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=1.540e^-2)
Null Hypothesis is rejected (p<=0.05).
Interpretation: NOT NORMAL distribution of this phenotype

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

ANOVA test

Covariate	p-value	Significance
In_2L_t	0.02581
In_3R_Mo	0.07767

Kruskal-Wallis test

Covariate	χ²	p-value
In_2L_t	6.7683	0.0339
In_3R_K	6.5123	0.0385
In_3R_Mo	4.6745	0.0966

PNG PDF

QQplot

PNG PDF

Manhattan plot

GWAS results

2230 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
3L	14813948	3L_14813948_SNP [dm3] 3L_14820848_SNP [dm6]	G	A	2.137e^-6	0.607	INTRON CG17839
3L	15483312	3L_15483312_SNP [dm3] 3L_15490212_SNP [dm6]	A	G	2.155e^-6	0.607	INTERGENIC
2R	12116819	2R_12116819_SNP [dm3] 2R_16229314_SNP [dm6]	A	G	2.673e^-6	0.607	SYNONYMOUS_CODING Tsf3 UPSTREAM CG15701 INTRON CG15706	TF binding site mE1_TFBS_chinmo mE1_TFBS_HSA mE1_TFBS_sens
3R	13570329	3R_13570329_SNP [dm3] 3R_17744607_SNP [dm6]	A	C	3.945e^-6	0.607	INTRON TyrRII	TF binding site mE1_TFBS_cad
X	20262267	X_20262267_SNP [dm3] X_20391240_SNP [dm6]	A	G	4.554e^-6	0.607	UPSTREAM l_1_G0004 & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA
3L	712385	3L_712385_DEL [dm3] 3L_712385_DEL [dm6]	TA	T	5.407e^-6	0.607	UPSTREAM CG13896 INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_bab1 mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_zfh1
2R	11575928	2R_11575928_SNP [dm3] 2R_15688423_SNP [dm6]	T	C	5.608e^-6	0.607	SYNONYMOUS_CODING Cep89	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
2R	13415564	2R_13415564_SNP [dm3] 2R_17528059_SNP [dm6]	G	A	5.848e^-6	0.607	SYNONYMOUS_CODING Patronin
3L	13553816	3L_13553816_DEL [dm3] 3L_13560716_DEL [dm6]	GTCGACGTAGCGACACT...	G	6.036e^-6	0.607	INTRON bru-3
3L	16896011	3L_16896011_SNP [dm3] 3L_16902911_SNP [dm6]	A	T	6.052e^-6	0.607	NON_SYNONYMOUS_CODING Lmpt INTRON Lmpt	TF binding site mE1_TFBS_chinmo
3L	16202334	3L_16202334_SNP [dm3] 3L_16209234_SNP [dm6]	A	T	6.533e^-6	0.607	INTERGENIC	TF binding site mE1_TFBS_cad
3L	14929590	3L_14929590_SNP [dm3] 3L_14936490_SNP [dm6]	G	C	6.734e^-6	0.607	INTRON DCX-EMAP
3L	712399	3L_712399_SNP [dm3] 3L_712399_SNP [dm6]	A	T	7.046e^-6	0.607	UPSTREAM CG13896 INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_bab1 mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_zfh1
3L	15483333	3L_15483333_SNP [dm3] 3L_15490233_SNP [dm6]	T	C	7.054e^-6	0.607	INTERGENIC
3L	712423	3L_712423_SNP [dm3] 3L_712423_SNP [dm6]	G	C	7.276e^-6	0.607	UPSTREAM CG13896 INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_bab1 mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_zfh1
3R	13600672	3R_13600672_SNP [dm3] 3R_17774950_SNP [dm6]	C	T	7.647e^-6	0.607	UTR_5_PRIME CG43102 INTRON CG43102	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
3L	16202321	3L_16202321_SNP [dm3] 3L_16209221_SNP [dm6]	G	T	7.881e^-6	0.607	INTERGENIC	TF binding site mE1_TFBS_cad
2R	4956241	2R_4956241_SNP [dm3] 2R_9068736_SNP [dm6]	T	G	8.276e^-6	0.607	UPSTREAM ana INTRON ana
3L	712384	3L_712384_SNP [dm3] 3L_712384_SNP [dm6]	T	C	8.378e^-6	0.607	UPSTREAM CG13896 INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_bab1 mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_zfh1
3L	712376	3L_712376_SNP [dm3] 3L_712376_SNP [dm6]	G	A	8.542e^-6	0.607	UPSTREAM CG13896 INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_bab1 mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_zfh1
3L	8207850	3L_8207850_SNP [dm3] 3L_8214750_SNP [dm6]	T	C	8.615e^-6	0.607	UPSTREAM CG8012 INTERGENIC
3L	13557427	3L_13557427_INS [dm3] 3L_13564327_INS [dm6]	G	TA	8.741e^-6	0.607	INTRON bru-3
3L	13557430	3L_13557430_DEL [dm3] 3L_13564330_DEL [dm6]	GTTT	G	8.741e^-6	0.607	INTRON bru-3
3L	15483419	3L_15483419_SNP [dm3] 3L_15490319_SNP [dm6]	T	A	8.904e^-6	0.607	INTERGENIC
2R	13415561	2R_13415561_SNP [dm3] 2R_17528056_SNP [dm6]	A	G	8.927e^-6	0.607	SYNONYMOUS_CODING Patronin
3R	5121979	3R_5121979_SNP [dm3] 3R_9296257_SNP [dm6]	T	G	8.954e^-6	0.607	INTRON CG8861
2R	19127148	2R_19127148_SNP [dm3] 2R_23239625_SNP [dm6]	T	G	9.049e^-6	0.607	INTERGENIC
X	4094020	X_4094020_SNP [dm3] X_4199987_SNP [dm6]	T	C	9.712e^-6	0.607	INTRON Fas2	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi
3L	14489486	3L_14489486_SNP [dm3] 3L_14496386_SNP [dm6]	A	C	9.760e^-6	0.607	INTRON bbg	TF binding site mE1_TFBS_cad
3L	14489495	3L_14489495_SNP [dm3] 3L_14496395_SNP [dm6]	G	A	9.760e^-6	0.607	INTRON bbg	TF binding site mE1_TFBS_cad
3L	14489497	3L_14489497_SNP [dm3] 3L_14496397_SNP [dm6]	T	A	1.004e^-5	0.607	INTRON bbg	TF binding site mE1_TFBS_cad
2R	11576547	2R_11576547_SNP [dm3] 2R_15689042_SNP [dm6]	A	G	1.082e^-5	0.612	UPSTREAM CG30090 & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_twi mE1_TFBS_cad
3R	17455708	3R_17455708_SNP [dm3] 3R_21629986_SNP [dm6]	G	T	1.110e^-5	0.612	INTRON E2f	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_Trl
X	10443026	X_10443026_SNP [dm3] X_10548993_SNP [dm6]	C	T	1.121e^-5	0.612	INTRON spri
2L	376777	2L_376777_SNP [dm3] 2L_376777_SNP [dm6]	G	A	1.142e^-5	0.612	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_prd mE1_TFBS_HSA mE1_TFBS_sens
3L	1109916	3L_1109916_SNP [dm3] 3L_1109916_SNP [dm6]	C	T	1.232e^-5	0.627	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_hb BDTNP1_TFBS_twi
3R	10435085	3R_10435085_SNP [dm3] 3R_14609363_SNP [dm6]	G	T	1.237e^-5	0.627	UPSTREAM CG14853 INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_Trl
X	20262270	X_20262270_INS [dm3] X_20391243_INS [dm6]	A	ATCAATAATAATTCAA...	1.281e^-5	0.632	UPSTREAM l_1_G0004 & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA
2R	11724908	2R_11724908_SNP [dm3] 2R_15837403_SNP [dm6]	C	T	1.315e^-5	0.632	INTRON tun	regulatory region REDfly_CRMs
2R	8137681	2R_8137681_SNP [dm3] 2R_12250176_SNP [dm6]	A	C	1.387e^-5	0.636	INTERGENIC
3R	6253276	3R_6253276_SNP [dm3] 3R_10427554_SNP [dm6]	G	A	1.391e^-5	0.636	INTERGENIC
2R	13506075	2R_13506075_SNP [dm3] 2R_17618570_SNP [dm6]	T	G	1.454e^-5	0.636	UPSTREAM CG44403 INTRON CG10936
3L	712388	3L_712388_DEL [dm3] 3L_712388_DEL [dm6]	AAT	A	1.491e^-5	0.636	UPSTREAM CG13896 INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_bab1 mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_zfh1
3L	20187373	3L_20187373_SNP [dm3] 3L_20194273_SNP [dm6]	G	T	1.557e^-5	0.636	INTRON CG42674
3L	712348	3L_712348_SNP [dm3] 3L_712348_SNP [dm6]	G	T	1.607e^-5	0.636	UPSTREAM CG13896 INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_bab1 mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_zfh1
3L	18202542	3L_18202542_SNP [dm3] 3L_18209442_SNP [dm6]	A	T	1.653e^-5	0.636	INTERGENIC
2L	9443434	2L_9443434_SNP [dm3] 2L_9443434_SNP [dm6]	C	T	1.661e^-5	0.636	INTRON numb
3L	14555445	3L_14555445_SNP [dm3] 3L_14562345_SNP [dm6]	A	T	1.720e^-5	0.636	INTRON CG34039	TF binding site mE1_TFBS_bab1 mE1_TFBS_ttk
X	4093930	X_4093930_SNP [dm3] X_4199897_SNP [dm6]	T	C	1.741e^-5	0.636	INTRON Fas2	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi
3L	13272867	3L_13272867_SNP [dm3] 3L_13279767_SNP [dm6]	A	G	1.928e^-5	0.636	UPSTREAM tRNA:CR32123:Psi DOWNSTREAM caps INTERGENIC	TF binding site BDTNP1_TFBS_twi
3R	3469607	3R_3469607_SNP [dm3] 3R_7643885_SNP [dm6]	C	T	1.980e^-5	0.636	INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
X	17952250	X_17952250_SNP [dm3] X_18058217_SNP [dm6]	G	A	2.080e^-5	0.636	INTRON Sh
2L	9463855	2L_9463855_SNP [dm3] 2L_9463855_SNP [dm6]	C	T	2.100e^-5	0.636	UTR_3_PRIME numb DOWNSTREAM numb	TF binding site mE1_TFBS_kn
3R	13600157	3R_13600157_SNP [dm3] 3R_17774435_SNP [dm6]	T	G	2.117e^-5	0.636	UTR_5_PRIME CG43102 INTRON CG43102	TF binding site mE1_TFBS_chinmo
2L	21921535	2L_21921535_SNP [dm3] 2L_21921535_SNP [dm6]	T	C	2.138e^-5	0.636	INTERGENIC
2L	22020494	2L_22020494_SNP [dm3] 2L_22020494_SNP [dm6]	A	G	2.140e^-5	0.636	DOWNSTREAM CR33987 INTRON tio	TF binding site mE1_TFBS_Trl
3L	14489539	3L_14489539_INS [dm3] 3L_14496439_INS [dm6]	A	ATTTTCTA	2.157e^-5	0.636	INTRON bbg
2R	15697740	2R_15697740_SNP [dm3] 2R_19810235_SNP [dm6]	T	G	2.182e^-5	0.636	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_sens
3L	14489459	3L_14489459_SNP [dm3] 3L_14496359_SNP [dm6]	G	C	2.273e^-5	0.636	INTRON bbg	TF binding site mE1_TFBS_cad
3L	712455	3L_712455_SNP [dm3] 3L_712455_SNP [dm6]	C	T	2.303e^-5	0.636	UPSTREAM CG13896 INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_bab1 mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_zfh1
3L	17624822	3L_17624822_SNP [dm3] 3L_17631722_SNP [dm6]	G	C	2.306e^-5	0.636	DOWNSTREAM CG7510 EXON CR44566
3L	4737896	3L_4737896_SNP [dm3] 3L_4737896_SNP [dm6]	G	A	2.333e^-5	0.636	INTRON RhoGEF64C
3L	11791042	3L_11791042_SNP [dm3] 3L_11797942_SNP [dm6]	A	G	2.351e^-5	0.636	SYNONYMOUS_CODING Klp68D	TF binding site BDTNP1_TFBS_prd mE1_TFBS_chinmo mE1_TFBS_HSA mE1_TFBS_sens
2L	4421150	2L_4421150_SNP [dm3] 2L_4421150_SNP [dm6]	G	T	2.360e^-5	0.636	INTRON CG15431
3L	712337	3L_712337_SNP [dm3] 3L_712337_SNP [dm6]	G	T	2.365e^-5	0.636	UPSTREAM CG13896 INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_bab1 mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_zfh1
X	17952248	X_17952248_SNP [dm3] X_18058215_SNP [dm6]	C	A	2.416e^-5	0.636	INTRON Sh
3L	712319	3L_712319_INS [dm3] 3L_712319_INS [dm6]	C	CA	2.465e^-5	0.636	UPSTREAM CG13896 INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_bab1 mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_zfh1
3L	712342	3L_712342_SNP [dm3] 3L_712342_SNP [dm6]	A	T	2.465e^-5	0.636	UPSTREAM CG13896 INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_bab1 mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_zfh1
2R	4956302	2R_4956302_SNP [dm3] 2R_9068797_SNP [dm6]	C	T	2.466e^-5	0.636	UPSTREAM ana INTRON ana
X	3154188	X_3154188_SNP [dm3] X_3260155_SNP [dm6]	C	T	2.495e^-5	0.636	INTRON dnc
3L	16202369	3L_16202369_SNP [dm3] 3L_16209269_SNP [dm6]	G	A	2.503e^-5	0.636	INTERGENIC	TF binding site mE1_TFBS_cad
2R	6795340	2R_6795340_SNP [dm3] 2R_10907835_SNP [dm6]	A	G	2.518e^-5	0.636	INTERGENIC
3L	8391972	3L_8391972_SNP [dm3] 3L_8398872_SNP [dm6]	A	T	2.538e^-5	0.636	INTRON CG7120
2R	12112716	2R_12112716_SNP [dm3] 2R_16225211_SNP [dm6]	A	G	2.624e^-5	0.636	UTR_5_PRIME CG15706
3L	712235	3L_712235_SNP [dm3] 3L_712235_SNP [dm6]	C	T	2.674e^-5	0.636	UPSTREAM CG13896 INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_bab1 mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_Ubx mE1_TFBS_zfh1
X	17503877	X_17503877_SNP [dm3] X_17609844_SNP [dm6]	G	T	2.710e^-5	0.636	INTERGENIC
3L	711790	3L_711790_SNP [dm3] 3L_711790_SNP [dm6]	A	T	2.714e^-5	0.636	UTR_5_PRIME CG13896	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_bab1 mE1_TFBS_D mE1_TFBS_HSA mE1_TFBS_Ubx mE1_TFBS_zfh1
3L	7296139	3L_7296139_DEL [dm3] 3L_7303039_DEL [dm6]	AA	A	2.721e^-5	0.636	INTRON unc-13-4A
3L	743426	3L_743426_SNP [dm3] 3L_743426_SNP [dm6]	C	T	2.834e^-5	0.636	DOWNSTREAM tRNA:M-i:61D INTRON hng3	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_gt BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi
X	20262315	X_20262315_DEL [dm3] X_20391288_DEL [dm6]	TGATGTTTCTTAT...	T	2.847e^-5	0.636	UPSTREAM l_1_G0004 & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA
2L	1675714	2L_1675714_SNP [dm3] 2L_1675714_SNP [dm6]	T	A	2.879e^-5	0.636	INTRON chinmo
2L	1675720	2L_1675720_SNP [dm3] 2L_1675720_SNP [dm6]	C	G	2.879e^-5	0.636	INTRON chinmo
3L	4737895	3L_4737895_SNP [dm3] 3L_4737895_SNP [dm6]	A	G	2.884e^-5	0.636	INTRON RhoGEF64C
2L	16957224	2L_16957224_SNP [dm3] 2L_16957224_SNP [dm6]	A	G	2.907e^-5	0.636	INTERGENIC
X	7064106	X_7064106_SNP [dm3] X_7170073_SNP [dm6]	A	T	2.916e^-5	0.636	INTRON CG9650 & 1 other	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_slp1 BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_disco mE1_TFBS_HSA
2R	6795339	2R_6795339_SNP [dm3] 2R_10907834_SNP [dm6]	G	T	2.928e^-5	0.636	INTERGENIC
3L	1108132	3L_1108132_SNP [dm3] 3L_1108132_SNP [dm6]	G	T	2.953e^-5	0.636	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi
2R	8137710	2R_8137710_SNP [dm3] 2R_12250205_SNP [dm6]	C	A	3.013e^-5	0.641	INTERGENIC
3L	412023	3L_412023_SNP [dm3] 3L_412023_SNP [dm6]	G	T	3.076e^-5	0.641	INTERGENIC
2L	3997257	2L_3997257_INS [dm3] 2L_3997257_INS [dm6]	T	TGA	3.077e^-5	0.641	INTERGENIC
X	7619308	X_7619308_SNP [dm3] X_7725275_SNP [dm6]	A	G	3.254e^-5	0.67	NON_SYNONYMOUS_CODING Hira DOWNSTREAM NELF-B	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
3L	712335	3L_712335_SNP [dm3] 3L_712335_SNP [dm6]	T	A	3.325e^-5	0.673	UPSTREAM CG13896 INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_bab1 mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_zfh1
3R	13600041	3R_13600041_SNP [dm3] 3R_17774319_SNP [dm6]	C	T	3.350e^-5	0.673	UTR_5_PRIME CG43102 INTRON CG43102	TF binding site mE1_TFBS_chinmo
3L	7777439	3L_7777439_SNP [dm3] 3L_7784339_SNP [dm6]	C	T	3.373e^-5	0.673	INTRON CG32369
3L	14489501	3L_14489501_DEL [dm3] 3L_14496401_DEL [dm6]	TA	T	3.410e^-5	0.673	INTRON bbg	TF binding site mE1_TFBS_cad
2R	4950454	2R_4950454_SNP [dm3] 2R_9062949_SNP [dm6]	G	A	3.543e^-5	0.68	INTRON ana	regulatory region REDfly_CRMs
2L	15090507	2L_15090507_SNP [dm3] 2L_15090507_SNP [dm6]	T	C	3.583e^-5	0.68	INTRON CG15270
3R	10436858	3R_10436858_SNP [dm3] 3R_14611136_SNP [dm6]	T	C	3.612e^-5	0.68	INTRON CG14853
3L	7156753	3L_7156753_SNP [dm3] 3L_7163653_SNP [dm6]	G	A	3.627e^-5	0.68	INTRON Dscam2
3L	7156769	3L_7156769_SNP [dm3] 3L_7163669_SNP [dm6]	G	A	3.627e^-5	0.68	INTRON Dscam2

Showing 1 to 100 of 1,000 entries

Previous1 2 3 4 5…10Next

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=7.044e^-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	0.07068
In_3R_K	0.04896

Kruskal-Wallis test

Covariate	χ²	p-value	Significance
In_2L_t	5.8893	0.0526
In_3R_K	7.0087	0.0301

PNG PDF

QQplot

PNG PDF

Manhattan plot

GWAS results

2034 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	3680402	3L_3680402_SNP [dm3] 3L_3680402_SNP [dm6]	T	C	7.289e^-7	0.839	INTERGENIC
3R	27128046	3R_27128046_SNP [dm3] 3R_31302324_SNP [dm6]	C	T	1.648e^-6	0.839	DOWNSTREAM CG11340 INTERGENIC	TF binding site mE1_TFBS_inv
2R	12696827	2R_12696827_SNP [dm3] 2R_16809322_SNP [dm6]	C	A	2.041e^-6	0.839	INTERGENIC
2R	15697740	2R_15697740_SNP [dm3] 2R_19810235_SNP [dm6]	T	G	2.339e^-6	0.839	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_sens
3L	18663595	3L_18663595_SNP [dm3] 3L_18670495_SNP [dm6]	T	C	2.756e^-6	0.839	SYNONYMOUS_CODING Capr	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA mE1_TFBS_inv mE1_TFBS_sens
3R	13570329	3R_13570329_SNP [dm3] 3R_17744607_SNP [dm6]	A	C	3.053e^-6	0.839	INTRON TyrRII	TF binding site mE1_TFBS_cad
3R	6253276	3R_6253276_SNP [dm3] 3R_10427554_SNP [dm6]	G	A	3.185e^-6	0.839	INTERGENIC
3L	16983394	3L_16983394_SNP [dm3] 3L_16990294_SNP [dm6]	C	A	4.463e^-6	0.839	INTRON Exn
3L	14813948	3L_14813948_SNP [dm3] 3L_14820848_SNP [dm6]	G	A	4.605e^-6	0.839	INTRON CG17839
3L	7777439	3L_7777439_SNP [dm3] 3L_7784339_SNP [dm6]	C	T	5.485e^-6	0.839	INTRON CG32369
3L	16983298	3L_16983298_INS [dm3] 3L_16990198_INS [dm6]	A	AG	5.874e^-6	0.839	INTRON Exn
2L	3997257	2L_3997257_INS [dm3] 2L_3997257_INS [dm6]	T	TGA	6.166e^-6	0.839	INTERGENIC
2R	6795339	2R_6795339_SNP [dm3] 2R_10907834_SNP [dm6]	G	T	6.267e^-6	0.839	INTERGENIC
2R	6795340	2R_6795340_SNP [dm3] 2R_10907835_SNP [dm6]	A	G	6.507e^-6	0.839	INTERGENIC
3L	8391972	3L_8391972_SNP [dm3] 3L_8398872_SNP [dm6]	A	T	6.799e^-6	0.839	INTRON CG7120
3L	8391974	3L_8391974_SNP [dm3] 3L_8398874_SNP [dm6]	G	A	7.897e^-6	0.839	INTRON CG7120
3L	14376180	3L_14376180_SNP [dm3] 3L_14383080_SNP [dm6]	C	T	8.338e^-6	0.839	UTR_3_PRIME CG43120
X	18464186	X_18464186_SNP [dm3] X_18570153_SNP [dm6]	C	A	8.693e^-6	0.839	INTRON Bx	TF binding site BDTNP1_TFBS_da mE1_TFBS_chinmo
2R	11251263	2R_11251263_SNP [dm3] 2R_15363758_SNP [dm6]	T	A	9.468e^-6	0.839	INTRON unc-5
3L	2645081	3L_2645081_SNP [dm3] 3L_2645081_SNP [dm6]	A	G	9.681e^-6	0.839	UPSTREAM CG1143 INTERGENIC
X	12850971	X_12850971_SNP [dm3] X_12956938_SNP [dm6]	G	T	1.046e^-5	0.839	INTRON hec
2R	11576547	2R_11576547_SNP [dm3] 2R_15689042_SNP [dm6]	A	G	1.052e^-5	0.839	UPSTREAM CG30090 & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_twi mE1_TFBS_cad
3L	2645067	3L_2645067_SNP [dm3] 3L_2645067_SNP [dm6]	C	T	1.139e^-5	0.839	UPSTREAM CG1143 INTERGENIC
3L	11276731	3L_11276731_SNP [dm3] 3L_11283631_SNP [dm6]	A	G	1.253e^-5	0.839	INTERGENIC
3L	3090995	3L_3090995_SNP [dm3] 3L_3090995_SNP [dm6]	C	T	1.336e^-5	0.839	UTR_3_PRIME Cht7 DOWNSTREAM CG11486 & 1 other	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_HSA
3L	2646080	3L_2646080_SNP [dm3] 3L_2646080_SNP [dm6]	C	T	1.439e^-5	0.839	SYNONYMOUS_CODING CG1143	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
3L	2644985	3L_2644985_SNP [dm3] 3L_2644985_SNP [dm6]	T	A	1.543e^-5	0.839	UPSTREAM CG1143 INTERGENIC
3L	11599845	3L_11599845_SNP [dm3] 3L_11606745_SNP [dm6]	T	C	1.553e^-5	0.839	SYNONYMOUS_CODING CG6091
2R	13415564	2R_13415564_SNP [dm3] 2R_17528059_SNP [dm6]	G	A	1.625e^-5	0.839	SYNONYMOUS_CODING Patronin
3L	7156753	3L_7156753_SNP [dm3] 3L_7163653_SNP [dm6]	G	A	1.625e^-5	0.839	INTRON Dscam2
3L	7156769	3L_7156769_SNP [dm3] 3L_7163669_SNP [dm6]	G	A	1.625e^-5	0.839	INTRON Dscam2
2R	13950559	2R_13950559_SNP [dm3] 2R_18063054_SNP [dm6]	A	T	1.671e^-5	0.839	INTRON CG34386
3L	10756244	3L_10756244_SNP [dm3] 3L_10763144_SNP [dm6]	A	G	1.685e^-5	0.839	INTERGENIC
3L	18662988	3L_18662988_INS [dm3] 3L_18669888_INS [dm6]	G	GCTG	1.762e^-5	0.839	CODON_INSERTION Capr	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_inv
2R	19007092	2R_19007092_SNP [dm3] 2R_23119569_SNP [dm6]	G	T	1.880e^-5	0.839	INTERGENIC
3L	9661340	3L_9661340_SNP [dm3] 3L_9668240_SNP [dm6]	C	G	1.903e^-5	0.839	INTRON fry	TF binding site mE1_TFBS_cad
3L	2644981	3L_2644981_SNP [dm3] 3L_2644981_SNP [dm6]	A	T	1.956e^-5	0.839	UPSTREAM CG1143 INTERGENIC
3L	7072423	3L_7072423_SNP [dm3] 3L_7079323_SNP [dm6]	C	A	2.014e^-5	0.839	INTERGENIC
2R	13739800	2R_13739800_SNP [dm3] 2R_17852295_SNP [dm6]	G	T	2.109e^-5	0.839	UPSTREAM CG30323 INTRON olf186-F	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA
X	8402577	X_8402577_SNP [dm3] X_8508544_SNP [dm6]	G	A	2.213e^-5	0.839	INTRON CG33181
2L	7202015	2L_7202015_SNP [dm3] 2L_7202015_SNP [dm6]	C	A	2.236e^-5	0.839	INTRON CG4502
2R	9147038	2R_9147038_SNP [dm3] 2R_13259533_SNP [dm6]	G	A	2.284e^-5	0.839	UPSTREAM CG42319 INTERGENIC	transposable element FlyBase
2L	8696998	2L_8696998_SNP [dm3] 2L_8696998_SNP [dm6]	C	G	2.312e^-5	0.839	INTRON Hnf4	TF binding site mE1_TFBS_cnc
2L	5544938	2L_5544938_SNP [dm3] 2L_5544938_SNP [dm6]	A	T	2.327e^-5	0.839	SYNONYMOUS_CODING Lam	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA mE1_TFBS_inv mE1_TFBS_sens
3L	2645044	3L_2645044_SNP [dm3] 3L_2645044_SNP [dm6]	T	G	2.528e^-5	0.839	UPSTREAM CG1143 INTERGENIC
3R	6253307	3R_6253307_SNP [dm3] 3R_10427585_SNP [dm6]	G	T	2.655e^-5	0.839	INTERGENIC
2R	9147010	2R_9147010_SNP [dm3] 2R_13259505_SNP [dm6]	T	G	2.667e^-5	0.839	UPSTREAM CG42319 INTERGENIC	transposable element FlyBase
2R	13415561	2R_13415561_SNP [dm3] 2R_17528056_SNP [dm6]	A	G	2.685e^-5	0.839	SYNONYMOUS_CODING Patronin
2R	16289150	2R_16289150_SNP [dm3] 2R_20401645_SNP [dm6]	G	A	2.717e^-5	0.839	INTERGENIC
2R	9147009	2R_9147009_SNP [dm3] 2R_13259504_SNP [dm6]	T	G	2.737e^-5	0.839	UPSTREAM CG42319 INTERGENIC	transposable element FlyBase
2R	9147155	2R_9147155_SNP [dm3] 2R_13259650_SNP [dm6]	A	T	2.747e^-5	0.839	UPSTREAM CG42319 INTERGENIC	transposable element FlyBase
2L	2279895	2L_2279895_SNP [dm3] 2L_2279895_SNP [dm6]	G	A	2.837e^-5	0.839	UPSTREAM CR43753 INTERGENIC
2R	9134428	2R_9134428_SNP [dm3] 2R_13246923_SNP [dm6]	A	G	2.883e^-5	0.839	NON_SYNONYMOUS_CODING Mp20	TF binding site mE1_TFBS_cad
2L	8697403	2L_8697403_SNP [dm3] 2L_8697403_SNP [dm6]	T	G	2.905e^-5	0.839	INTRON Hnf4
2R	7961237	2R_7961237_SNP [dm3] 2R_12073732_SNP [dm6]	G	A	2.964e^-5	0.839	INTRON CG8888
2L	2922161	2L_2922161_SNP [dm3] 2L_2922161_SNP [dm6]	T	A	2.984e^-5	0.839	INTRON lilli
2R	9147422	2R_9147422_SNP [dm3] 2R_13259917_SNP [dm6]	A	T	2.997e^-5	0.839	UPSTREAM CG42319 INTERGENIC
2R	11724908	2R_11724908_SNP [dm3] 2R_15837403_SNP [dm6]	C	T	3.040e^-5	0.839	INTRON tun	regulatory region REDfly_CRMs
3R	9959340	3R_9959340_SNP [dm3] 3R_14133618_SNP [dm6]	C	T	3.057e^-5	0.839	INTERGENIC
3L	18663271	3L_18663271_SNP [dm3] 3L_18670171_SNP [dm6]	T	C	3.067e^-5	0.839	SYNONYMOUS_CODING Capr	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA mE1_TFBS_inv
X	3381344	X_3381344_SNP [dm3] X_3487311_SNP [dm6]	T	C	3.078e^-5	0.839	SYNONYMOUS_CODING CG10803 INTRON CR44999	TF binding site mE1_TFBS_sens
3L	11276715	3L_11276715_SNP [dm3] 3L_11283615_SNP [dm6]	A	C	3.102e^-5	0.839	INTERGENIC
3L	11276725	3L_11276725_SNP [dm3] 3L_11283625_SNP [dm6]	A	T	3.102e^-5	0.839	INTERGENIC
3L	412023	3L_412023_SNP [dm3] 3L_412023_SNP [dm6]	G	T	3.147e^-5	0.839	INTERGENIC
X	2926031	X_2926031_SNP [dm3] X_3031998_SNP [dm6]	C	A	3.152e^-5	0.839	INTRON kirre
3L	2645041	3L_2645041_SNP [dm3] 3L_2645041_SNP [dm6]	G	T	3.207e^-5	0.839	UPSTREAM CG1143 INTERGENIC
2R	11327929	2R_11327929_SNP [dm3] 2R_15440424_SNP [dm6]	G	T	3.343e^-5	0.839	INTRON CG43729
3L	743080	3L_743080_SNP [dm3] 3L_743080_SNP [dm6]	T	A	3.370e^-5	0.839	DOWNSTREAM tRNA:M-i:61D INTRON hng3	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi
2R	20946369	2R_20946369_SNP [dm3] 2R_25058846_SNP [dm6]	C	T	3.460e^-5	0.839	INTERGENIC	regulatory region FlyBase REDfly_CRMs
2R	9147034	2R_9147034_SNP [dm3] 2R_13259529_SNP [dm6]	G	T	3.514e^-5	0.839	UPSTREAM CG42319 INTERGENIC	transposable element FlyBase
3R	5145048	3R_5145048_SNP [dm3] 3R_9319326_SNP [dm6]	G	A	3.541e^-5	0.839	INTRON CG8861
3L	2645026	3L_2645026_SNP [dm3] 3L_2645026_SNP [dm6]	T	A	3.567e^-5	0.839	UPSTREAM CG1143 INTERGENIC
3R	13600672	3R_13600672_SNP [dm3] 3R_17774950_SNP [dm6]	C	T	3.592e^-5	0.839	UTR_5_PRIME CG43102 INTRON CG43102	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
X	18463732	X_18463732_SNP [dm3] X_18569699_SNP [dm6]	A	G	3.624e^-5	0.839	INTRON Bx	TF binding site BDTNP1_TFBS_da
2R	7961258	2R_7961258_SNP [dm3] 2R_12073753_SNP [dm6]	A	G	3.630e^-5	0.839	INTRON CG8888
X	21160844	X_21160844_SNP [dm3] X_21289817_SNP [dm6]	G	C	3.675e^-5	0.839	INTRON CG1494	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
3L	742989	3L_742989_SNP [dm3] 3L_742989_SNP [dm6]	C	A	3.678e^-5	0.839	DOWNSTREAM tRNA:M-i:61D INTRON hng3	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi
3R	6105630	3R_6105630_SNP [dm3] 3R_10279908_SNP [dm6]	T	A	3.736e^-5	0.839	INTRON CG43143
3R	14660016	3R_14660016_SNP [dm3] 3R_18834294_SNP [dm6]	G	A	3.757e^-5	0.839	INTRON CG18208
2R	6606992	2R_6606992_SNP [dm3] 2R_10719487_SNP [dm6]	A	T	3.787e^-5	0.839	INTRON stan
3R	21896719	3R_21896719_SNP [dm3] 3R_26070997_SNP [dm6]	C	T	3.850e^-5	0.839	EXON CR44950
2L	9430498	2L_9430498_SNP [dm3] 2L_9430498_SNP [dm6]	T	A	3.855e^-5	0.839	UPSTREAM FucTB & 1 other INTRON FucTB
2R	19008611	2R_19008611_SNP [dm3] 2R_23121088_SNP [dm6]	G	A	3.952e^-5	0.839	INTERGENIC
2L	15281202	2L_15281202_DEL [dm3] 2L_15281202_DEL [dm6]	CC	T	4.003e^-5	0.839	DOWNSTREAM CR45349 INTERGENIC
3L	4556796	3L_4556796_INS [dm3] 3L_4556796_INS [dm6]	T	TA	4.038e^-5	0.839	UPSTREAM CG42540 INTRON CG42540
2L	21921535	2L_21921535_SNP [dm3] 2L_21921535_SNP [dm6]	T	C	4.046e^-5	0.839	INTERGENIC
3L	2645600	3L_2645600_SNP [dm3] 3L_2645600_SNP [dm6]	A	T	4.111e^-5	0.839	INTRON CG1143	TF binding site mE1_TFBS_cad
3L	5886015	3L_5886015_SNP [dm3] 3L_5892915_SNP [dm6]	C	G	4.112e^-5	0.839	INTERGENIC
3R	25759599	3R_25759599_SNP [dm3] 3R_29933877_SNP [dm6]	C	T	4.131e^-5	0.839	NON_SYNONYMOUS_CODING CG42557 START_GAINED CG42558 UTR_5_PRIME CG42558 UPSTREAM Cog7 DOWNSTREAM eIF2B-alpha	TF binding site mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_sens
3R	6105638	3R_6105638_DEL [dm3] 3R_10279916_DEL [dm6]	ATGACTCCA	A	4.182e^-5	0.839	INTRON CG43143
X	17014026	X_17014026_SNP [dm3] X_17119993_SNP [dm6]	C	T	4.191e^-5	0.839	INTRON CG5004
X	3380974	X_3380974_SNP [dm3] X_3486941_SNP [dm6]	G	A	4.199e^-5	0.839	SYNONYMOUS_CODING CG10803 INTRON CR44999	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
X	3381085	X_3381085_SNP [dm3] X_3487052_SNP [dm6]	G	C	4.199e^-5	0.839	SYNONYMOUS_CODING CG10803 INTRON CR44999	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
2R	12400793	2R_12400793_SNP [dm3] 2R_16513288_SNP [dm6]	C	G	4.216e^-5	0.839	INTRON Sema-2a
2R	9147482	2R_9147482_SNP [dm3] 2R_13259977_SNP [dm6]	A	G	4.337e^-5	0.839	UPSTREAM CG42319 INTERGENIC
X	9814806	X_9814806_DEL [dm3] X_9920773_DEL [dm6]	TT	T	4.374e^-5	0.839	INTERGENIC
3L	9661317	3L_9661317_SNP [dm3] 3L_9668217_SNP [dm6]	A	G	4.410e^-5	0.839	INTRON fry	TF binding site mE1_TFBS_cad
X	12772793	X_12772793_SNP [dm3] X_12878760_SNP [dm6]	T	A	4.413e^-5	0.839	INTRON Pde9
3L	11791042	3L_11791042_SNP [dm3] 3L_11797942_SNP [dm6]	A	G	4.429e^-5	0.839	SYNONYMOUS_CODING Klp68D	TF binding site BDTNP1_TFBS_prd mE1_TFBS_chinmo mE1_TFBS_HSA mE1_TFBS_sens
2L	8807137	2L_8807137_SNP [dm3] 2L_8807137_SNP [dm6]	T	C	4.499e^-5	0.844	INTERGENIC

Showing 1 to 100 of 1,000 entries

Previous1 2 3 4 5…10Next

By genomic position
Variant impact
Gene name

Wing_CentroidSize 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