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=1.653e^-11)
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
No significant result.

Kruskal-Wallis test
No significant result.

PNG PDF

QQplot

PNG PDF

Manhattan plot

GWAS results

11537 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
2L	18871824	2L_18871824_DEL [dm3] 2L_18871824_DEL [dm6]	GCATA	G	2.947e^-237	8.528e^-233	INTRON tup	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
2L	18872036	2L_18872036_SNP [dm3] 2L_18872036_SNP [dm6]	C	T	2.947e^-237	8.528e^-233	INTRON tup	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
2L	18872056	2L_18872056_INS [dm3] 2L_18872056_INS [dm6]	C	AATA	2.947e^-237	8.528e^-233	INTRON tup	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
2L	18872058	2L_18872058_SNP [dm3] 2L_18872058_SNP [dm6]	G	C	2.947e^-237	8.528e^-233	INTRON tup	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
2L	18920689	2L_18920689_DEL [dm3] 2L_18920689_DEL [dm6]	ATCCCC	A	2.947e^-237	8.528e^-233	INTRON ssp3	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_Kr
2L	18921385	2L_18921385_SNP [dm3] 2L_18921385_SNP [dm6]	C	A	2.947e^-237	8.528e^-233	INTRON ssp3	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi
2L	18927777	2L_18927777_SNP [dm3] 2L_18927777_SNP [dm6]	C	A	2.947e^-237	8.528e^-233	INTRON ssp3	TF binding site BDTNP1_TFBS_prd mE1_TFBS_cad mE1_TFBS_Kr
2L	18931272	2L_18931272_SNP [dm3] 2L_18931272_SNP [dm6]	G	A	2.947e^-237	8.528e^-233	INTRON ssp3	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
2L	18954308	2L_18954308_SNP [dm3] 2L_18954308_SNP [dm6]	A	T	2.947e^-237	8.528e^-233	UTR_5_PRIME CG10621 UPSTREAM CR44741
2L	18962004	2L_18962004_DEL [dm3] 2L_18962004_DEL [dm6]	GTAC	G	2.947e^-237	8.528e^-233	UTR_3_PRIME Nak INTRON Nak
2L	18972958	2L_18972958_SNP [dm3] 2L_18972958_SNP [dm6]	G	A	2.947e^-237	8.528e^-233	SYNONYMOUS_CODING CG10639 DOWNSTREAM Tango6	TF binding site mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_sens
2L	20628366	2L_20628366_SNP [dm3] 2L_20628366_SNP [dm6]	A	C	2.947e^-237	8.528e^-233	INTERGENIC
2L	20628390	2L_20628390_SNP [dm3] 2L_20628390_SNP [dm6]	T	C	2.947e^-237	8.528e^-233	INTERGENIC
3R	12955165	3R_12955165_DEL [dm3] 3R_17129443_DEL [dm6]	CAC	C	2.947e^-237	8.528e^-233	UTR_3_PRIME CG17475 DOWNSTREAM CG31265	TF binding site mE1_TFBS_cad
2R	9248658	2R_9248658_SNP [dm3] 2R_13361153_SNP [dm6]	A	T	2.972e^-237	8.528e^-233	DOWNSTREAM CR45312 INTERGENIC
3L	6264340	3L_6264340_SNP [dm3] 3L_6271240_SNP [dm6]	A	G	2.984e^-237	8.528e^-233	INTERGENIC
3L	6264379	3L_6264379_SNP [dm3] 3L_6271279_SNP [dm6]	G	A	2.984e^-237	8.528e^-233	INTERGENIC
X	7994219	X_7994219_SNP [dm3] X_8100186_SNP [dm6]	A	G	2.984e^-237	8.528e^-233	UPSTREAM CG2258 INTRON CG2258	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA mE1_TFBS_Trl
2L	17082303	2L_17082303_SNP [dm3] 2L_17082303_SNP [dm6]	G	C	2.988e^-237	8.528e^-233	INTERGENIC
2L	18425492	2L_18425492_SNP [dm3] 2L_18425492_SNP [dm6]	A	T	2.988e^-237	8.528e^-233	INTERGENIC
2L	18452192	2L_18452192_SNP [dm3] 2L_18452192_SNP [dm6]	C	T	2.988e^-237	8.528e^-233	SYNONYMOUS_CODING bsf	TF binding site mE1_TFBS_cad
2L	18466124	2L_18466124_SNP [dm3] 2L_18466124_SNP [dm6]	C	T	2.988e^-237	8.528e^-233	INTRON let-7-C	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA mE1_TFBS_Trl
2R	20218053	2R_20218053_SNP [dm3] 2R_24330530_SNP [dm6]	C	T	2.988e^-237	8.528e^-233	DOWNSTREAM CR44810 & 1 other INTERGENIC	TF binding site mE1_TFBS_cad
2R	20740648	2R_20740648_SNP [dm3] 2R_24853125_SNP [dm6]	G	A	2.988e^-237	8.528e^-233	INTERGENIC	regulatory region REDfly_CRMs TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA mE1_TFBS_sens
2R	4331576	2R_4331576_SNP [dm3] 2R_8444071_SNP [dm6]	T	C	2.988e^-237	8.528e^-233	UPSTREAM Cyp4e2 & 1 other INTERGENIC	TF binding site mE1_TFBS_cnc mE1_TFBS_Trl
3L	10525037	3L_10525037_DEL [dm3] 3L_10531937_DEL [dm6]	GG	G	2.988e^-237	8.528e^-233	INTRON A2bp1	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA
3L	11952827	3L_11952827_SNP [dm3] 3L_11959727_SNP [dm6]	C	A	2.988e^-237	8.528e^-233	NON_SYNONYMOUS_CODING prc DOWNSTREAM CG43294
3L	15475568	3L_15475568_DEL [dm3] 3L_15482468_DEL [dm6]	ATAATAAAACGAGGGACAAT...	A	2.988e^-237	8.528e^-233	INTERGENIC
3L	17610056	3L_17610056_DEL [dm3] 3L_17616956_DEL [dm6]	TCT	T	2.988e^-237	8.528e^-233	INTRON Eip74EF
3L	17875855	3L_17875855_SNP [dm3] 3L_17882755_SNP [dm6]	C	G	2.988e^-237	8.528e^-233	UTR_3_PRIME CG7408 DOWNSTREAM CG5506 & 1 other
3L	17875859	3L_17875859_SNP [dm3] 3L_17882759_SNP [dm6]	T	A	2.988e^-237	8.528e^-233	UTR_3_PRIME CG7408 DOWNSTREAM CG5506 & 1 other
3L	18574227	3L_18574227_SNP [dm3] 3L_18581127_SNP [dm6]	G	A	2.988e^-237	8.528e^-233	INTERGENIC
X	21910828	X_21910828_SNP [dm3] X_22508992_SNP [dm6]	T	C	2.988e^-237	8.528e^-233	DOWNSTREAM l_1_G0196 INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
X	2343998	X_2343998_SNP [dm3] X_2449965_SNP [dm6]	G	T	2.988e^-237	8.528e^-233	NON_SYNONYMOUS_CODING z INTRON boi	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
2L	18749747	2L_18749747_SNP [dm3] 2L_18749747_SNP [dm6]	T	C	3.006e^-237	8.528e^-233	INTERGENIC
2L	18864574	2L_18864574_SNP [dm3] 2L_18864574_SNP [dm6]	C	T	3.006e^-237	8.528e^-233	INTRON tup
2L	18950964	2L_18950964_SNP [dm3] 2L_18950964_SNP [dm6]	G	A	3.006e^-237	8.528e^-233	UTR_3_PRIME CG10428 DOWNSTREAM Nedd8	TF binding site mE1_TFBS_HSA mE1_TFBS_inv
2L	18957934	2L_18957934_SNP [dm3] 2L_18957934_SNP [dm6]	T	G	3.006e^-237	8.528e^-233	UTR_3_PRIME Nak UPSTREAM CG10623
2L	18981834	2L_18981834_SNP [dm3] 2L_18981834_SNP [dm6]	A	T	3.006e^-237	8.528e^-233	INTRON Swip-1	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_Kr
2L	3261346	2L_3261346_SNP [dm3] 2L_3261346_SNP [dm6]	C	T	3.006e^-237	8.528e^-233	UPSTREAM CR45337 DOWNSTREAM CR45338 INTERGENIC
2R	15405004	2R_15405004_SNP [dm3] 2R_19517499_SNP [dm6]	T	C	3.006e^-237	8.528e^-233	DOWNSTREAM sm INTERGENIC
2R	16684556	2R_16684556_SNP [dm3] 2R_20797051_SNP [dm6]	T	C	3.006e^-237	8.528e^-233	INTERGENIC	TF binding site mE1_TFBS_cad mE1_TFBS_HSA
2R	16708791	2R_16708791_SNP [dm3] 2R_20821286_SNP [dm6]	T	C	3.006e^-237	8.528e^-233	UTR_3_PRIME insc
2R	16708824	2R_16708824_SNP [dm3] 2R_20821319_SNP [dm6]	A	C	3.006e^-237	8.528e^-233	UTR_3_PRIME insc
2R	3924511	2R_3924511_SNP [dm3] 2R_8037006_SNP [dm6]	A	C	3.006e^-237	8.528e^-233	INTRON Optix
3L	15678690	3L_15678690_SNP [dm3] 3L_15685590_SNP [dm6]	A	T	3.006e^-237	8.528e^-233	DOWNSTREAM CG34452 INTRON pgant8	TF binding site mE1_TFBS_inv
3L	18019051	3L_18019051_SNP [dm3] 3L_18025951_SNP [dm6]	G	A	3.006e^-237	8.528e^-233	INTRON Eip75B
3L	1841589	3L_1841589_SNP [dm3] 3L_1841589_SNP [dm6]	A	G	3.006e^-237	8.528e^-233	INTRON Cpr62Bc
3L	7196719	3L_7196719_SNP [dm3] 3L_7203619_SNP [dm6]	G	C	3.006e^-237	8.528e^-233	INTERGENIC
3L	8509806	3L_8509806_SNP [dm3] 3L_8516706_SNP [dm6]	C	T	3.006e^-237	8.528e^-233	SYNONYMOUS_CODING CG6765	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
3L	8510025	3L_8510025_SNP [dm3] 3L_8516925_SNP [dm6]	C	T	3.006e^-237	8.528e^-233	SYNONYMOUS_CODING CG6765	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
3R	3279714	3R_3279714_SNP [dm3] 3R_7453992_SNP [dm6]	T	G	3.006e^-237	8.528e^-233	INTERGENIC	TF binding site mE1_TFBS_inv
3R	3311177	3R_3311177_SNP [dm3] 3R_7485455_SNP [dm6]	T	A	3.006e^-237	8.528e^-233	INTERGENIC
3R	3322696	3R_3322696_SNP [dm3] 3R_7496974_SNP [dm6]	G	A	3.006e^-237	8.528e^-233	INTRON alpha-Est9
3R	3331381	3R_3331381_SNP [dm3] 3R_7505659_SNP [dm6]	A	C	3.006e^-237	8.528e^-233	UPSTREAM alpha-Est9 INTERGENIC
X	21149886	X_21149886_INS [dm3] X_21278859_INS [dm6]	A	ACCACTCGTGAATTAAAAAA...	3.006e^-237	8.528e^-233	INTRON CG32521
X	2839618	X_2839618_SNP [dm3] X_2945585_SNP [dm6]	A	G	3.006e^-237	8.528e^-233	SYNONYMOUS_CODING CG14423 INTRON kirre	TF binding site mE1_TFBS_inv
X	6635482	X_6635482_DEL [dm3] X_6741449_DEL [dm6]	CAA	C	3.006e^-237	8.528e^-233	DOWNSTREAM RpL17 & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_bab1 mE1_TFBS_D mE1_TFBS_h mE1_TFBS_HSA
X	7994914	X_7994914_SNP [dm3] X_8100881_SNP [dm6]	G	T	3.006e^-237	8.528e^-233	UPSTREAM CG2258 INTRON CG2258	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA mE1_TFBS_Trl
3L	10954866	3L_10954866_SNP [dm3] 3L_10961766_SNP [dm6]	C	G	3.058e^-237	8.528e^-233	EXON CR45249
3L	1938310	3L_1938310_SNP [dm3] 3L_1938310_SNP [dm6]	G	A	3.058e^-237	8.528e^-233	DOWNSTREAM CR44536 INTRON CG5687
2L	3339037	2L_3339037_SNP [dm3] 2L_3339037_SNP [dm6]	G	A	3.230e^-237	8.528e^-233	INTRON E23	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_z mE1_TFBS_HSA mE1_TFBS_inv mE1_TFBS_Trl mE1_TFBS_zfh1
3L	13685032	3L_13685032_SNP [dm3] 3L_13691932_SNP [dm6]	T	G	3.230e^-237	8.528e^-233	INTRON bru-3
2L	18784749	2L_18784749_SNP [dm3] 2L_18784749_SNP [dm6]	C	G	3.392e^-237	8.528e^-233	INTRON ham	TF binding site BDTNP1_TFBS_dl
2L	18806266	2L_18806266_SNP [dm3] 2L_18806266_SNP [dm6]	A	T	3.392e^-237	8.528e^-233	UPSTREAM CG43814 & 1 other INTERGENIC
2R	5498557	2R_5498557_SNP [dm3] 2R_9611052_SNP [dm6]	A	G	3.392e^-237	8.528e^-233	UPSTREAM CG12926 DOWNSTREAM Mmp2 INTRON CR44069	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi mE1_TFBS_HSA
2R	5498569	2R_5498569_SNP [dm3] 2R_9611064_SNP [dm6]	A	G	3.392e^-237	8.528e^-233	UPSTREAM CG12926 DOWNSTREAM Mmp2 INTRON CR44069	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi mE1_TFBS_HSA
2R	5498637	2R_5498637_SNP [dm3] 2R_9611132_SNP [dm6]	G	A	3.392e^-237	8.528e^-233	UPSTREAM CG12926 DOWNSTREAM Mmp2 INTRON CR44069	TF binding site BDTNP1_TFBS_twi
3L	11528379	3L_11528379_SNP [dm3] 3L_11535279_SNP [dm6]	G	A	3.392e^-237	8.528e^-233	UPSTREAM Mob2 INTRON Mob2	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA mE1_TFBS_kn
3L	11573954	3L_11573954_SNP [dm3] 3L_11580854_SNP [dm6]	C	T	3.392e^-237	8.528e^-233	UTR_3_PRIME CG43391 UPSTREAM CG43390 DOWNSTREAM CG33269
3L	637546	3L_637546_SNP [dm3] 3L_637546_SNP [dm6]	G	A	3.392e^-237	8.528e^-233	EXON CR43334 & 1 other	regulatory region REDfly_CRMs
3R	13535032	3R_13535032_SNP [dm3] 3R_17709310_SNP [dm6]	T	C	3.392e^-237	8.528e^-233	INTRON osa	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi
X	20559698	X_20559698_SNP [dm3] X_20688671_SNP [dm6]	C	T	3.392e^-237	8.528e^-233	INTERGENIC	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi mE1_TFBS_HSA
3R	25442262	3R_25442262_SNP [dm3] 3R_29616540_SNP [dm6]	T	C	2.984e^-219	7.402e^-215	INTRON alph	TF binding site mE1_TFBS_cad mE1_TFBS_HSA
3L	14394602	3L_14394602_SNP [dm3] 3L_14401502_SNP [dm6]	G	T	7.802e^-192	1.909e^-187	SYNONYMOUS_CODING CG3868
2R	12688444	2R_12688444_SNP [dm3] 2R_16800939_SNP [dm6]	G	A	2.292e^-191	5.535e^-187	INTERGENIC
3R	20810907	3R_20810907_SNP [dm3] 3R_24985185_SNP [dm6]	A	T	7.947e^-20	1.894e^-15	UPSTREAM tnc INTRON tnc
2R	2681682	2R_2681682_SNP [dm3] 2R_6794177_SNP [dm6]	A	T	2.046e^-17	4.814e^-13	INTRON Epac	TF binding site mE1_TFBS_chinmo
2L	3637270	2L_3637270_SNP [dm3] 2L_3637270_SNP [dm6]	T	C	6.815e^-15	1.583e^-10	UPSTREAM mir-4972 INTRON for
2L	3126498	2L_3126498_SNP [dm3] 2L_3126498_SNP [dm6]	A	G	1.541e^-14	3.491e^-10	SYNONYMOUS_CODING toc	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_sens
2L	3428128	2L_3428128_SNP [dm3] 2L_3428128_SNP [dm6]	C	G	1.541e^-14	3.491e^-10	INTERGENIC
3L	17539052	3L_17539052_INS [dm3] 3L_17545952_INS [dm6]	A	AA	2.187e^-13	4.896e^-9	UTR_3_PRIME Nedd4 DOWNSTREAM Jon74E
2L	4938211	2L_4938211_SNP [dm3] 2L_4938211_SNP [dm6]	A	T	5.225e^-13	1.155e^-8	NON_SYNONYMOUS_CODING Sgs1	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
2R	14733513	2R_14733513_SNP [dm3] 2R_18846008_SNP [dm6]	C	T	6.019e^-13	1.284e^-8	DOWNSTREAM CG15100 INTRON CG15099	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_Trl
2R	15404443	2R_15404443_SNP [dm3] 2R_19516938_SNP [dm6]	C	T	6.019e^-13	1.284e^-8	DOWNSTREAM sm INTERGENIC
2R	15404455	2R_15404455_SNP [dm3] 2R_19516950_SNP [dm6]	T	C	6.019e^-13	1.284e^-8	DOWNSTREAM sm INTERGENIC
2R	637849	2R_637849_SNP [dm3] 2R_4750344_SNP [dm6]	A	G	7.043e^-12	1.469e^-7	INTRON conu
2R	641613	2R_641613_SNP [dm3] 2R_4754108_SNP [dm6]	T	C	7.043e^-12	1.469e^-7	INTRON conu
X	7994752	X_7994752_SNP [dm3] X_8100719_SNP [dm6]	G	A	2.359e^-11	4.864e^-7	UPSTREAM CG2258 INTRON CG2258	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_HSA mE1_TFBS_Trl
2L	3973430	2L_3973430_SNP [dm3] 2L_3973430_SNP [dm6]	T	C	4.906e^-11	9.291e^-7	INTRON fred
X	7994692	X_7994692_SNP [dm3] X_8100659_SNP [dm6]	C	A	4.906e^-11	9.291e^-7	UPSTREAM CG2258 INTRON CG2258	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_HSA mE1_TFBS_Trl
2L	18867678	2L_18867678_SNP [dm3] 2L_18867678_SNP [dm6]	C	T	5.467e^-11	9.291e^-7	UPSTREAM mir-4946 INTRON tup	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA
2L	18867753	2L_18867753_SNP [dm3] 2L_18867753_SNP [dm6]	G	T	5.467e^-11	9.291e^-7	UPSTREAM mir-4946 INTRON tup	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA
2L	956908	2L_956908_SNP [dm3] 2L_956908_SNP [dm6]	T	C	5.467e^-11	9.291e^-7	SYNONYMOUS_CODING CG4341
2R	10862034	2R_10862034_SNP [dm3] 2R_14974529_SNP [dm6]	C	T	5.467e^-11	9.291e^-7	INTRON ckn	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_prd BDTNP1_TFBS_sna
3L	6264301	3L_6264301_SNP [dm3] 3L_6271201_SNP [dm6]	T	G	5.467e^-11	9.291e^-7	INTERGENIC
3L	6264312	3L_6264312_SNP [dm3] 3L_6271212_SNP [dm6]	G	T	5.467e^-11	9.291e^-7	INTERGENIC
3L	6264330	3L_6264330_INS [dm3] 3L_6271230_INS [dm6]	T	TTT	5.467e^-11	9.291e^-7	INTERGENIC
3L	6264335	3L_6264335_SNP [dm3] 3L_6271235_SNP [dm6]	G	A	5.467e^-11	9.291e^-7	INTERGENIC
3L	6264346	3L_6264346_SNP [dm3] 3L_6271246_SNP [dm6]	T	G	5.467e^-11	9.291e^-7	INTERGENIC

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By genomic position
Variant impact
Gene name

pc_MB_Alpha_Short phenotype

Phenotype distribution and association to known covariates

QQplot

Manhattan plot

GWAS results