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=9.113e^-13)
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_3R_P	0.0004686

Kruskal-Wallis test

Covariate	χ²	p-value	Significance
In_2L_t	6.8991	0.0318

PNG PDF

QQplot

PNG PDF

Manhattan plot

GWAS results

1939 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
3L	6395533	3L_6395533_SNP [dm3] 3L_6402433_SNP [dm6]	G	A	3.558e^-7	0.667	INTRON CG42747
X	4300225	X_4300225_SNP [dm3] X_4406192_SNP [dm6]	T	C	1.104e^-6	0.735	INTRON CR32773	TF binding site mE1_TFBS_chinmo
3R	25797603	3R_25797603_SNP [dm3] 3R_29971881_SNP [dm6]	G	C	1.889e^-6	0.735	INTERGENIC
3R	25818024	3R_25818024_SNP [dm3] 3R_29992302_SNP [dm6]	A	G	2.070e^-6	0.735	SYNONYMOUS_CODING Acph-1	TF binding site mE1_TFBS_cad mE1_TFBS_sens
3R	26505170	3R_26505170_SNP [dm3] 3R_30679448_SNP [dm6]	C	T	2.846e^-6	0.735	INTERGENIC
3L	735620	3L_735620_SNP [dm3] 3L_735620_SNP [dm6]	G	T	3.202e^-6	0.735	INTERGENIC	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_sna BDTNP1_TFBS_tll BDTNP1_TFBS_twi mE1_TFBS_chinmo mE1_TFBS_HSA mE1_TFBS_inv mE1_TFBS_sens
3L	6396334	3L_6396334_SNP [dm3] 3L_6403234_SNP [dm6]	G	C	4.058e^-6	0.735	INTRON CG42747
2R	19122571	2R_19122571_SNP [dm3] 2R_23235048_SNP [dm6]	T	C	4.410e^-6	0.735	INTERGENIC
3L	571533	3L_571533_SNP [dm3] 3L_571533_SNP [dm6]	G	C	5.229e^-6	0.735	SYNONYMOUS_CODING hipk	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
3L	571587	3L_571587_SNP [dm3] 3L_571587_SNP [dm6]	T	G	5.229e^-6	0.735	SYNONYMOUS_CODING hipk	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
3R	8341839	3R_8341839_DEL [dm3] 3R_12516117_DEL [dm6]	AGGAACTTAAATACACAATT...	A	5.530e^-6	0.735	INTRON Octbeta3R
3R	8216558	3R_8216558_SNP [dm3] 3R_12390836_SNP [dm6]	C	T	5.626e^-6	0.735	UTR_3_PRIME CG10096 & 1 other INTRON CG34402
3L	12561460	3L_12561460_SNP [dm3] 3L_12568360_SNP [dm6]	C	A	5.721e^-6	0.735	INTRON sowah
3L	571997	3L_571997_SNP [dm3] 3L_571997_SNP [dm6]	G	A	5.750e^-6	0.735	INTRON hipk	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
3R	26505012	3R_26505012_SNP [dm3] 3R_30679290_SNP [dm6]	C	T	5.879e^-6	0.735	INTERGENIC
3R	14335563	3R_14335563_SNP [dm3] 3R_18509841_SNP [dm6]	T	C	7.300e^-6	0.856	INTRON fru
2R	19122570	2R_19122570_SNP [dm3] 2R_23235047_SNP [dm6]	T	C	1.087e^-5	0.952	INTERGENIC
3R	4858700	3R_4858700_SNP [dm3] 3R_9032978_SNP [dm6]	C	T	1.163e^-5	0.952	INTRON neur	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
X	4878527	X_4878527_SNP [dm3] X_4984494_SNP [dm6]	G	A	1.169e^-5	0.952	INTRON CR44833	regulatory region REDfly_CRMs
3R	25635394	3R_25635394_SNP [dm3] 3R_29809672_SNP [dm6]	T	G	1.232e^-5	0.952	NON_SYNONYMOUS_CODING ca	TF binding site mE1_TFBS_cad mE1_TFBS_sens
3R	26512851	3R_26512851_SNP [dm3] 3R_30687129_SNP [dm6]	T	A	1.238e^-5	0.952	INTERGENIC	TF binding site BDTNP1_TFBS_twi mE1_TFBS_HSA
X	2503646	X_2503646_SNP [dm3] X_2609613_SNP [dm6]	A	G	1.344e^-5	0.952	SYNONYMOUS_CODING CG8636 UPSTREAM Bzd	TF binding site BDTNP1_TFBS_dl mE1_TFBS_chinmo mE1_TFBS_HSA mE1_TFBS_sens
2R	20367863	2R_20367863_SNP [dm3] 2R_24480340_SNP [dm6]	A	G	1.451e^-5	0.952	INTRON CG13579
3R	8264461	3R_8264461_SNP [dm3] 3R_12438739_SNP [dm6]	G	A	1.514e^-5	0.952	NON_SYNONYMOUS_CODING CG17207 UPSTREAM Desat1 DOWNSTREAM Desat2	regulatory region REDfly_CRMs TF binding site mE1_TFBS_cad
2L	15077112	2L_15077112_SNP [dm3] 2L_15077112_SNP [dm6]	G	T	1.528e^-5	0.952	INTRON CG15270
3R	26087341	3R_26087341_SNP [dm3] 3R_30261619_SNP [dm6]	A	T	1.572e^-5	0.952	INTERGENIC	TF binding site mE1_TFBS_Kr
2R	19123769	2R_19123769_SNP [dm3] 2R_23236246_SNP [dm6]	A	G	1.921e^-5	0.952	INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
3L	12893217	3L_12893217_SNP [dm3] 3L_12900117_SNP [dm6]	A	T	1.923e^-5	0.952	INTERGENIC
3R	17874708	3R_17874708_INS [dm3] 3R_22048986_INS [dm6]	C	CAGGC	1.954e^-5	0.952	INTRON how	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi
3R	19287727	3R_19287727_SNP [dm3] 3R_23462005_SNP [dm6]	C	G	1.987e^-5	0.952	INTRON CG4374
2R	10620774	2R_10620774_SNP [dm3] 2R_14733269_SNP [dm6]	C	T	2.018e^-5	0.952	INTERGENIC
3R	8286537	3R_8286537_SNP [dm3] 3R_12460815_SNP [dm6]	C	T	2.057e^-5	0.952	UPSTREAM CG5961 INTRON CG12267	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_HSA
3R	4463463	3R_4463463_SNP [dm3] 3R_8637741_SNP [dm6]	G	A	2.189e^-5	0.952	INTERGENIC
3R	25818009	3R_25818009_SNP [dm3] 3R_29992287_SNP [dm6]	G	T	2.286e^-5	0.952	SYNONYMOUS_CODING Acph-1	TF binding site mE1_TFBS_cad mE1_TFBS_sens
2R	13713600	2R_13713600_SNP [dm3] 2R_17826095_SNP [dm6]	A	G	2.305e^-5	0.952	INTRON grh	transposable element FlyBase
3R	23509134	3R_23509134_SNP [dm3] 3R_27683412_SNP [dm6]	C	T	2.355e^-5	0.952	INTERGENIC	TF binding site mE1_TFBS_chinmo
3L	6396124	3L_6396124_SNP [dm3] 3L_6403024_SNP [dm6]	A	G	2.361e^-5	0.952	INTRON CG42747
3R	2148209	3R_2148209_SNP [dm3] 3R_6322487_SNP [dm6]	G	A	2.450e^-5	0.952	INTRON Osi17
3R	25797509	3R_25797509_SNP [dm3] 3R_29971787_SNP [dm6]	T	C	2.474e^-5	0.952	INTERGENIC
3R	16861822	3R_16861822_SNP [dm3] 3R_21036100_SNP [dm6]	C	G	2.510e^-5	0.952	SYNONYMOUS_CODING Dhc93AB	TF binding site mE1_TFBS_cad mE1_TFBS_HSA
2R	12788320	2R_12788320_SNP [dm3] 2R_16900815_SNP [dm6]	A	C	2.538e^-5	0.952	INTRON inaC
3L	14514049	3L_14514049_SNP [dm3] 3L_14520949_SNP [dm6]	T	C	2.574e^-5	0.952	INTRON bbg & 1 other
2R	10711850	2R_10711850_DEL [dm3] 2R_14824345_DEL [dm6]	AA	A	2.587e^-5	0.952	EXON CR45329
2R	12887593	2R_12887593_SNP [dm3] 2R_17000088_SNP [dm6]	A	G	2.935e^-5	0.952	SYNONYMOUS_CODING ste24b DOWNSTREAM ste24a	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
2R	6305228	2R_6305228_SNP [dm3] 2R_10417723_SNP [dm6]	T	C	2.963e^-5	0.952	UPSTREAM CG42732 & 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_D mE1_TFBS_HSA mE1_TFBS_Trl mE1_TFBS_zfh1
2R	9136386	2R_9136386_SNP [dm3] 2R_13248881_SNP [dm6]	C	T	2.998e^-5	0.952	DOWNSTREAM CG4712 & 1 other INTERGENIC
3L	582018	3L_582018_SNP [dm3] 3L_582018_SNP [dm6]	C	G	3.033e^-5	0.952	SYNONYMOUS_CODING Ppm1 DOWNSTREAM hipk & 1 other
3R	26514626	3R_26514626_SNP [dm3] 3R_30688904_SNP [dm6]	C	T	3.060e^-5	0.952	INTERGENIC
3L	6396814	3L_6396814_SNP [dm3] 3L_6403714_SNP [dm6]	T	A	3.064e^-5	0.952	INTRON CG42747
2L	2526054	2L_2526054_SNP [dm3] 2L_2526054_SNP [dm6]	T	C	3.097e^-5	0.952	INTERGENIC
2R	18528113	2R_18528113_SNP [dm3] 2R_22640608_SNP [dm6]	T	A	3.134e^-5	0.952	UTR_3_PRIME RpS24 UPSTREAM CG3732	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_D mE1_TFBS_HSA mE1_TFBS_sens
3L	14122277	3L_14122277_SNP [dm3] 3L_14129177_SNP [dm6]	C	A	3.164e^-5	0.952	INTRON Sox21b	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi mE1_TFBS_HSA
3L	6395626	3L_6395626_SNP [dm3] 3L_6402526_SNP [dm6]	A	T	3.176e^-5	0.952	INTRON CG42747
3R	21683721	3R_21683721_SNP [dm3] 3R_25857999_SNP [dm6]	T	C	3.189e^-5	0.952	INTRON CG5890
3L	9137472	3L_9137472_SNP [dm3] 3L_9144372_SNP [dm6]	A	G	3.246e^-5	0.952	UTR_3_PRIME nwk UPSTREAM mir-4940 INTRON nwk	TF binding site mE1_TFBS_cad
2L	9576805	2L_9576805_SNP [dm3] 2L_9576805_SNP [dm6]	A	T	3.251e^-5	0.952	UPSTREAM Mtpalpha INTERGENIC	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_prd mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_zfh1
3L	16551859	3L_16551859_SNP [dm3] 3L_16558759_SNP [dm6]	C	T	3.270e^-5	0.952	DOWNSTREAM CG4229 INTERGENIC
X	10625290	X_10625290_DEL [dm3] X_10731257_DEL [dm6]	AAA	G	3.282e^-5	0.952	INTRON CG32676	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_Trl
2R	6305220	2R_6305220_SNP [dm3] 2R_10417715_SNP [dm6]	G	T	3.353e^-5	0.952	UPSTREAM CG42732 INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_D mE1_TFBS_HSA mE1_TFBS_Trl mE1_TFBS_zfh1
3L	13325132	3L_13325132_SNP [dm3] 3L_13332032_SNP [dm6]	A	G	3.372e^-5	0.952	INTERGENIC
3R	1756602	3R_1756602_SNP [dm3] 3R_5930880_SNP [dm6]	A	G	3.376e^-5	0.952	INTRON CG34113
3L	8078005	3L_8078005_SNP [dm3] 3L_8084905_SNP [dm6]	T	C	3.447e^-5	0.952	INTRON Ect4	TF binding site BDTNP1_TFBS_sna
3L	6395564	3L_6395564_SNP [dm3] 3L_6402464_SNP [dm6]	G	A	3.455e^-5	0.952	INTRON CG42747
2R	7462506	2R_7462506_SNP [dm3] 2R_11575001_SNP [dm6]	C	A	3.518e^-5	0.952	INTERGENIC
3L	6396908	3L_6396908_SNP [dm3] 3L_6403808_SNP [dm6]	T	A	3.539e^-5	0.952	INTRON CG42747
3R	1795589	3R_1795589_SNP [dm3] 3R_5969867_SNP [dm6]	G	A	3.577e^-5	0.952	UPSTREAM CR44926 INTERGENIC
2R	14172296	2R_14172296_SNP [dm3] 2R_18284791_SNP [dm6]	G	A	3.610e^-5	0.952	DOWNSTREAM sbb INTRON sbb
3L	8077974	3L_8077974_SNP [dm3] 3L_8084874_SNP [dm6]	C	T	3.631e^-5	0.952	INTRON Ect4	TF binding site BDTNP1_TFBS_sna
2R	14172307	2R_14172307_SNP [dm3] 2R_18284802_SNP [dm6]	T	A	3.659e^-5	0.952	DOWNSTREAM sbb INTRON sbb
2L	9576778	2L_9576778_SNP [dm3] 2L_9576778_SNP [dm6]	T	C	3.666e^-5	0.952	UPSTREAM Mtpalpha INTERGENIC	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_dl mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_D mE1_TFBS_HSA mE1_TFBS_zfh1
3R	25792211	3R_25792211_SNP [dm3] 3R_29966489_SNP [dm6]	C	G	3.829e^-5	0.952	INTRON TkR99D
2R	14193734	2R_14193734_SNP [dm3] 2R_18306229_SNP [dm6]	G	A	3.946e^-5	0.952	INTRON sbb	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_gt BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_Kr mE1_TFBS_sens
X	5971161	X_5971161_SNP [dm3] X_6077128_SNP [dm6]	G	A	3.957e^-5	0.952	INTRON CG4666
X	15431207	X_15431207_SNP [dm3] X_15537174_SNP [dm6]	G	T	3.996e^-5	0.952	INTRON Ac13E
3R	4040573	3R_4040573_SNP [dm3] 3R_8214851_SNP [dm6]	A	T	4.016e^-5	0.952	INTERGENIC
3R	23000258	3R_23000258_DEL [dm3] 3R_27174536_DEL [dm6]	AT	A	4.140e^-5	0.952	INTRON Ser	TF binding site mE1_TFBS_cad
3L	4797099	3L_4797099_SNP [dm3] 3L_4797099_SNP [dm6]	G	A	4.141e^-5	0.952	DOWNSTREAM RhoGEF64C INTERGENIC
3R	8350023	3R_8350023_SNP [dm3] 3R_12524301_SNP [dm6]	C	A	4.163e^-5	0.952	INTRON Octbeta3R
2R	14362710	2R_14362710_SNP [dm3] 2R_18475205_SNP [dm6]	C	A	4.203e^-5	0.952	INTRON CG30116
3R	25796966	3R_25796966_SNP [dm3] 3R_29971244_SNP [dm6]	A	T	4.216e^-5	0.952	INTERGENIC
3R	26513130	3R_26513130_SNP [dm3] 3R_30687408_SNP [dm6]	G	A	4.233e^-5	0.952	INTERGENIC	TF binding site BDTNP1_TFBS_twi mE1_TFBS_HSA
3L	16514975	3L_16514975_SNP [dm3] 3L_16521875_SNP [dm6]	G	T	4.268e^-5	0.952	INTRON CG43373
X	20396997	X_20396997_DEL [dm3] X_20525970_DEL [dm6]	TA	T	4.344e^-5	0.952	INTERGENIC	transposable element FlyBase
2L	3396440	2L_3396440_SNP [dm3] 2L_3396440_SNP [dm6]	G	A	4.371e^-5	0.952	DOWNSTREAM CR44792 INTERGENIC	TF binding site mE1_TFBS_HSA mE1_TFBS_sbb
3L	6396925	3L_6396925_SNP [dm3] 3L_6403825_SNP [dm6]	A	T	4.495e^-5	0.952	INTRON CG42747
3R	25834120	3R_25834120_SNP [dm3] 3R_30008398_SNP [dm6]	T	A	4.526e^-5	0.952	INTRON Nlp & 1 other	TF binding site BDTNP1_TFBS_da mE1_TFBS_HSA mE1_TFBS_sens
2R	19232634	2R_19232634_SNP [dm3] 2R_23345111_SNP [dm6]	T	C	4.548e^-5	0.952	NON_SYNONYMOUS_CODING CG3502
3L	12893221	3L_12893221_SNP [dm3] 3L_12900121_SNP [dm6]	T	C	4.549e^-5	0.952	INTERGENIC
3R	24844793	3R_24844793_INS [dm3] 3R_29019071_INS [dm6]	A	AA	4.550e^-5	0.952	INTRON wat
2R	18369046	2R_18369046_SNP [dm3] 2R_22481541_SNP [dm6]	G	C	4.684e^-5	0.952	INTRON CG4752	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
3R	23515540	3R_23515540_SNP [dm3] 3R_27689818_SNP [dm6]	T	C	4.724e^-5	0.952	NON_SYNONYMOUS_CODING CG12880	TF binding site mE1_TFBS_chinmo
3R	17912729	3R_17912729_SNP [dm3] 3R_22087007_SNP [dm6]	G	A	4.757e^-5	0.952	UPSTREAM CG5791 & 1 other INTRON CG5778
3L	6396416	3L_6396416_SNP [dm3] 3L_6403316_SNP [dm6]	G	A	4.783e^-5	0.952	INTRON CG42747
2L	6539813	2L_6539813_SNP [dm3] 2L_6539813_SNP [dm6]	A	G	4.850e^-5	0.952	INTRON eya
2R	5234951	2R_5234951_SNP [dm3] 2R_9347446_SNP [dm6]	T	A	4.880e^-5	0.952	UTR_3_PRIME Or45a INTRON CG13954 & 1 other
2R	11690078	2R_11690078_SNP [dm3] 2R_15802573_SNP [dm6]	A	C	4.922e^-5	0.952	INTRON Zasp52 & 1 other
3R	11128835	3R_11128835_SNP [dm3] 3R_15303113_SNP [dm6]	A	C	4.975e^-5	0.952	INTRON Tm1
2R	13441356	2R_13441356_SNP [dm3] 2R_17553851_SNP [dm6]	G	T	5.032e^-5	0.952	SYNONYMOUS_CODING MESR4	TF binding site mE1_TFBS_sens
2R	7264227	2R_7264227_SNP [dm3] 2R_11376722_SNP [dm6]	T	A	5.092e^-5	0.952	SYNONYMOUS_CODING CG13203 DOWNSTREAM Tsp47F	TF binding site mE1_TFBS_chinmo
3L	19259102	3L_19259102_SNP [dm3] 3L_19266002_SNP [dm6]	A	C	5.198e^-5	0.952	UPSTREAM CG45081 DOWNSTREAM CG9629 INTRON CG9666 & 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=2.863e^-4)
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	0.0004627
In_3R_K	0.0351298

Kruskal-Wallis test

Covariate	χ²	p-value	Significance
In_2L_t	17.7282	0.0001
In_3R_K	8.9358	0.0115

PNG PDF

QQplot

PNG PDF

Manhattan plot

GWAS results

1742 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	7067893	2L_7067893_SNP [dm3] 2L_7067893_SNP [dm6]	T	G	2.079e^-7	0.39	UPSTREAM CG11289 INTERGENIC
3L	9395701	3L_9395701_SNP [dm3] 3L_9402601_SNP [dm6]	G	A	6.979e^-7	0.573	UPSTREAM eIF-4E INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_D mE1_TFBS_h mE1_TFBS_HSA mE1_TFBS_Trl mE1_TFBS_Ubx
2R	16934520	2R_16934520_SNP [dm3] 2R_21047015_SNP [dm6]	T	C	1.906e^-6	0.573	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_Trl
2L	7068031	2L_7068031_SNP [dm3] 2L_7068031_SNP [dm6]	T	G	2.315e^-6	0.573	NON_SYNONYMOUS_CODING CG11289
3L	9395675	3L_9395675_SNP [dm3] 3L_9402575_SNP [dm6]	G	A	3.224e^-6	0.573	UPSTREAM eIF-4E INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_D mE1_TFBS_h mE1_TFBS_HSA mE1_TFBS_Trl mE1_TFBS_Ubx
2L	7068058	2L_7068058_SNP [dm3] 2L_7068058_SNP [dm6]	G	A	3.747e^-6	0.573	NON_SYNONYMOUS_CODING CG11289
2L	7075694	2L_7075694_MNP [dm3] 2L_7075694_MNP [dm6]	TGG	CTA	3.775e^-6	0.573	INTRON Pvf2	TF binding site mE1_TFBS_cad mE1_TFBS_HSA
3L	9395702	3L_9395702_SNP [dm3] 3L_9402602_SNP [dm6]	C	T	3.900e^-6	0.573	UPSTREAM eIF-4E INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_D mE1_TFBS_h mE1_TFBS_HSA mE1_TFBS_Trl mE1_TFBS_Ubx
3L	16975630	3L_16975630_SNP [dm3] 3L_16982530_SNP [dm6]	T	A	4.239e^-6	0.573	NON_SYNONYMOUS_CODING Exn	TF binding site mE1_TFBS_cad
3L	9395811	3L_9395811_SNP [dm3] 3L_9402711_SNP [dm6]	G	T	4.384e^-6	0.573	UPSTREAM eIF-4E INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_HSA mE1_TFBS_Trl mE1_TFBS_Ubx
2R	16934511	2R_16934511_INS [dm3] 2R_21047006_INS [dm6]	C	CA	4.663e^-6	0.573	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_Trl
3L	9396676	3L_9396676_SNP [dm3] 3L_9403576_SNP [dm6]	G	A	4.839e^-6	0.573	INTERGENIC
2L	3310933	2L_3310933_SNP [dm3] 2L_3310933_SNP [dm6]	A	G	4.947e^-6	0.573	SYNONYMOUS_CODING CG15406 INTRON CG3277	TF binding site mE1_TFBS_cad
3R	9119182	3R_9119182_SNP [dm3] 3R_13293460_SNP [dm6]	A	G	5.038e^-6	0.573	UPSTREAM wntD INTERGENIC	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_gt BDTNP1_TFBS_hb BDTNP1_TFBS_kni BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_shn BDTNP1_TFBS_slp1 BDTNP1_TFBS_sna BDTNP1_TFBS_tll BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_eve mE1_TFBS_HSA
3L	9395676	3L_9395676_SNP [dm3] 3L_9402576_SNP [dm6]	T	C	5.240e^-6	0.573	UPSTREAM eIF-4E INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_D mE1_TFBS_h mE1_TFBS_HSA mE1_TFBS_Trl mE1_TFBS_Ubx
2R	16934507	2R_16934507_DEL [dm3] 2R_21047002_DEL [dm6]	AG	A	5.440e^-6	0.573	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_Trl
3R	13923480	3R_13923480_SNP [dm3] 3R_18097758_SNP [dm6]	T	G	5.584e^-6	0.573	INTRON sr
3L	16975611	3L_16975611_SNP [dm3] 3L_16982511_SNP [dm6]	G	C	5.596e^-6	0.573	NON_SYNONYMOUS_CODING Exn	TF binding site mE1_TFBS_cad
3L	12003005	3L_12003005_SNP [dm3] 3L_12009905_SNP [dm6]	G	A	5.807e^-6	0.573	SYNONYMOUS_CODING rols	TF binding site BDTNP1_TFBS_sna mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
2R	16934517	2R_16934517_SNP [dm3] 2R_21047012_SNP [dm6]	G	C	6.493e^-6	0.609	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_Trl
X	5971526	X_5971526_SNP [dm3] X_6077493_SNP [dm6]	G	T	8.167e^-6	0.71	UTR_5_PRIME CG4666
2R	7278737	2R_7278737_SNP [dm3] 2R_11391232_SNP [dm6]	T	G	9.390e^-6	0.71	INTRON sprt
3R	12938497	3R_12938497_SNP [dm3] 3R_17112775_SNP [dm6]	T	C	9.419e^-6	0.71	INTRON cher	TF binding site mE1_TFBS_cnc
3R	9133048	3R_9133048_INS [dm3] 3R_13307326_INS [dm6]	C	CC	9.458e^-6	0.71	INTRON CG32473
2L	6234590	2L_6234590_SNP [dm3] 2L_6234590_SNP [dm6]	A	G	9.459e^-6	0.71	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi
2R	14883273	2R_14883273_SNP [dm3] 2R_18995768_SNP [dm6]	G	A	1.117e^-5	0.801	DOWNSTREAM snoRNA:abba-a INTRON tn
X	18515383	X_18515383_SNP [dm3] X_18621350_SNP [dm6]	A	G	1.196e^-5	0.801	UPSTREAM CR43289 INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_bab1 mE1_TFBS_HSA mE1_TFBS_zfh1
X	18515430	X_18515430_SNP [dm3] X_18621397_SNP [dm6]	G	A	1.196e^-5	0.801	UPSTREAM CR43289 INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_bab1 mE1_TFBS_HSA mE1_TFBS_zfh1
X	13182667	X_13182667_SNP [dm3] X_13288634_SNP [dm6]	T	C	1.365e^-5	0.859	DOWNSTREAM CG15743 INTRON CG15744	TF binding site BDTNP1_TFBS_dl mE1_TFBS_cad mE1_TFBS_sens
2L	5838618	2L_5838618_SNP [dm3] 2L_5838618_SNP [dm6]	A	G	1.475e^-5	0.859	INTRON TrissinR
2L	7060783	2L_7060783_SNP [dm3] 2L_7060783_SNP [dm6]	A	C	1.494e^-5	0.859	INTRON Mnn1 & 1 other
2L	7067574	2L_7067574_SNP [dm3] 2L_7067574_SNP [dm6]	A	G	1.530e^-5	0.859	UPSTREAM CG11289 INTERGENIC
3R	12738525	3R_12738525_DEL [dm3] 3R_16912803_DEL [dm6]	AA	A	1.568e^-5	0.859	INTRON iab-8	TF binding site BDTNP1_TFBS_dl
2L	7061538	2L_7061538_SNP [dm3] 2L_7061538_SNP [dm6]	T	A	1.642e^-5	0.859	NON_SYNONYMOUS_CODING Mnn1 UPSTREAM CG31907
3L	9395767	3L_9395767_SNP [dm3] 3L_9402667_SNP [dm6]	A	T	1.696e^-5	0.859	UPSTREAM eIF-4E INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_h mE1_TFBS_HSA mE1_TFBS_Trl mE1_TFBS_Ubx
2R	8480610	2R_8480610_SNP [dm3] 2R_12593105_SNP [dm6]	A	G	1.706e^-5	0.859	UPSTREAM Amph & 1 other DOWNSTREAM CR45279 INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_prd BDTNP1_TFBS_twi mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_Trl
3R	23957749	3R_23957749_SNP [dm3] 3R_28132027_SNP [dm6]	T	G	1.720e^-5	0.859	INTERGENIC
3L	1930885	3L_1930885_SNP [dm3] 3L_1930885_SNP [dm6]	C	T	1.739e^-5	0.859	INTRON Dbx
2R	13487738	2R_13487738_SNP [dm3] 2R_17600233_SNP [dm6]	T	C	1.906e^-5	0.917	SYNONYMOUS_CODING lack UPSTREAM CG43920 & 1 other	TF binding site mE1_TFBS_cad
2L	4570446	2L_4570446_SNP [dm3] 2L_4570446_SNP [dm6]	G	C	2.058e^-5	0.965	INTRON dp	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA
3L	9179724	3L_9179724_SNP [dm3] 3L_9186624_SNP [dm6]	G	A	2.131e^-5	0.97	INTERGENIC
2L	4570471	2L_4570471_SNP [dm3] 2L_4570471_SNP [dm6]	T	C	2.221e^-5	0.97	SPLICE_SITE_REGION dp INTRON dp	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA
X	4807838	X_4807838_SNP [dm3] X_4913805_SNP [dm6]	A	T	2.274e^-5	0.97	INTRON CG32772	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
3R	12938684	3R_12938684_SNP [dm3] 3R_17112962_SNP [dm6]	T	A	2.325e^-5	0.97	INTRON cher	TF binding site mE1_TFBS_cnc mE1_TFBS_D mE1_TFBS_HSA
2L	22092119	2L_22092119_SNP [dm3] 2L_22092119_SNP [dm6]	T	A	2.340e^-5	0.97	INTERGENIC	transposable element FlyBase
2R	19666706	2R_19666706_SNP [dm3] 2R_23779183_SNP [dm6]	G	A	2.418e^-5	0.97	INTRON CG9850
2L	7061753	2L_7061753_SNP [dm3] 2L_7061753_SNP [dm6]	C	T	2.443e^-5	0.97	UTR_3_PRIME Mnn1 UPSTREAM CG31907
2R	14649714	2R_14649714_SNP [dm3] 2R_18762209_SNP [dm6]	C	T	2.656e^-5	0.97	UTR_5_PRIME Mctp
2R	20263325	2R_20263325_SNP [dm3] 2R_24375802_SNP [dm6]	T	C	2.726e^-5	0.97	INTRON bs	TF binding site mE1_TFBS_chinmo
3L	9395745	3L_9395745_SNP [dm3] 3L_9402645_SNP [dm6]	G	T	2.750e^-5	0.97	UPSTREAM eIF-4E INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_h mE1_TFBS_HSA mE1_TFBS_Trl mE1_TFBS_Ubx
2R	18638178	2R_18638178_DEL [dm3] 2R_22750673_DEL [dm6]	CAG	C	2.810e^-5	0.97	INTRON CG42260	TF binding site mE1_TFBS_HSA mE1_TFBS_inv
2R	14883286	2R_14883286_DEL [dm3] 2R_18995781_DEL [dm6]	ATAGGCTTGA	A	2.873e^-5	0.97	DOWNSTREAM snoRNA:abba-a INTRON tn
2R	19669974	2R_19669974_SNP [dm3] 2R_23782451_SNP [dm6]	C	T	2.880e^-5	0.97	INTRON CG9850	TF binding site mE1_TFBS_chinmo
2L	14791494	2L_14791494_SNP [dm3] 2L_14791494_SNP [dm6]	C	A	2.931e^-5	0.97	INTERGENIC
3L	10542483	3L_10542483_SNP [dm3] 3L_10549383_SNP [dm6]	T	G	2.949e^-5	0.97	INTRON A2bp1
3L	9611475	3L_9611475_SNP [dm3] 3L_9618375_SNP [dm6]	A	G	2.951e^-5	0.97	SYNONYMOUS_CODING LanB2	TF binding site mE1_TFBS_cad
2R	13888271	2R_13888271_SNP [dm3] 2R_18000766_SNP [dm6]	A	T	3.002e^-5	0.97	INTRON dpr13
2L	5615775	2L_5615775_SNP [dm3] 2L_5615775_SNP [dm6]	A	C	3.005e^-5	0.97	DOWNSTREAM CR44795 INTRON CG14010	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_hb
3R	23367216	3R_23367216_SNP [dm3] 3R_27541494_SNP [dm6]	G	A	3.051e^-5	0.97	INTERGENIC
2L	15095483	2L_15095483_SNP [dm3] 2L_15095483_SNP [dm6]	T	G	3.276e^-5	1	INTRON CG15270
3R	12738528	3R_12738528_SNP [dm3] 3R_16912806_SNP [dm6]	T	G	3.396e^-5	1	INTRON iab-8	TF binding site BDTNP1_TFBS_dl
2R	10897085	2R_10897085_SNP [dm3] 2R_15009580_SNP [dm6]	T	A	3.399e^-5	1	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA
2L	13683704	2L_13683704_SNP [dm3] 2L_13683704_SNP [dm6]	A	G	3.474e^-5	1	INTRON CG31814
2L	5615771	2L_5615771_SNP [dm3] 2L_5615771_SNP [dm6]	A	T	3.494e^-5	1	DOWNSTREAM CR44795 INTRON CG14010	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_hb
2R	19666703	2R_19666703_SNP [dm3] 2R_23779180_SNP [dm6]	A	C	3.557e^-5	1	INTRON CG9850
2R	14134799	2R_14134799_SNP [dm3] 2R_18247294_SNP [dm6]	C	T	3.682e^-5	1	UPSTREAM CR44420 INTERGENIC	TF binding site BDTNP1_TFBS_da
3L	9395719	3L_9395719_SNP [dm3] 3L_9402619_SNP [dm6]	C	G	3.862e^-5	1	UPSTREAM eIF-4E INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_D mE1_TFBS_h mE1_TFBS_HSA mE1_TFBS_Trl mE1_TFBS_Ubx
2L	5615792	2L_5615792_SNP [dm3] 2L_5615792_SNP [dm6]	C	T	3.907e^-5	1	DOWNSTREAM CR44795 INTRON CG14010	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_hb
3L	9394788	3L_9394788_INS [dm3] 3L_9401688_INS [dm6]	G	GAGACTGCG	3.945e^-5	1	UTR_5_PRIME eIF-4E INTRON eIF-4E	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_D mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_Trl
X	13241097	X_13241097_SNP [dm3] X_13347064_SNP [dm6]	A	T	4.016e^-5	1	UPSTREAM CR45709 INTERGENIC
3R	24938557	3R_24938557_INS [dm3] 3R_29112835_INS [dm6]	C	CTCTC	4.059e^-5	1	UPSTREAM CG11876 & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_dl
3L	5342569	3L_5342569_DEL [dm3] 3L_5349469_DEL [dm6]	AAATA	A	4.152e^-5	1	INTRON lama
3L	9395770	3L_9395770_DEL [dm3] 3L_9402670_DEL [dm6]	TTC	AA	4.234e^-5	1	UPSTREAM eIF-4E INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_h mE1_TFBS_HSA mE1_TFBS_Trl mE1_TFBS_Ubx
3L	8455806	3L_8455806_SNP [dm3] 3L_8462706_SNP [dm6]	A	T	4.239e^-5	1	INTRON Gug	TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_dl mE1_TFBS_cad mE1_TFBS_HSA
2L	5825743	2L_5825743_INS [dm3] 2L_5825743_INS [dm6]	T	TATGTCCGCAAT...	4.337e^-5	1	INTRON TrissinR
3L	9395698	3L_9395698_SNP [dm3] 3L_9402598_SNP [dm6]	T	G	4.360e^-5	1	UPSTREAM eIF-4E INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_D mE1_TFBS_h mE1_TFBS_HSA mE1_TFBS_Trl mE1_TFBS_Ubx
2R	14883606	2R_14883606_SNP [dm3] 2R_18996101_SNP [dm6]	A	T	4.365e^-5	1	INTRON tn
3R	5438822	3R_5438822_SNP [dm3] 3R_9613100_SNP [dm6]	A	T	4.374e^-5	1	INTRON CG8312
X	13292866	X_13292866_SNP [dm3] X_13398833_SNP [dm6]	G	A	4.499e^-5	1	SYNONYMOUS_CODING CG1673
3R	4198842	3R_4198842_SNP [dm3] 3R_8373120_SNP [dm6]	T	C	4.500e^-5	1	INTRON CG45263	TF binding site mE1_TFBS_HSA mE1_TFBS_inv
X	5971713	X_5971713_SNP [dm3] X_6077680_SNP [dm6]	T	G	4.607e^-5	1	UTR_5_PRIME CG4666 UPSTREAM CG4666
2L	7063008	2L_7063008_INS [dm3] 2L_7063008_INS [dm6]	A	AA	4.710e^-5	1	UTR_3_PRIME Mnn1 UPSTREAM Sem1 DOWNSTREAM Mnn1
3R	3185767	3R_3185767_SNP [dm3] 3R_7360045_SNP [dm6]	A	G	4.763e^-5	1	INTERGENIC
2R	18774612	2R_18774612_SNP [dm3] 2R_22887089_SNP [dm6]	C	T	4.848e^-5	1	SYNONYMOUS_CODING asrij UPSTREAM CG3499 DOWNSTREAM Gmer	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_tll mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_sens
3L	3674446	3L_3674446_SNP [dm3] 3L_3674446_SNP [dm6]	T	A	4.871e^-5	1	INTERGENIC
2R	19339263	2R_19339263_DEL [dm3] 2R_23451740_DEL [dm6]	GT	C	4.880e^-5	1	INTRON CG43795
3L	9394998	3L_9394998_SNP [dm3] 3L_9401898_SNP [dm6]	T	A	4.918e^-5	1	UPSTREAM eIF-4E INTRON eIF-4E	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_D mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_Trl
3L	8311874	3L_8311874_SNP [dm3] 3L_8318774_SNP [dm6]	A	T	4.921e^-5	1	INTRON CG43059
2L	11813713	2L_11813713_DEL [dm3] 2L_11813713_DEL [dm6]	TT	T	4.931e^-5	1	DOWNSTREAM Pde1c INTRON CycY	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med
2L	7075702	2L_7075702_SNP [dm3] 2L_7075702_SNP [dm6]	G	A	4.968e^-5	1	INTRON Pvf2	TF binding site mE1_TFBS_cad mE1_TFBS_HSA
3R	22900602	3R_22900602_SNP [dm3] 3R_27074880_SNP [dm6]	A	C	4.995e^-5	1	UPSTREAM CG14257 INTERGENIC
2L	12316821	2L_12316821_SNP [dm3] 2L_12316821_SNP [dm6]	C	T	5.007e^-5	1	UPSTREAM CR45282 EXON CR45283
3L	13078882	3L_13078882_SNP [dm3] 3L_13085782_SNP [dm6]	C	T	5.090e^-5	1	DOWNSTREAM CG17300 INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi
3R	25026741	3R_25026741_SNP [dm3] 3R_29201019_SNP [dm6]	T	C	5.109e^-5	1	SYNONYMOUS_CODING CG11899 DOWNSTREAM Mesh1	TF binding site mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_sens
X	7733684	X_7733684_DEL [dm3] X_7839651_DEL [dm6]	CC	C	5.116e^-5	1	INTRON CG1402
2L	6581004	2L_6581004_SNP [dm3] 2L_6581004_SNP [dm6]	A	C	5.313e^-5	1	INTRON CG11319
2R	14357361	2R_14357361_SNP [dm3] 2R_18469856_SNP [dm6]	G	A	5.411e^-5	1	SYNONYMOUS_CODING CG30116	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
2R	15142226	2R_15142226_SNP [dm3] 2R_19254721_SNP [dm6]	A	T	5.435e^-5	1	INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_cad mE1_TFBS_HSA
2R	9999894	2R_9999894_SNP [dm3] 2R_14112389_SNP [dm6]	C	A	5.568e^-5	1	INTRON Prosap
3L	9393181	3L_9393181_SNP [dm3] 3L_9400081_SNP [dm6]	G	T	5.631e^-5	1	UPSTREAM CG4080 INTRON eIF-4E	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA

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By genomic position
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Gene name

Cuticul_n_C29 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