409874_SNP [dm3] X_6515841_SNP [dm6]	A	C	1.577e^-6	0.269	INTRON CG42340
2L	11471429	2L_11471429_SNP [dm3] 2L_11471429_SNP [dm6]	C	G	1.919e^-6	0.3	INTERGENIC	TF binding site mE1_TFBS_cad
3R	23121638	3R_23121638_SNP [dm3] 3R_27295916_SNP [dm6]	G	A	2.156e^-6	0.311	SYNONYMOUS_CODING CG3339	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
3R	6272794	3R_6272794_DEL [dm3] 3R_10447072_DEL [dm6]	GAAATTAAGCCCC...	G	2.800e^-6	0.375	INTERGENIC
2L	11449080	2L_11449080_SNP [dm3] 2L_11449080_SNP [dm6]	C	T	3.244e^-6	0.38	INTERGENIC	regulatory region FlyBase REDfly_CRMs TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_gt mE1_TFBS_cad mE1_TFBS_HSA
3L	9793552	3L_9793552_SNP [dm3] 3L_9800452_SNP [dm6]	T	C	3.332e^-6	0.38	DOWNSTREAM Ilp3 & 1 other INTRON CG32052
3R	14298861	3R_14298861_SNP [dm3] 3R_18473139_SNP [dm6]	A	C	3.444e^-6	0.38	INTRON fru
3R	13928058	3R_13928058_SNP [dm3] 3R_18102336_SNP [dm6]	G	A	3.950e^-6	0.412	INTRON sr
2L	10065602	2L_10065602_SNP [dm3] 2L_10065602_SNP [dm6]	C	T	4.444e^-6	0.419	INTRON CG44153	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
2L	11471028	2L_11471028_SNP [dm3] 2L_11471028_SNP [dm6]	A	T	4.584e^-6	0.419	INTERGENIC	TF binding site mE1_TFBS_cad mE1_TFBS_HSA
3R	19894978	3R_19894978_SNP [dm3] 3R_24069256_SNP [dm6]	T	A	5.024e^-6	0.419	INTRON 4EHP
3R	6537736	3R_6537736_SNP [dm3] 3R_10712014_SNP [dm6]	G	A	5.209e^-6	0.419	UPSTREAM CG14689 INTERGENIC
3R	6545546	3R_6545546_SNP [dm3] 3R_10719824_SNP [dm6]	G	T	5.804e^-6	0.419	INTERGENIC
3R	6540118	3R_6540118_SNP [dm3] 3R_10714396_SNP [dm6]	T	C	6.371e^-6	0.419	UPSTREAM CG4073 INTERGENIC
2L	10065565	2L_10065565_SNP [dm3] 2L_10065565_SNP [dm6]	T	A	6.647e^-6	0.419	INTRON CG44153	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
2L	10065597	2L_10065597_INS [dm3] 2L_10065597_INS [dm6]	T	TCGACACTTTTT...	6.660e^-6	0.419	INTRON CG44153	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
2L	13842391	2L_13842391_SNP [dm3] 2L_13842391_SNP [dm6]	G	T	6.726e^-6	0.419	UPSTREAM CG33307 DOWNSTREAM CG33306 INTRON CenG1A	TF binding site mE1_TFBS_bab1
2L	11472183	2L_11472183_SNP [dm3] 2L_11472183_SNP [dm6]	A	T	6.747e^-6	0.419	INTERGENIC	TF binding site mE1_TFBS_cad
3R	7748925	3R_7748925_SNP [dm3] 3R_11923203_SNP [dm6]	G	A	7.089e^-6	0.419	INTRON Cad87A
3R	7755363	3R_7755363_SNP [dm3] 3R_11929641_SNP [dm6]	A	T	7.121e^-6	0.419	INTRON Cad87A
2L	10065678	2L_10065678_SNP [dm3] 2L_10065678_SNP [dm6]	G	C	7.236e^-6	0.419	SYNONYMOUS_CODING CG44153	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
2L	10065557	2L_10065557_SNP [dm3] 2L_10065557_SNP [dm6]	T	C	7.255e^-6	0.419	INTRON CG44153	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
3L	5629439	3L_5629439_SNP [dm3] 3L_5636339_SNP [dm6]	G	T	7.560e^-6	0.419	UTR_5_PRIME Blimp-1 INTRON Blimp-1
3R	6547465	3R_6547465_SNP [dm3] 3R_10721743_SNP [dm6]	T	C	7.671e^-6	0.419	INTERGENIC
2L	6145354	2L_6145354_SNP [dm3] 2L_6145354_SNP [dm6]	G	A	8.024e^-6	0.419	DOWNSTREAM CG13991 INTERGENIC
2L	1639637	2L_1639637_SNP [dm3] 2L_1639637_SNP [dm6]	A	G	8.045e^-6	0.419	INTERGENIC
X	6136089	X_6136089_SNP [dm3] X_6242056_SNP [dm6]	G	A	8.389e^-6	0.425	INTRON Rbcn-3A	TF binding site mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_inv
2L	13842389	2L_13842389_SNP [dm3] 2L_13842389_SNP [dm6]	T	G	8.647e^-6	0.427	UPSTREAM CG33307 DOWNSTREAM CG33306 INTRON CenG1A	TF binding site mE1_TFBS_bab1
2L	2612179	2L_2612179_SNP [dm3] 2L_2612179_SNP [dm6]	T	C	9.575e^-6	0.438	DOWNSTREAM CG15395 INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
3L	9607339	3L_9607339_SNP [dm3] 3L_9614239_SNP [dm6]	A	C	9.595e^-6	0.438	UPSTREAM LanB2 DOWNSTREAM CG3280 INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_z mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_D mE1_TFBS_h mE1_TFBS_HSA mE1_TFBS_jumu mE1_TFBS_Trl
2L	2612143	2L_2612143_SNP [dm3] 2L_2612143_SNP [dm6]	C	G	9.819e^-6	0.438	DOWNSTREAM CG15395 INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
2L	1698340	2L_1698340_SNP [dm3] 2L_1698340_SNP [dm6]	T	A	9.972e^-6	0.438	UTR_3_PRIME chinmo DOWNSTREAM chinmo
2L	6288211	2L_6288211_SNP [dm3] 2L_6288211_SNP [dm6]	G	A	1.025e^-5	0.438	INTRON Ddr	insulator Insulator_Class_II.mE01 TF binding site BDTNP1_TFBS_twi
2L	10074621	2L_10074621_SNP [dm3] 2L_10074621_SNP [dm6]	T	G	1.035e^-5	0.438	INTRON CG44153
3L	3261013	3L_3261013_DEL [dm3] 3L_3261013_DEL [dm6]	ATT	G	1.069e^-5	0.438	INTRON ckd
3R	8165817	3R_8165817_SNP [dm3] 3R_12340095_SNP [dm6]	G	A	1.073e^-5	0.438	DOWNSTREAM CR44941 INTERGENIC
2L	2081577	2L_2081577_SNP [dm3] 2L_2081577_SNP [dm6]	T	C	1.103e^-5	0.439	UPSTREAM CR44808 DOWNSTREAM CG12674 INTRON dpr3
2L	15560151	2L_15560151_SNP [dm3] 2L_15560151_SNP [dm6]	T	C	1.146e^-5	0.439	INTRON kek3
2L	3196086	2L_3196086_SNP [dm3] 2L_3196086_SNP [dm6]	G	A	1.148e^-5	0.439	INTRON CG34393
2R	5049532	2R_5049532_DEL [dm3] 2R_9162027_DEL [dm6]	CGCTATAATTATAATGGTAT...	C	1.182e^-5	0.444	UTR_3_PRIME CG8046 UPSTREAM CG8008 DOWNSTREAM CG8046 & 1 other INTRAGENIC CG8046 INTERGENIC
2L	10065555	2L_10065555_SNP [dm3] 2L_10065555_SNP [dm6]	T	G	1.210e^-5	0.445	INTRON CG44153	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
3R	6547412	3R_6547412_SNP [dm3] 3R_10721690_SNP [dm6]	T	C	1.298e^-5	0.468	INTERGENIC
3R	14298796	3R_14298796_SNP [dm3] 3R_18473074_SNP [dm6]	T	G	1.325e^-5	0.469	INTRON fru
2L	556745	2L_556745_SNP [dm3] 2L_556745_SNP [dm6]	C	A	1.371e^-5	0.476	NON_SYNONYMOUS_CODING rempA	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
3L	6622812	3L_6622812_SNP [dm3] 3L_6629712_SNP [dm6]	T	C	1.411e^-5	0.477	INTRON GluRIA
2L	7401524	2L_7401524_SNP [dm3] 2L_7401524_SNP [dm6]	G	A	1.427e^-5	0.477	INTRON CG5171
3R	8605234	3R_8605234_SNP [dm3] 3R_12779512_SNP [dm6]	A	T	1.492e^-5	0.477	INTRON beat-Vc
2L	11464676	2L_11464676_SNP [dm3] 2L_11464676_SNP [dm6]	A	G	1.497e^-5	0.477	INTERGENIC	TF binding site mE1_TFBS_cad
3R	6547438	3R_6547438_SNP [dm3] 3R_10721716_SNP [dm6]	T	A	1.531e^-5	0.477	INTERGENIC
3R	11724703	3R_11724703_SNP [dm3] 3R_15898981_SNP [dm6]	T	G	1.538e^-5	0.477	INTRON glob1
2R	15172241	2R_15172241_SNP [dm3] 2R_19284736_SNP [dm6]	G	A	1.551e^-5	0.477	SYNONYMOUS_CODING CG10476 UPSTREAM CG11906 DOWNSTREAM CG10474	TF binding site mE1_TFBS_HSA
2L	10065705	2L_10065705_SNP [dm3] 2L_10065705_SNP [dm6]	T	G	1.642e^-5	0.481	SYNONYMOUS_CODING CG44153	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
2R	4192646	2R_4192646_SNP [dm3] 2R_8305141_SNP [dm6]	G	A	1.654e^-5	0.481	DOWNSTREAM CR44447 INTERGENIC
X	6409717	X_6409717_SNP [dm3] X_6515684_SNP [dm6]	T	G	1.690e^-5	0.481	INTRON CG42340
2L	11844835	2L_11844835_SNP [dm3] 2L_11844835_SNP [dm6]	G	C	1.729e^-5	0.481	DOWNSTREAM CG14933 & 1 other INTRON Pde1c
3R	6547403	3R_6547403_SNP [dm3] 3R_10721681_SNP [dm6]	T	A	1.731e^-5	0.481	INTERGENIC
X	12151320	X_12151320_SNP [dm3] X_12257287_SNP [dm6]	A	T	1.751e^-5	0.481	INTRON Ten-a
X	12151446	X_12151446_SNP [dm3] X_12257413_SNP [dm6]	A	T	1.768e^-5	0.481	INTRON Ten-a
2L	11844920	2L_11844920_SNP [dm3] 2L_11844920_SNP [dm6]	T	C	1.771e^-5	0.481	DOWNSTREAM CG14933 & 1 other INTRON Pde1c
3R	2714565	3R_2714565_SNP [dm3] 3R_6888843_SNP [dm6]	T	A	1.803e^-5	0.483	INTERGENIC	regulatory region FlyBase REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_gt BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_slp1 BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_HSA
2L	11448829	2L_11448829_SNP [dm3] 2L_11448829_SNP [dm6]	G	A	1.865e^-5	0.489	INTERGENIC	regulatory region FlyBase REDfly_CRMs TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_gt mE1_TFBS_cad mE1_TFBS_HSA
3R	5464895	3R_5464895_SNP [dm3] 3R_9639173_SNP [dm6]	C	T	1.892e^-5	0.489	INTRON Dh44	TF binding site BDTNP1_TFBS_twi
3R	19617953	3R_19617953_SNP [dm3] 3R_23792231_SNP [dm6]	T	C	1.904e^-5	0.489	SPLICE_SITE_REGION mbc INTRON mbc
2R	15172245	2R_15172245_SNP [dm3] 2R_19284740_SNP [dm6]	A	G	1.954e^-5	0.495	SYNONYMOUS_CODING CG10476 UPSTREAM CG11906 DOWNSTREAM CG10474	TF binding site mE1_TFBS_HSA
X	19747288	X_19747288_SNP [dm3] X_19853255_SNP [dm6]	G	A	1.979e^-5	0.495	NON_SYNONYMOUS_CODING Nup205	TF binding site mE1_TFBS_chinmo mE1_TFBS_inv mE1_TFBS_sens
3R	22297516	3R_22297516_SNP [dm3] 3R_26471794_SNP [dm6]	T	A	2.020e^-5	0.496	UTR_3_PRIME plum
2L	14975079	2L_14975079_SNP [dm3] 2L_14975079_SNP [dm6]	C	G	2.037e^-5	0.496	DOWNSTREAM mol & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
X	8631631	X_8631631_SNP [dm3] X_8737598_SNP [dm6]	C	T	2.084e^-5	0.501	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_kn
3R	6538067	3R_6538067_SNP [dm3] 3R_10712345_SNP [dm6]	A	G	2.115e^-5	0.502	INTERGENIC
3L	3260995	3L_3260995_SNP [dm3] 3L_3260995_SNP [dm6]	C	T	2.172e^-5	0.507	INTRON ckd
3L	9607530	3L_9607530_SNP [dm3] 3L_9614430_SNP [dm6]	T	G	2.194e^-5	0.507	UPSTREAM LanB2 DOWNSTREAM CG3280 INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_D mE1_TFBS_h mE1_TFBS_HSA mE1_TFBS_Trl
3L	10893212	3L_10893212_SNP [dm3] 3L_10900112_SNP [dm6]	G	A	2.219e^-5	0.507	UPSTREAM Aps INTERGENIC	TF binding site mE1_TFBS_sens
X	18372514	X_18372514_SNP [dm3] X_18478481_SNP [dm6]	G	A	2.279e^-5	0.512	INTRON CG32547
X	12151214	X_12151214_SNP [dm3] X_12257181_SNP [dm6]	A	G	2.348e^-5	0.512	INTRON Ten-a
3R	6562999	3R_6562999_SNP [dm3] 3R_10737277_SNP [dm6]	G	C	2.357e^-5	0.512	DOWNSTREAM TkR86C INTERGENIC
2R	2646006	2R_2646006_SNP [dm3] 2R_6758501_SNP [dm6]	A	G	2.388e^-5	0.512	SYNONYMOUS_CODING CG9436	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_ftz BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_chinmo mE1_TFBS_cnc mE1_TFBS_HSA
2R	2645953	2R_2645953_SNP [dm3] 2R_6758448_SNP [dm6]	T	C	2.396e^-5	0.512	SYNONYMOUS_CODING CG9436	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_ftz BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_chinmo mE1_TFBS_cnc mE1_TFBS_HSA mE1_TFBS_sens
3R	7729799	3R_7729799_SNP [dm3] 3R_11904077_SNP [dm6]	C	T	2.455e^-5	0.512	INTRON Cad87A
2R	2645782	2R_2645782_SNP [dm3] 2R_6758277_SNP [dm6]	C	G	2.455e^-5	0.512	SYNONYMOUS_CODING CG9436	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_ftz BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_chinmo mE1_TFBS_HSA mE1_TFBS_sens
3R	18384118	3R_18384118_DEL [dm3] 3R_22558396_DEL [dm6]	TT	T	2.456e^-5	0.512	UTR_3_PRIME CG5278
3L	9607372	3L_9607372_SNP [dm3] 3L_9614272_SNP [dm6]	A	T	2.496e^-5	0.514	UPSTREAM LanB2 DOWNSTREAM CG3280 INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_D mE1_TFBS_h mE1_TFBS_HSA mE1_TFBS_jumu mE1_TFBS_Trl
2L	16260345	2L_16260345_SNP [dm3] 2L_16260345_SNP [dm6]	A	G	2.526e^-5	0.515	SYNONYMOUS_CODING twe DOWNSTREAM EndoGI	TF binding site mE1_TFBS_cad
3L	10791100	3L_10791100_SNP [dm3] 3L_10798000_SNP [dm6]	C	T	2.678e^-5	0.519	INTERGENIC
2L	13087494	2L_13087494_SNP [dm3] 2L_13087494_SNP [dm6]	C	A	2.689e^-5	0.519	INTERGENIC
2L	4157013	2L_4157013_SNP [dm3] 2L_4157013_SNP [dm6]	A	T	2.699e^-5	0.519	INTERGENIC
3R	21852411	3R_21852411_SNP [dm3] 3R_26026689_SNP [dm6]	G	T	2.706e^-5	0.519	INTERGENIC	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_D mE1_TFBS_HSA mE1_TFBS_sens
2L	2138686	2L_2138686_SNP [dm3] 2L_2138686_SNP [dm6]	A	T	2.709e^-5	0.519	INTRON tho2	TF binding site mE1_TFBS_sens
2R	10731047	2R_10731047_SNP [dm3] 2R_14843542_SNP [dm6]	T	C	2.753e^-5	0.519	SYNONYMOUS_CODING NaPi-T
3L	10167431	3L_10167431_SNP [dm3] 3L_10174331_SNP [dm6]	T	A	2.755e^-5	0.519	INTRON dpr10
X	9222216	X_9222216_SNP [dm3] X_9328183_SNP [dm6]	T	C	2.765e^-5	0.519	SYNONYMOUS_CODING CG34449 UTR_3_PRIME CG34449 DOWNSTREAM CG34450	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_sna mE1_TFBS_chinmo mE1_TFBS_HSA

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=6.846e^-8)
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	0.01804
In_3R_Mo	0.08681

Kruskal-Wallis test

Covariate	χ²	p-value	Significance
In_2L_t	4.6266	0.0989

PNG PDF

QQplot

PNG PDF

Manhattan plot

GWAS results

1903 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
2L	7830448	2L_7830448_SNP [dm3] 2L_7830448_SNP [dm6]	C	T	1.107e^-7	0.109	INTRON mts	TF binding site mE1_TFBS_cad
2L	7830453	2L_7830453_SNP [dm3] 2L_7830453_SNP [dm6]	T	C	1.211e^-7	0.109	INTRON mts	TF binding site mE1_TFBS_cad
3L	3459327	3L_3459327_SNP [dm3] 3L_3459327_SNP [dm6]	T	C	1.737e^-7	0.109	SYNONYMOUS_CODING eIF5B	TF binding site mE1_TFBS_chinmo mE1_TFBS_HSA
2L	7831213	2L_7831213_SNP [dm3] 2L_7831213_SNP [dm6]	A	T	5.798e^-7	0.272	INTRON mts
X	3260430	X_3260430_SNP [dm3] X_3366397_SNP [dm6]	C	G	1.209e^-6	0.299	INTERGENIC	enhancer mE1_CBP_Enhancers TF binding site BDTNP1_TFBS_dl mE1_TFBS_D mE1_TFBS_disco mE1_TFBS_GATAe mE1_TFBS_HSA
2L	7830084	2L_7830084_SNP [dm3] 2L_7830084_SNP [dm6]	C	T	1.214e^-6	0.299	INTRON mts	TF binding site BDTNP1_TFBS_dl
2L	1931216	2L_1931216_SNP [dm3] 2L_1931216_SNP [dm6]	T	G	1.252e^-6	0.299	INTRON CG7337
2L	1931214	2L_1931214_SNP [dm3] 2L_1931214_SNP [dm6]	T	A	1.371e^-6	0.299	INTRON CG7337
3R	21460810	3R_21460810_SNP [dm3] 3R_25635088_SNP [dm6]	T	A	1.451e^-6	0.299	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
2R	6076487	2R_6076487_SNP [dm3] 2R_10188982_SNP [dm6]	A	C	1.889e^-6	0.299	INTRON KCNQ
X	3260446	X_3260446_SNP [dm3] X_3366413_SNP [dm6]	G	A	1.912e^-6	0.299	INTERGENIC	enhancer mE1_CBP_Enhancers TF binding site BDTNP1_TFBS_dl mE1_TFBS_D mE1_TFBS_disco mE1_TFBS_GATAe mE1_TFBS_HSA
X	3260405	X_3260405_SNP [dm3] X_3366372_SNP [dm6]	C	T	1.955e^-6	0.299	INTERGENIC	enhancer mE1_CBP_Enhancers TF binding site BDTNP1_TFBS_dl mE1_TFBS_D mE1_TFBS_disco mE1_TFBS_HSA
2L	7606183	2L_7606183_SNP [dm3] 2L_7606183_SNP [dm6]	T	A	2.157e^-6	0.299	SYNONYMOUS_CODING Cyp4d21
X	3260403	X_3260403_SNP [dm3] X_3366370_SNP [dm6]	A	T	2.233e^-6	0.299	INTERGENIC	enhancer mE1_CBP_Enhancers TF binding site BDTNP1_TFBS_dl mE1_TFBS_D mE1_TFBS_disco mE1_TFBS_HSA
2L	7830080	2L_7830080_SNP [dm3] 2L_7830080_SNP [dm6]	A	T	2.721e^-6	0.34	INTRON mts	TF binding site BDTNP1_TFBS_dl
3L	3459525	3L_3459525_SNP [dm3] 3L_3459525_SNP [dm6]	T	A	3.493e^-6	0.376	SYNONYMOUS_CODING eIF5B	TF binding site mE1_TFBS_chinmo
2R	6075465	2R_6075465_SNP [dm3] 2R_10187960_SNP [dm6]	C	T	3.804e^-6	0.376	INTRON KCNQ
2L	7605801	2L_7605801_SNP [dm3] 2L_7605801_SNP [dm6]	T	A	3.862e^-6	0.376	SYNONYMOUS_CODING Cyp4d21
X	3260394	X_3260394_SNP [dm3] X_3366361_SNP [dm6]	C	G	4.018e^-6	0.376	INTERGENIC	enhancer mE1_CBP_Enhancers TF binding site BDTNP1_TFBS_dl mE1_TFBS_D mE1_TFBS_disco mE1_TFBS_HSA
2R	18704313	2R_18704313_SNP [dm3] 2R_22816808_SNP [dm6]	C	A	4.799e^-6	0.376	UPSTREAM CG30271 DOWNSTREAM stl INTRON CG30271
2L	2418238	2L_2418238_INS [dm3] 2L_2418238_INS [dm6]	T	TT	5.149e^-6	0.376	UPSTREAM CG34448 DOWNSTREAM CG34447 INTERGENIC
3R	10386467	3R_10386467_SNP [dm3] 3R_14560745_SNP [dm6]	A	G	5.217e^-6	0.376	UPSTREAM CG14850 & 1 other INTERGENIC
2L	7831178	2L_7831178_SNP [dm3] 2L_7831178_SNP [dm6]	T	G	5.316e^-6	0.376	INTRON mts
2L	2420375	2L_2420375_SNP [dm3] 2L_2420375_SNP [dm6]	A	T	5.374e^-6	0.376	UPSTREAM CG34447 & 1 other INTERGENIC
X	3260410	X_3260410_SNP [dm3] X_3366377_SNP [dm6]	C	T	5.540e^-6	0.376	INTERGENIC	enhancer mE1_CBP_Enhancers TF binding site BDTNP1_TFBS_dl mE1_TFBS_D mE1_TFBS_disco mE1_TFBS_HSA
2L	15101687	2L_15101687_SNP [dm3] 2L_15101687_SNP [dm6]	T	C	5.656e^-6	0.376	INTERGENIC
3R	10347455	3R_10347455_SNP [dm3] 3R_14521733_SNP [dm6]	A	G	5.866e^-6	0.376	SYNONYMOUS_CODING Cyp313a1 INTRON Pde6
2L	7830268	2L_7830268_SNP [dm3] 2L_7830268_SNP [dm6]	A	T	5.984e^-6	0.376	INTRON mts
2L	2421303	2L_2421303_SNP [dm3] 2L_2421303_SNP [dm6]	A	G	6.003e^-6	0.376	SYNONYMOUS_CODING CG9886	TF binding site mE1_TFBS_chinmo mE1_TFBS_sens
2L	2423899	2L_2423899_SNP [dm3] 2L_2423899_SNP [dm6]	C	A	6.095e^-6	0.376	UTR_3_PRIME CG9886 UPSTREAM CG44139 DOWNSTREAM CG9886	TF binding site mE1_TFBS_chinmo mE1_TFBS_HSA
X	8156849	X_8156849_SNP [dm3] X_8262816_SNP [dm6]	T	C	6.253e^-6	0.376	INTRON CG1632	TF binding site BDTNP1_TFBS_da
X	6703155	X_6703155_SNP [dm3] X_6809122_SNP [dm6]	T	C	6.479e^-6	0.376	SYNONYMOUS_CODING pod1
2L	2420456	2L_2420456_SNP [dm3] 2L_2420456_SNP [dm6]	C	T	6.611e^-6	0.376	UPSTREAM CG34447 & 1 other INTERGENIC
2L	7605854	2L_7605854_SNP [dm3] 2L_7605854_SNP [dm6]	T	A	7.259e^-6	0.39	INTRON Cyp4d21
3R	10333474	3R_10333474_SNP [dm3] 3R_14507752_SNP [dm6]	T	C	7.276e^-6	0.39	INTRON CR44177
3R	10517944	3R_10517944_SNP [dm3] 3R_14692222_SNP [dm6]	C	G	7.578e^-6	0.395	INTRON Meltrin	TF binding site BDTNP1_TFBS_dl
2L	15246387	2L_15246387_SNP [dm3] 2L_15246387_SNP [dm6]	C	G	8.306e^-6	0.419	UPSTREAM ZnT35C INTRON ZnT35C
2L	2420542	2L_2420542_SNP [dm3] 2L_2420542_SNP [dm6]	T	G	8.490e^-6	0.419	UPSTREAM CG34447 & 1 other INTERGENIC
2L	2418005	2L_2418005_SNP [dm3] 2L_2418005_SNP [dm6]	C	A	9.598e^-6	0.442	UPSTREAM CG34448 DOWNSTREAM CG34447 INTERGENIC
3R	10384922	3R_10384922_SNP [dm3] 3R_14559200_SNP [dm6]	T	C	1.001e^-5	0.442	UTR_3_PRIME CG14854 UPSTREAM Pde6
3R	19021889	3R_19021889_DEL [dm3] 3R_23196167_DEL [dm6]	ATAA	A	1.016e^-5	0.442	INTRON cnc	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_sna BDTNP1_TFBS_tll BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
3R	10517927	3R_10517927_SNP [dm3] 3R_14692205_SNP [dm6]	C	A	1.030e^-5	0.442	INTRON Meltrin	TF binding site BDTNP1_TFBS_dl
3L	4748359	3L_4748359_SNP [dm3] 3L_4748359_SNP [dm6]	A	G	1.045e^-5	0.442	INTRON RhoGEF64C
2L	18884583	2L_18884583_SNP [dm3] 2L_18884583_SNP [dm6]	T	A	1.077e^-5	0.442	INTERGENIC	TF binding site BDTNP1_TFBS_da
2L	11499812	2L_11499812_SNP [dm3] 2L_11499812_SNP [dm6]	C	T	1.084e^-5	0.442	UPSTREAM CG6488 INTERGENIC
2L	7606712	2L_7606712_SNP [dm3] 2L_7606712_SNP [dm6]	G	A	1.109e^-5	0.442	SYNONYMOUS_CODING Cyp4d21
2L	7587316	2L_7587316_SNP [dm3] 2L_7587316_SNP [dm6]	C	T	1.116e^-5	0.442	INTERGENIC
X	18558737	X_18558737_SNP [dm3] X_18664704_SNP [dm6]	T	C	1.147e^-5	0.442	INTERGENIC
3R	13453682	3R_13453682_SNP [dm3] 3R_17627960_SNP [dm6]	T	A	1.154e^-5	0.442	INTRON CG14325	TF binding site mE1_TFBS_chinmo
2L	7771509	2L_7771509_SNP [dm3] 2L_7771509_SNP [dm6]	G	A	1.197e^-5	0.448	NON_SYNONYMOUS_CODING CG7191
2L	7830911	2L_7830911_SNP [dm3] 2L_7830911_SNP [dm6]	T	C	1.254e^-5	0.448	SYNONYMOUS_CODING mts	TF binding site mE1_TFBS_cad
2L	7830437	2L_7830437_SNP [dm3] 2L_7830437_SNP [dm6]	G	C	1.262e^-5	0.448	INTRON mts	TF binding site mE1_TFBS_cad
3R	2414562	3R_2414562_SNP [dm3] 3R_6588840_SNP [dm6]	T	A	1.266e^-5	0.448	INTRON dpr11
2L	15246395	2L_15246395_SNP [dm3] 2L_15246395_SNP [dm6]	T	C	1.295e^-5	0.45	UPSTREAM ZnT35C INTRON ZnT35C
X	3122161	X_3122161_SNP [dm3] X_3228128_SNP [dm6]	A	G	1.377e^-5	0.453	INTRON dnc
3R	2414606	3R_2414606_SNP [dm3] 3R_6588884_SNP [dm6]	A	T	1.389e^-5	0.453	INTRON dpr11
3R	16890211	3R_16890211_SNP [dm3] 3R_21064489_SNP [dm6]	A	C	1.390e^-5	0.453	UPSTREAM AnxB9 & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_z mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_h mE1_TFBS_hkb mE1_TFBS_HSA mE1_TFBS_Kr mE1_TFBS_Trl mE1_TFBS_Ubx
3L	14561388	3L_14561388_SNP [dm3] 3L_14568288_SNP [dm6]	A	G	1.402e^-5	0.453	DOWNSTREAM CG42758 INTERGENIC
2R	5911004	2R_5911004_SNP [dm3] 2R_10023499_SNP [dm6]	G	T	1.461e^-5	0.453	INTRON Pka-R2	TF binding site BDTNP1_TFBS_sna
3L	13163014	3L_13163014_SNP [dm3] 3L_13169914_SNP [dm6]	C	A	1.468e^-5	0.453	INTERGENIC	TF binding site mE1_TFBS_Kr
2L	2418398	2L_2418398_SNP [dm3] 2L_2418398_SNP [dm6]	T	A	1.477e^-5	0.453	UPSTREAM CG34448 DOWNSTREAM CG34447 INTERGENIC
X	3260406	X_3260406_SNP [dm3] X_3366373_SNP [dm6]	T	C	1.499e^-5	0.453	INTERGENIC	enhancer mE1_CBP_Enhancers TF binding site BDTNP1_TFBS_dl mE1_TFBS_D mE1_TFBS_disco mE1_TFBS_HSA
3R	2272243	3R_2272243_SNP [dm3] 3R_6446521_SNP [dm6]	C	T	1.604e^-5	0.472	SYNONYMOUS_CODING gpp UTR_3_PRIME gpp DOWNSTREAM gpp	TF binding site mE1_TFBS_cad
2L	7147646	2L_7147646_SNP [dm3] 2L_7147646_SNP [dm6]	G	A	1.618e^-5	0.472	INTRON Pvf3	TF binding site mE1_TFBS_cnc
3R	10517931	3R_10517931_DEL [dm3] 3R_14692209_DEL [dm6]	TT	C	1.717e^-5	0.472	INTRON Meltrin	TF binding site BDTNP1_TFBS_dl
3R	10344076	3R_10344076_SNP [dm3] 3R_14518354_SNP [dm6]	A	C	1.729e^-5	0.472	DOWNSTREAM CG34273 INTRON Pde6
2L	18570598	2L_18570598_SNP [dm3] 2L_18570598_SNP [dm6]	T	A	1.740e^-5	0.472	INTRON Pde11
2L	7588606	2L_7588606_INS [dm3] 2L_7588606_INS [dm6]	C	CCC	1.750e^-5	0.472	INTERGENIC
2L	2420388	2L_2420388_SNP [dm3] 2L_2420388_SNP [dm6]	T	C	1.772e^-5	0.472	UPSTREAM CG34447 & 1 other INTERGENIC
X	8156906	X_8156906_SNP [dm3] X_8262873_SNP [dm6]	G	T	1.773e^-5	0.472	INTRON CG1632	TF binding site BDTNP1_TFBS_da
2L	6468887	2L_6468887_SNP [dm3] 2L_6468887_SNP [dm6]	G	A	1.808e^-5	0.472	SYNONYMOUS_CODING mmy	TF binding site BDTNP1_TFBS_dl mE1_TFBS_cad mE1_TFBS_HSA
2L	5669503	2L_5669503_SNP [dm3] 2L_5669503_SNP [dm6]	C	T	1.860e^-5	0.472	SYNONYMOUS_CODING Hsp60C	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
3L	11838400	3L_11838400_DEL [dm3] 3L_11845300_DEL [dm6]	TCCAGCACATAT...	T	1.861e^-5	0.472	INTERGENIC
3L	11838413	3L_11838413_SNP [dm3] 3L_11845313_SNP [dm6]	C	T	1.861e^-5	0.472	INTERGENIC
2L	2418353	2L_2418353_SNP [dm3] 2L_2418353_SNP [dm6]	A	T	1.960e^-5	0.478	UPSTREAM CG34448 DOWNSTREAM CG34447 INTERGENIC
2R	11275005	2R_11275005_SNP [dm3] 2R_15387500_SNP [dm6]	G	T	1.981e^-5	0.478	UTR_3_PRIME SRPK
3R	2414567	3R_2414567_SNP [dm3] 3R_6588845_SNP [dm6]	A	G	1.993e^-5	0.478	INTRON dpr11
3L	7177099	3L_7177099_SNP [dm3] 3L_7183999_SNP [dm6]	A	T	2.036e^-5	0.478	INTRON Dscam2	TF binding site BDTNP1_TFBS_twi mE1_TFBS_HSA
3R	10517926	3R_10517926_SNP [dm3] 3R_14692204_SNP [dm6]	C	A	2.087e^-5	0.478	INTRON Meltrin	TF binding site BDTNP1_TFBS_dl
3L	4169992	3L_4169992_SNP [dm3] 3L_4169992_SNP [dm6]	C	T	2.127e^-5	0.478	UPSTREAM Ero1L INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_sna mE1_TFBS_HSA
3R	7854403	3R_7854403_SNP [dm3] 3R_12028681_SNP [dm6]	G	T	2.133e^-5	0.478	SYNONYMOUS_CODING CG42505 UTR_3_PRIME CG42504 & 1 other INTRON CG31358	TF binding site mE1_TFBS_chinmo mE1_TFBS_HSA
X	15182780	X_15182780_SNP [dm3] X_15288747_SNP [dm6]	T	C	2.135e^-5	0.478	UPSTREAM CR44663 INTERGENIC
3L	3859391	3L_3859391_SNP [dm3] 3L_3859391_SNP [dm6]	A	G	2.139e^-5	0.478	SPLICE_SITE_REGION Awh INTRON Awh	TF binding site mE1_TFBS_cad
X	8156894	X_8156894_INS [dm3] X_8262861_INS [dm6]	T	TTCCACGCTCCGAACCAAAT...	2.142e^-5	0.478	INTRON CG1632	TF binding site BDTNP1_TFBS_da
2L	2419839	2L_2419839_SNP [dm3] 2L_2419839_SNP [dm6]	T	G	2.193e^-5	0.479	UTR_5_PRIME CG34447 UPSTREAM CG34447 & 1 other
2L	6809163	2L_6809163_SNP [dm3] 2L_6809163_SNP [dm6]	G	T	2.204e^-5	0.479	INTERGENIC
2L	2420370	2L_2420370_SNP [dm3] 2L_2420370_SNP [dm6]	T	G	2.263e^-5	0.479	UPSTREAM CG34447 & 1 other INTERGENIC
2L	7831121	2L_7831121_SNP [dm3] 2L_7831121_SNP [dm6]	A	G	2.268e^-5	0.479	INTRON mts	TF binding site mE1_TFBS_cad
2L	2418516	2L_2418516_SNP [dm3] 2L_2418516_SNP [dm6]	T	G	2.304e^-5	0.479	SYNONYMOUS_CODING CG34447 UPSTREAM CG34448
2L	7606832	2L_7606832_SNP [dm3] 2L_7606832_SNP [dm6]	T	C	2.330e^-5	0.479	SYNONYMOUS_CODING Cyp4d21
2L	13261894	2L_13261894_DEL [dm3] 2L_13261894_DEL [dm6]	CGA	C	2.333e^-5	0.479	INTRON CG44085
2L	2418158	2L_2418158_SNP [dm3] 2L_2418158_SNP [dm6]	T	G	2.355e^-5	0.479	UPSTREAM CG34448 DOWNSTREAM CG34447 INTERGENIC
2R	15138046	2R_15138046_SNP [dm3] 2R_19250541_SNP [dm6]	T	C	2.399e^-5	0.479	SYNONYMOUS_CODING wbl DOWNSTREAM CG33454	TF binding site BDTNP1_TFBS_z
3L	5301065	3L_5301065_SNP [dm3] 3L_5307965_SNP [dm6]	A	G	2.400e^-5	0.479	INTERGENIC
2R	6073703	2R_6073703_SNP [dm3] 2R_10186198_SNP [dm6]	A	T	2.489e^-5	0.491	INTRON KCNQ
2L	2424558	2L_2424558_SNP [dm3] 2L_2424558_SNP [dm6]	T	C	2.530e^-5	0.494	UTR_3_PRIME CG9886 UPSTREAM CG44139
2L	3433725	2L_3433725_SNP [dm3] 2L_3433725_SNP [dm6]	G	A	2.581e^-5	0.495	INTERGENIC	TF binding site mE1_TFBS_HSA mE1_TFBS_sbb
2R	17034500	2R_17034500_SNP [dm3] 2R_21146995_SNP [dm6]	G	A	2.586e^-5	0.495	SYNONYMOUS_CODING Hmg-2 DOWNSTREAM CG15657	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA mE1_TFBS_sens
2L	2421753	2L_2421753_SNP [dm3] 2L_2421753_SNP [dm6]	C	T	2.692e^-5	0.501	SYNONYMOUS_CODING CG9886	TF binding site mE1_TFBS_chinmo mE1_TFBS_HSA mE1_TFBS_sens
3R	2424708	3R_2424708_SNP [dm3] 3R_6598986_SNP [dm6]	T	A	2.698e^-5	0.501	UPSTREAM CG1138 INTERGENIC

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By genomic position
Variant impact
Gene name

Cuticul_6_10_C25_2 phenotype

Phenotype distribution and association to known covariates

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GWAS results

Phenotype distribution and association to known covariates

QQplot

Manhattan plot

GWAS results