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=5.557e^-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
No significant result.

Kruskal-Wallis test

Covariate	χ²	p-value	Significance
In_3R_Mo	5.054	0.0799

PNG PDF

QQplot

PNG PDF

Manhattan plot

GWAS results

2126 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
2R	16573867	2R_16573867_SNP [dm3] 2R_20686362_SNP [dm6]	A	T	4.719e^-7	0.875	SYNONYMOUS_CODING Gr57a
3L	9209039	3L_9209039_SNP [dm3] 3L_9215939_SNP [dm6]	G	A	9.545e^-7	0.875	DOWNSTREAM CG4476 INTERGENIC
3L	18100184	3L_18100184_SNP [dm3] 3L_18107084_SNP [dm6]	A	G	2.379e^-6	0.875	SYNONYMOUS_CODING mRpS26 UPSTREAM CG13698 DOWNSTREAM CG5147	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA mE1_TFBS_sens
3R	26962890	3R_26962890_SNP [dm3] 3R_31137168_SNP [dm6]	T	C	2.953e^-6	0.875	INTRON Gycbeta100B
3L	10554240	3L_10554240_SNP [dm3] 3L_10561140_SNP [dm6]	G	T	4.358e^-6	0.875	INTRON A2bp1	TF binding site mE1_TFBS_HSA mE1_TFBS_sbb
3L	8712598	3L_8712598_SNP [dm3] 3L_8719498_SNP [dm6]	A	G	4.862e^-6	0.875	SYNONYMOUS_CODING SrpRbeta DOWNSTREAM CG32022	TF binding site BDTNP1_TFBS_dl mE1_TFBS_sens mE1_TFBS_ttk
3L	8679532	3L_8679532_SNP [dm3] 3L_8686432_SNP [dm6]	C	T	5.005e^-6	0.875	INTERGENIC	TF binding site mE1_TFBS_HSA mE1_TFBS_sbb
2R	10007844	2R_10007844_SNP [dm3] 2R_14120339_SNP [dm6]	A	C	5.333e^-6	0.875	INTRON Prosap
X	672997	X_672997_SNP [dm3] X_778964_SNP [dm6]	A	T	5.807e^-6	0.875	INTRON fz3	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_prd mE1_TFBS_HSA
2L	3444129	2L_3444129_DEL [dm3] 2L_3444129_DEL [dm6]	ACTGTCACCTAACACTTGGC...	A	6.204e^-6	0.875	INTERGENIC
3R	24674386	3R_24674386_SNP [dm3] 3R_28848664_SNP [dm6]	G	A	6.799e^-6	0.875	INTRON spg
3R	25933219	3R_25933219_SNP [dm3] 3R_30107497_SNP [dm6]	A	G	7.647e^-6	0.875	INTRON sima
3L	7324956	3L_7324956_SNP [dm3] 3L_7331856_SNP [dm6]	C	A	8.764e^-6	0.875	SYNONYMOUS_CODING mus312 UTR_3_PRIME mus312 & 1 other	TF binding site mE1_TFBS_sens
3R	13796364	3R_13796364_SNP [dm3] 3R_17970642_SNP [dm6]	G	T	1.048e^-5	0.875	INTRON cpo
2R	10007811	2R_10007811_DEL [dm3] 2R_14120306_DEL [dm6]	TT	T	1.055e^-5	0.875	INTRON Prosap
2L	2903316	2L_2903316_SNP [dm3] 2L_2903316_SNP [dm6]	A	G	1.203e^-5	0.875	INTRON lilli	TF binding site mE1_TFBS_chinmo
3L	8724359	3L_8724359_SNP [dm3] 3L_8731259_SNP [dm6]	A	T	1.219e^-5	0.875	UPSTREAM Cp16 DOWNSTREAM Cp19 INTERGENIC
3L	18099665	3L_18099665_SNP [dm3] 3L_18106565_SNP [dm6]	C	T	1.250e^-5	0.875	UPSTREAM mRpS26 & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_z mE1_TFBS_HSA
X	4788320	X_4788320_SNP [dm3] X_4894287_SNP [dm6]	A	T	1.258e^-5	0.875	INTRON CG42594
2L	9657181	2L_9657181_SNP [dm3] 2L_9657181_SNP [dm6]	G	T	1.306e^-5	0.875	SYNONYMOUS_CODING CG33299
3R	25933228	3R_25933228_SNP [dm3] 3R_30107506_SNP [dm6]	A	T	1.346e^-5	0.875	INTRON sima
3R	26960158	3R_26960158_SNP [dm3] 3R_31134436_SNP [dm6]	C	G	1.352e^-5	0.875	UTR_5_PRIME Gycbeta100B
2R	9566378	2R_9566378_SNP [dm3] 2R_13678873_SNP [dm6]	T	A	1.372e^-5	0.875	INTRON fas
2R	16573792	2R_16573792_SNP [dm3] 2R_20686287_SNP [dm6]	C	T	1.545e^-5	0.875	SYNONYMOUS_CODING Gr57a
3L	16246288	3L_16246288_SNP [dm3] 3L_16253188_SNP [dm6]	A	G	1.611e^-5	0.875	UPSTREAM CG13055 INTERGENIC
2L	4372845	2L_4372845_SNP [dm3] 2L_4372845_SNP [dm6]	C	T	1.626e^-5	0.875	INTRON Traf4	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_D mE1_TFBS_HSA
3R	19907366	3R_19907366_SNP [dm3] 3R_24081644_SNP [dm6]	C	T	1.667e^-5	0.875	INTRON 4EHP
2L	9646337	2L_9646337_SNP [dm3] 2L_9646337_SNP [dm6]	A	G	1.708e^-5	0.875	SYNONYMOUS_CODING Apoltp
3L	10554241	3L_10554241_SNP [dm3] 3L_10561141_SNP [dm6]	T	C	1.730e^-5	0.875	INTRON A2bp1	TF binding site mE1_TFBS_HSA mE1_TFBS_sbb
X	16309493	X_16309493_SNP [dm3] X_16415460_SNP [dm6]	A	G	1.782e^-5	0.875	NON_SYNONYMOUS_CODING Traf-like UTR_5_PRIME Traf-like DOWNSTREAM CG4301 INTRON Traf-like	TF binding site BDTNP1_TFBS_twi
3R	26955176	3R_26955176_SNP [dm3] 3R_31129454_SNP [dm6]	G	A	1.800e^-5	0.875	SYNONYMOUS_CODING CG15556
3L	1267022	3L_1267022_SNP [dm3] 3L_1267022_SNP [dm6]	G	A	1.801e^-5	0.875	INTRON CG9134
3R	26807112	3R_26807112_SNP [dm3] 3R_30981390_SNP [dm6]	T	C	1.815e^-5	0.875	INTRON 5-HT7
3R	19698058	3R_19698058_SNP [dm3] 3R_23872336_SNP [dm6]	A	C	1.861e^-5	0.875	INTRON Pli
3R	10808677	3R_10808677_SNP [dm3] 3R_14982955_SNP [dm6]	G	C	1.958e^-5	0.875	INTERGENIC
3R	25933227	3R_25933227_SNP [dm3] 3R_30107505_SNP [dm6]	G	C	1.966e^-5	0.875	INTRON sima
3L	6992444	3L_6992444_SNP [dm3] 3L_6999344_SNP [dm6]	G	T	2.065e^-5	0.875	INTRON Mp
X	12632358	X_12632358_SNP [dm3] X_12738325_SNP [dm6]	A	G	2.065e^-5	0.875	INTRON Smr	TF binding site BDTNP1_TFBS_dl
3L	1590095	3L_1590095_SNP [dm3] 3L_1590095_SNP [dm6]	A	T	2.156e^-5	0.875	INTRON CG13917
3L	8712586	3L_8712586_SNP [dm3] 3L_8719486_SNP [dm6]	A	T	2.233e^-5	0.875	SYNONYMOUS_CODING SrpRbeta DOWNSTREAM CG32022	TF binding site BDTNP1_TFBS_dl mE1_TFBS_sens mE1_TFBS_ttk
2R	17974300	2R_17974300_SNP [dm3] 2R_22086795_SNP [dm6]	C	A	2.249e^-5	0.875	SYNONYMOUS_CODING CG13502 INTRON CG13502
3L	16246319	3L_16246319_SNP [dm3] 3L_16253219_SNP [dm6]	A	C	2.259e^-5	0.875	UPSTREAM CG13055 INTERGENIC
3R	17498414	3R_17498414_SNP [dm3] 3R_21672692_SNP [dm6]	G	T	2.344e^-5	0.875	UTR_3_PRIME CG31176 UPSTREAM DNApol-alpha180
3R	17497826	3R_17497826_SNP [dm3] 3R_21672104_SNP [dm6]	G	A	2.372e^-5	0.875	UPSTREAM DNApol-alpha180 DOWNSTREAM CG31176 INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_HSA
3L	6494050	3L_6494050_SNP [dm3] 3L_6500950_SNP [dm6]	T	C	2.383e^-5	0.875	INTRON sfl	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_hkb mE1_TFBS_HSA
2L	7759786	2L_7759786_SNP [dm3] 2L_7759786_SNP [dm6]	T	C	2.465e^-5	0.875	INTRON CG7196
3R	19907689	3R_19907689_SNP [dm3] 3R_24081967_SNP [dm6]	C	A	2.468e^-5	0.875	INTRON 4EHP
3R	27025773	3R_27025773_SNP [dm3] 3R_31200051_SNP [dm6]	C	T	2.475e^-5	0.875	INTRON CG1544	TF binding site BDTNP1_TFBS_da mE1_TFBS_HSA
X	12629524	X_12629524_INS [dm3] X_12735491_INS [dm6]	A	ATACAAA	2.535e^-5	0.875	INTRON Smr	TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_gt BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_slp1 BDTNP1_TFBS_sna BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_cad mE1_TFBS_cnc mE1_TFBS_D mE1_TFBS_disco mE1_TFBS_h mE1_TFBS_hkb mE1_TFBS_HSA mE1_TFBS_inv mE1_TFBS_jumu mE1_TFBS_sens mE1_TFBS_Trl mE1_TFBS_Ubx mE1_TFBS_zfh1
2R	8879573	2R_8879573_SNP [dm3] 2R_12992068_SNP [dm6]	G	A	2.595e^-5	0.875	INTERGENIC	silencer mE1_HDAC_PRE TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_Trl
3L	6390382	3L_6390382_SNP [dm3] 3L_6397282_SNP [dm6]	T	A	2.730e^-5	0.875	INTERGENIC	TF binding site BDTNP1_TFBS_sna mE1_TFBS_HSA
2R	16612137	2R_16612137_INS [dm3] 2R_20724632_INS [dm6]	A	AGACACCCAAA...	2.822e^-5	0.875	INTRON dpr	TF binding site mE1_TFBS_HSA mE1_TFBS_sbb
2L	9665906	2L_9665906_SNP [dm3] 2L_9665906_SNP [dm6]	T	A	2.889e^-5	0.875	INTERGENIC
2L	9665907	2L_9665907_SNP [dm3] 2L_9665907_SNP [dm6]	C	G	2.889e^-5	0.875	INTERGENIC
2L	9665924	2L_9665924_SNP [dm3] 2L_9665924_SNP [dm6]	T	A	2.889e^-5	0.875	INTERGENIC
2L	9665909	2L_9665909_SNP [dm3] 2L_9665909_SNP [dm6]	G	A	2.899e^-5	0.875	INTERGENIC
3L	18835063	3L_18835063_SNP [dm3] 3L_18841963_SNP [dm6]	A	C	2.977e^-5	0.875	UPSTREAM Indy INTRON Indy EXON CR32027	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_sens
2L	2186739	2L_2186739_SNP [dm3] 2L_2186739_SNP [dm6]	C	G	2.987e^-5	0.875	UPSTREAM tRNA:CR31946 DOWNSTREAM CR44066 INTERGENIC	TF binding site mE1_TFBS_chinmo mE1_TFBS_HSA
3R	26221652	3R_26221652_SNP [dm3] 3R_30395930_SNP [dm6]	T	C	2.992e^-5	0.875	INTERGENIC
X	11141078	X_11141078_SNP [dm3] X_11247045_SNP [dm6]	G	A	3.007e^-5	0.875	SYNONYMOUS_CODING CG44422 INTRON CG44422	TF binding site BDTNP1_TFBS_sna mE1_TFBS_chinmo mE1_TFBS_HSA
3R	18868153	3R_18868153_SNP [dm3] 3R_23042431_SNP [dm6]	C	T	3.013e^-5	0.875	SYNONYMOUS_CODING CG13838	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi mE1_TFBS_HSA
3L	2132745	3L_2132745_SNP [dm3] 3L_2132745_SNP [dm6]	G	A	3.130e^-5	0.875	INTRON zormin
3L	18099602	3L_18099602_SNP [dm3] 3L_18106502_SNP [dm6]	A	T	3.138e^-5	0.875	UPSTREAM mRpS26 & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_z mE1_TFBS_HSA
2L	1193619	2L_1193619_SNP [dm3] 2L_1193619_SNP [dm6]	G	A	3.164e^-5	0.875	INTRON CG5001
X	11438528	X_11438528_SNP [dm3] X_11544495_SNP [dm6]	A	G	3.184e^-5	0.875	INTRON Drak	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
3L	7325106	3L_7325106_SNP [dm3] 3L_7332006_SNP [dm6]	A	G	3.286e^-5	0.875	SYNONYMOUS_CODING mus312 UTR_3_PRIME mus312 & 1 other	TF binding site mE1_TFBS_sens
3L	22158157	3L_22158157_SNP [dm3] 3L_22165057_SNP [dm6]	G	A	3.423e^-5	0.875	INTRON olf413	TF binding site mE1_TFBS_Kr
3R	21639337	3R_21639337_SNP [dm3] 3R_25813615_SNP [dm6]	A	G	3.435e^-5	0.875	DOWNSTREAM CG17770 & 1 other INTERGENIC
2L	4097536	2L_4097536_SNP [dm3] 2L_4097536_SNP [dm6]	C	T	3.481e^-5	0.875	INTRON ed
2L	1021743	2L_1021743_SNP [dm3] 2L_1021743_SNP [dm6]	C	G	3.481e^-5	0.875	INTRON IA-2	TF binding site mE1_TFBS_chinmo mE1_TFBS_HSA
3L	18848338	3L_18848338_SNP [dm3] 3L_18855238_SNP [dm6]	C	T	3.551e^-5	0.875	DOWNSTREAM CR45387 INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA
X	10781839	X_10781839_SNP [dm3] X_10887806_SNP [dm6]	A	G	3.552e^-5	0.875	INTRON Ork1	TF binding site mE1_TFBS_inv
2R	10007815	2R_10007815_SNP [dm3] 2R_14120310_SNP [dm6]	A	G	3.786e^-5	0.875	INTRON Prosap
3R	12976222	3R_12976222_SNP [dm3] 3R_17150500_SNP [dm6]	C	G	3.793e^-5	0.875	UPSTREAM CG5285 DOWNSTREAM Det INTERGENIC	TF binding site mE1_TFBS_ttk
2L	4280335	2L_4280335_SNP [dm3] 2L_4280335_SNP [dm6]	T	C	3.803e^-5	0.875	INTRON Art2	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_gt BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_tll BDTNP1_TFBS_twi
2L	1139286	2L_1139286_SNP [dm3] 2L_1139286_SNP [dm6]	G	C	3.986e^-5	0.875	NON_SYNONYMOUS_CODING CG4577	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
2L	256339	2L_256339_SNP [dm3] 2L_256339_SNP [dm6]	G	A	3.988e^-5	0.875	INTRON CG3645
3L	2104988	3L_2104988_SNP [dm3] 3L_2104988_SNP [dm6]	A	G	4.033e^-5	0.875	SYNONYMOUS_CODING sls	TF binding site mE1_TFBS_chinmo
3R	10808478	3R_10808478_SNP [dm3] 3R_14982756_SNP [dm6]	A	C	4.069e^-5	0.875	INTERGENIC
3L	13313472	3L_13313472_SNP [dm3] 3L_13320372_SNP [dm6]	A	C	4.080e^-5	0.875	INTERGENIC
2L	1611183	2L_1611183_SNP [dm3] 2L_1611183_SNP [dm6]	G	A	4.139e^-5	0.875	UPSTREAM CG14352 & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_Ubx
2L	1912431	2L_1912431_SNP [dm3] 2L_1912431_SNP [dm6]	A	T	4.218e^-5	0.875	INTRON CG7337
3R	27022990	3R_27022990_SNP [dm3] 3R_31197268_SNP [dm6]	A	G	4.221e^-5	0.875	INTRON CG1544	TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_inv mE1_TFBS_sens
3R	12976408	3R_12976408_SNP [dm3] 3R_17150686_SNP [dm6]	T	G	4.234e^-5	0.875	NON_SYNONYMOUS_CODING CG5285 DOWNSTREAM Det	TF binding site mE1_TFBS_ttk
2L	1610856	2L_1610856_SNP [dm3] 2L_1610856_SNP [dm6]	C	A	4.235e^-5	0.875	SYNONYMOUS_CODING CG31935 UPSTREAM CG14352	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_Ubx
3R	25806070	3R_25806070_SNP [dm3] 3R_29980348_SNP [dm6]	C	T	4.398e^-5	0.875	INTERGENIC	TF binding site mE1_TFBS_HSA
2R	19215728	2R_19215728_SNP [dm3] 2R_23328205_SNP [dm6]	G	A	4.400e^-5	0.875	UPSTREAM CG30417 INTERGENIC
3L	18848339	3L_18848339_DEL [dm3] 3L_18855239_DEL [dm6]	AAC	A	4.454e^-5	0.875	DOWNSTREAM CR45387 INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA
2R	10348593	2R_10348593_SNP [dm3] 2R_14461088_SNP [dm6]	G	T	4.476e^-5	0.875	INTRON Oaz	TF binding site mE1_TFBS_cad
3L	7882834	3L_7882834_SNP [dm3] 3L_7889734_SNP [dm6]	G	A	4.618e^-5	0.875	INTRON CG32365	TF binding site BDTNP1_TFBS_dl
3R	25933214	3R_25933214_SNP [dm3] 3R_30107492_SNP [dm6]	T	A	4.693e^-5	0.875	INTRON sima
2L	1135277	2L_1135277_SNP [dm3] 2L_1135277_SNP [dm6]	C	T	4.805e^-5	0.875	INTRON CG4577	TF binding site mE1_TFBS_chinmo mE1_TFBS_HSA
3R	6298804	3R_6298804_SNP [dm3] 3R_10473082_SNP [dm6]	A	C	4.928e^-5	0.875	INTERGENIC	TF binding site mE1_TFBS_chinmo
3R	17497989	3R_17497989_SNP [dm3] 3R_21672267_SNP [dm6]	G	A	4.969e^-5	0.875	UPSTREAM DNApol-alpha180 DOWNSTREAM CG31176 INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_HSA
3R	17550468	3R_17550468_SNP [dm3] 3R_21724746_SNP [dm6]	A	T	5.004e^-5	0.875	INTERGENIC
2L	9196795	2L_9196795_SNP [dm3] 2L_9196795_SNP [dm6]	C	G	5.084e^-5	0.875	INTRON tai
3R	17498949	3R_17498949_SNP [dm3] 3R_21673227_SNP [dm6]	G	T	5.104e^-5	0.875	INTRON CG31176
X	18251508	X_18251508_DEL [dm3] X_18357475_DEL [dm6]	TATGTGAATGAGTT...	A	5.282e^-5	0.875	INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
3R	16880933	3R_16880933_DEL [dm3] 3R_21055211_DEL [dm6]	AA	A	5.351e^-5	0.875	INTRON Mvl
3R	17498869	3R_17498869_SNP [dm3] 3R_21673147_SNP [dm6]	A	G	5.425e^-5	0.875	INTRON CG31176

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=6.652e^-2)
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	0.06008

Kruskal-Wallis test

Covariate	χ²	p-value	Significance
In_2L_t	5.4074	0.067
In_3R_P	5.8972	0.0524

PNG PDF

QQplot

PNG PDF

Manhattan plot

GWAS results

2075 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	10942750	2L_10942750_SNP [dm3] 2L_10942750_SNP [dm6]	C	T	1.243e^-7	0.233	DOWNSTREAM CR44493 INTRON dpr2 EXON CR44492
2L	7713170	2L_7713170_SNP [dm3] 2L_7713170_SNP [dm6]	A	G	3.408e^-7	0.261	SYNONYMOUS_CODING Ntl DOWNSTREAM CG33296
2L	11384657	2L_11384657_SNP [dm3] 2L_11384657_SNP [dm6]	G	A	4.171e^-7	0.261	INTERGENIC	regulatory region REDfly_CRMs TF binding site mE1_TFBS_chinmo
2R	18895249	2R_18895249_INS [dm3] 2R_23007726_INS [dm6]	T	TT	7.958e^-7	0.373	INTRON twi	TF binding site BDTNP1_TFBS_twi
2R	1721390	2R_1721390_SNP [dm3] 2R_5833885_SNP [dm6]	G	T	1.247e^-6	0.468	INTRON dpr12
2L	1163763	2L_1163763_SNP [dm3] 2L_1163763_SNP [dm6]	T	C	1.555e^-6	0.486	UTR_5_PRIME CG5080 UPSTREAM IntS14	TF binding site mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_Trl
2R	2101048	2R_2101048_SNP [dm3] 2R_6213543_SNP [dm6]	G	A	2.148e^-6	0.503	SYNONYMOUS_CODING l_2_k14710	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_sens
2R	2101829	2R_2101829_SNP [dm3] 2R_6214324_SNP [dm6]	C	G	2.148e^-6	0.503	UPSTREAM bin3 & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_h mE1_TFBS_HSA mE1_TFBS_Ubx
3L	5410643	3L_5410643_SNP [dm3] 3L_5417543_SNP [dm6]	C	T	2.677e^-6	0.558	INTERGENIC
2L	2398200	2L_2398200_SNP [dm3] 2L_2398200_SNP [dm6]	T	C	4.301e^-6	0.706	INTRON VGlut
2L	11383900	2L_11383900_SNP [dm3] 2L_11383900_SNP [dm6]	C	T	4.951e^-6	0.706	INTERGENIC	regulatory region REDfly_CRMs
3L	16089539	3L_16089539_SNP [dm3] 3L_16096439_SNP [dm6]	G	A	5.061e^-6	0.706	SYNONYMOUS_CODING CG13074 DOWNSTREAM ClC-c	TF binding site mE1_TFBS_cad
3L	14722629	3L_14722629_SNP [dm3] 3L_14729529_SNP [dm6]	T	C	5.092e^-6	0.706	DOWNSTREAM CG13473 INTRON ome
2L	2398141	2L_2398141_SNP [dm3] 2L_2398141_SNP [dm6]	G	A	6.850e^-6	0.706	INTRON VGlut
3L	8145800	3L_8145800_SNP [dm3] 3L_8152700_SNP [dm6]	T	C	7.048e^-6	0.706	UPSTREAM CG13676 INTERGENIC
3L	14722582	3L_14722582_SNP [dm3] 3L_14729482_SNP [dm6]	C	T	7.842e^-6	0.706	DOWNSTREAM CG13473 INTRON ome
2L	3269338	2L_3269338_SNP [dm3] 2L_3269338_SNP [dm6]	T	G	7.898e^-6	0.706	UPSTREAM CG3347 DOWNSTREAM CR44484 INTERGENIC
2L	11380100	2L_11380100_SNP [dm3] 2L_11380100_SNP [dm6]	C	T	8.097e^-6	0.706	INTERGENIC	regulatory region REDfly_CRMs
2R	12022180	2R_12022180_SNP [dm3] 2R_16134675_SNP [dm6]	A	T	8.641e^-6	0.706	INTRON spin
2R	4526334	2R_4526334_SNP [dm3] 2R_8638829_SNP [dm6]	T	G	9.038e^-6	0.706	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_prd BDTNP1_TFBS_twi mE1_TFBS_cad
2L	1166232	2L_1166232_SNP [dm3] 2L_1166232_SNP [dm6]	C	T	9.987e^-6	0.706	SYNONYMOUS_CODING IntS14 UPSTREAM CG14341 DOWNSTREAM Plap	TF binding site mE1_TFBS_cad
2L	14657158	2L_14657158_SNP [dm3] 2L_14657158_SNP [dm6]	C	T	1.003e^-5	0.706	INTRON osp
2L	10939598	2L_10939598_SNP [dm3] 2L_10939598_SNP [dm6]	C	T	1.023e^-5	0.706	INTRON dpr2
3L	15703887	3L_15703887_SNP [dm3] 3L_15710787_SNP [dm6]	T	A	1.072e^-5	0.706	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_tll BDTNP1_TFBS_twi mE1_TFBS_cad
3L	23881093	3L_23881093_SNP [dm3] 3L_23887993_SNP [dm6]	G	C	1.113e^-5	0.706	INTRON CG40470
2L	1188924	2L_1188924_SNP [dm3] 2L_1188924_SNP [dm6]	C	T	1.153e^-5	0.706	INTRON CG5001
3R	13115706	3R_13115706_SNP [dm3] 3R_17289984_SNP [dm6]	A	T	1.158e^-5	0.706	INTERGENIC
3L	16037894	3L_16037894_SNP [dm3] 3L_16044794_SNP [dm6]	A	G	1.207e^-5	0.706	INTRON th	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_disco mE1_TFBS_GATAe mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_Stat92E mE1_TFBS_Trl
3R	10651277	3R_10651277_SNP [dm3] 3R_14825555_SNP [dm6]	C	G	1.218e^-5	0.706	SYNONYMOUS_CODING btsz
3L	5410645	3L_5410645_SNP [dm3] 3L_5417545_SNP [dm6]	G	A	1.236e^-5	0.706	INTERGENIC
3L	11623108	3L_11623108_SNP [dm3] 3L_11630008_SNP [dm6]	A	G	1.258e^-5	0.706	DOWNSTREAM mir-3642 & 1 other INTRON CG18815
3R	14779716	3R_14779716_SNP [dm3] 3R_18953994_SNP [dm6]	G	T	1.269e^-5	0.706	INTRON CG42613 & 1 other
2L	11381949	2L_11381949_SNP [dm3] 2L_11381949_SNP [dm6]	G	A	1.350e^-5	0.706	INTERGENIC	regulatory region REDfly_CRMs
X	18730781	X_18730781_SNP [dm3] X_18836748_SNP [dm6]	C	A	1.371e^-5	0.706	INTRON Pvf1
2R	2103781	2R_2103781_SNP [dm3] 2R_6216276_SNP [dm6]	A	T	1.377e^-5	0.706	INTRON bin3 EXON CR44161	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl mE1_TFBS_HSA
3R	16886570	3R_16886570_SNP [dm3] 3R_21060848_SNP [dm6]	G	T	1.399e^-5	0.706	UPSTREAM Mvl DOWNSTREAM Cortactin INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_cad mE1_TFBS_D mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_Trl
3R	10573170	3R_10573170_SNP [dm3] 3R_14747448_SNP [dm6]	C	T	1.466e^-5	0.706	UPSTREAM smp-30 INTRON jvl & 1 other	TF binding site BDTNP1_TFBS_z
2L	10818043	2L_10818043_SNP [dm3] 2L_10818043_SNP [dm6]	T	C	1.510e^-5	0.706	INTRON Nos
X	4942645	X_4942645_INS [dm3] X_5048612_INS [dm6]	A	AA	1.515e^-5	0.706	UTR_5_PRIME ovo INTRON CR44833	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_D mE1_TFBS_HSA mE1_TFBS_Trl
2L	10058253	2L_10058253_SNP [dm3] 2L_10058253_SNP [dm6]	A	C	1.645e^-5	0.706	SYNONYMOUS_CODING Pen	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_sens
2R	2093461	2R_2093461_SNP [dm3] 2R_6205956_SNP [dm6]	C	T	1.649e^-5	0.706	DOWNSTREAM CG30431 INTERGENIC	TF binding site mE1_TFBS_HSA mE1_TFBS_sbb
2L	1160441	2L_1160441_SNP [dm3] 2L_1160441_SNP [dm6]	G	A	1.686e^-5	0.706	UTR_3_PRIME CG5080 DOWNSTREAM Tango14	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
3L	13769605	3L_13769605_SNP [dm3] 3L_13776505_SNP [dm6]	T	A	1.750e^-5	0.706	INTRON bru-3
X	9914472	X_9914472_SNP [dm3] X_10020439_SNP [dm6]	T	C	1.869e^-5	0.706	INTRON Cht6
3R	21731647	3R_21731647_SNP [dm3] 3R_25905925_SNP [dm6]	A	G	1.872e^-5	0.706	INTRON CR43259 EXON CR43259
3R	14668779	3R_14668779_SNP [dm3] 3R_18843057_SNP [dm6]	A	T	1.891e^-5	0.706	INTRON CG18208
3L	23841459	3L_23841459_SNP [dm3] 3L_23848359_SNP [dm6]	A	T	1.894e^-5	0.706	INTRON CG40470
2L	14651832	2L_14651832_SNP [dm3] 2L_14651832_SNP [dm6]	G	A	1.947e^-5	0.706	INTRON osp	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_prd BDTNP1_TFBS_twi
2L	14651833	2L_14651833_SNP [dm3] 2L_14651833_SNP [dm6]	A	G	1.947e^-5	0.706	INTRON osp	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_prd BDTNP1_TFBS_twi
2L	9586230	2L_9586230_SNP [dm3] 2L_9586230_SNP [dm6]	G	T	1.955e^-5	0.706	UPSTREAM CR43621 INTERGENIC	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_prd BDTNP1_TFBS_slp1
X	18730736	X_18730736_SNP [dm3] X_18836703_SNP [dm6]	A	T	1.977e^-5	0.706	INTRON Pvf1
2R	13092466	2R_13092466_SNP [dm3] 2R_17204961_SNP [dm6]	C	T	1.983e^-5	0.706	UPSTREAM CG43237 INTERGENIC
3R	13355181	3R_13355181_SNP [dm3] 3R_17529459_SNP [dm6]	G	T	2.005e^-5	0.706	INTERGENIC
2L	2398040	2L_2398040_SNP [dm3] 2L_2398040_SNP [dm6]	A	G	2.122e^-5	0.706	INTRON VGlut
2L	7711603	2L_7711603_SNP [dm3] 2L_7711603_SNP [dm6]	T	C	2.149e^-5	0.706	SPLICE_SITE_DONOR Ntl DOWNSTREAM Tep3 INTRON Ntl & 1 other
3L	23880121	3L_23880121_SNP [dm3] 3L_23887021_SNP [dm6]	T	A	2.211e^-5	0.706	INTRON CG40470
2R	19108123	2R_19108123_SNP [dm3] 2R_23220600_SNP [dm6]	A	G	2.323e^-5	0.706	INTERGENIC
3R	17928836	3R_17928836_SNP [dm3] 3R_22103114_SNP [dm6]	C	T	2.341e^-5	0.706	UPSTREAM CG13407 INTRON CG5778
3R	10698524	3R_10698524_SNP [dm3] 3R_14872802_SNP [dm6]	T	C	2.360e^-5	0.706	INTRON btsz
3L	11623157	3L_11623157_SNP [dm3] 3L_11630057_SNP [dm6]	G	T	2.375e^-5	0.706	DOWNSTREAM mir-3642 & 1 other INTRON CG18815
X	22261517	X_22261517_SNP [dm3] X_22859681_SNP [dm6]	C	A	2.394e^-5	0.706	INTRON CG42346	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_prd BDTNP1_TFBS_twi mE1_TFBS_HSA
3R	16894944	3R_16894944_SNP [dm3] 3R_21069222_SNP [dm6]	T	A	2.401e^-5	0.706	INTRON AnxB9	TF binding site mE1_TFBS_HSA
2L	11380665	2L_11380665_DEL [dm3] 2L_11380665_DEL [dm6]	AATTATAAAAGCTACGGCGC...	A	2.403e^-5	0.706	INTERGENIC	regulatory region REDfly_CRMs
3L	16037905	3L_16037905_SNP [dm3] 3L_16044805_SNP [dm6]	A	T	2.411e^-5	0.706	INTRON th	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_disco mE1_TFBS_GATAe mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_Stat92E mE1_TFBS_Trl
2L	11380654	2L_11380654_SNP [dm3] 2L_11380654_SNP [dm6]	G	A	2.658e^-5	0.739	INTERGENIC	regulatory region REDfly_CRMs
2L	12050194	2L_12050194_SNP [dm3] 2L_12050194_SNP [dm6]	A	G	2.712e^-5	0.739	SYNONYMOUS_CODING CG14945	TF binding site mE1_TFBS_chinmo
X	4329960	X_4329960_SNP [dm3] X_4435927_SNP [dm6]	A	T	2.721e^-5	0.739	INTRON CR32773 & 1 other	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA mE1_TFBS_Trl
2R	2103352	2R_2103352_SNP [dm3] 2R_6215847_SNP [dm6]	C	A	2.732e^-5	0.739	DOWNSTREAM CR44161 INTRON bin3	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA
3R	10573227	3R_10573227_SNP [dm3] 3R_14747505_SNP [dm6]	C	A	2.750e^-5	0.739	UPSTREAM smp-30 INTRON jvl & 1 other	TF binding site BDTNP1_TFBS_z
2R	16251761	2R_16251761_SNP [dm3] 2R_20364256_SNP [dm6]	T	C	2.758e^-5	0.739	INTERGENIC
X	22260473	X_22260473_SNP [dm3] X_22858637_SNP [dm6]	A	G	2.936e^-5	0.756	INTRON CG42346	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA
2L	9344821	2L_9344821_SNP [dm3] 2L_9344821_SNP [dm6]	T	A	2.941e^-5	0.756	DOWNSTREAM CG3748 INTERGENIC
3L	15703886	3L_15703886_SNP [dm3] 3L_15710786_SNP [dm6]	T	C	2.978e^-5	0.756	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_tll BDTNP1_TFBS_twi mE1_TFBS_cad
3L	13597908	3L_13597908_SNP [dm3] 3L_13604808_SNP [dm6]	A	C	2.984e^-5	0.756	INTRON bru-3
3R	19908294	3R_19908294_SNP [dm3] 3R_24082572_SNP [dm6]	A	T	3.152e^-5	0.779	INTRON 4EHP
3L	3013542	3L_3013542_SNP [dm3] 3L_3013542_SNP [dm6]	T	A	3.184e^-5	0.779	INTERGENIC
3R	20350386	3R_20350386_SNP [dm3] 3R_24524664_SNP [dm6]	T	C	3.198e^-5	0.779	UPSTREAM CG13622 & 1 other INTERGENIC
3R	2981679	3R_2981679_SNP [dm3] 3R_7155957_SNP [dm6]	T	G	3.276e^-5	0.788	UPSTREAM MAGE INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_inv
3R	13857789	3R_13857789_SNP [dm3] 3R_18032067_SNP [dm6]	T	C	3.424e^-5	0.792	INTERGENIC
3L	3145052	3L_3145052_SNP [dm3] 3L_3145052_SNP [dm6]	C	T	3.431e^-5	0.792	NON_SYNONYMOUS_CODING CG1291 DOWNSTREAM CG12082	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
X	4119446	X_4119446_SNP [dm3] X_4225413_SNP [dm6]	A	C	3.472e^-5	0.792	INTERGENIC
2L	2398025	2L_2398025_SNP [dm3] 2L_2398025_SNP [dm6]	A	G	3.498e^-5	0.792	INTRON VGlut
2R	1965316	2R_1965316_SNP [dm3] 2R_6077811_SNP [dm6]	A	G	3.530e^-5	0.792	SYNONYMOUS_CODING CG7849 DOWNSTREAM CG14590
3L	23945762	3L_23945762_SNP [dm3] 3L_23952662_SNP [dm6]	G	A	3.573e^-5	0.792	INTRON CG40470
2L	10830399	2L_10830399_SNP [dm3] 2L_10830399_SNP [dm6]	G	C	3.618e^-5	0.792	INTRON Nos
3R	13379336	3R_13379336_SNP [dm3] 3R_17553614_SNP [dm6]	C	T	3.630e^-5	0.792	INTERGENIC
3L	13769604	3L_13769604_SNP [dm3] 3L_13776504_SNP [dm6]	C	A	3.772e^-5	0.803	INTRON bru-3
3L	18485233	3L_18485233_SNP [dm3] 3L_18492133_SNP [dm6]	A	G	3.779e^-5	0.803	INTRON AstC-R2
X	4942687	X_4942687_INS [dm3] X_5048654_INS [dm6]	A	AA	3.811e^-5	0.803	UTR_5_PRIME ovo INTRON CR44833	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_D mE1_TFBS_HSA mE1_TFBS_Trl
2L	16121690	2L_16121690_SNP [dm3] 2L_16121690_SNP [dm6]	A	T	3.938e^-5	0.809	INTERGENIC
3R	10698688	3R_10698688_SNP [dm3] 3R_14872966_SNP [dm6]	A	G	4.045e^-5	0.809	INTRON btsz
3L	13769594	3L_13769594_SNP [dm3] 3L_13776494_SNP [dm6]	A	T	4.050e^-5	0.809	INTRON bru-3
3L	24371897	3L_24371897_SNP [dm3] 3L_24378797_SNP [dm6]	G	C	4.080e^-5	0.809	INTRON nvd
3L	16498892	3L_16498892_SNP [dm3] 3L_16505792_SNP [dm6]	G	C	4.146e^-5	0.809	INTRON CG43373
3R	19736429	3R_19736429_SNP [dm3] 3R_23910707_SNP [dm6]	T	C	4.217e^-5	0.809	INTRON sba
2L	2398033	2L_2398033_SNP [dm3] 2L_2398033_SNP [dm6]	C	G	4.256e^-5	0.809	INTRON VGlut
X	6834427	X_6834427_SNP [dm3] X_6940394_SNP [dm6]	G	A	4.276e^-5	0.809	INTRON CG14431
2L	9344508	2L_9344508_DEL [dm3] 2L_9344508_DEL [dm6]	TC	T	4.283e^-5	0.809	UTR_3_PRIME CG3748 DOWNSTREAM CG3748
2L	13873863	2L_13873863_SNP [dm3] 2L_13873863_SNP [dm6]	T	G	4.326e^-5	0.809	INTRON CenG1A
3L	336811	3L_336811_SNP [dm3] 3L_336811_SNP [dm6]	C	T	4.429e^-5	0.809	INTRON Ptpmeg & 1 other

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By genomic position
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Gene name

mn_Resp_Eugenol 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