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=6.566e^-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

Covariate	p-value	Significance
In_3R_K	0.09639

Kruskal-Wallis test
No significant result.

PNG PDF

QQplot

PNG PDF

Manhattan plot

GWAS results

2046 significant hits at p-value < 0.001. The 1000 top results are displayed in the table below.

We performed a gene enrichment calculation (Fisher's exact test) of all GWAS-associated genes at p < 0.001. Genesets were taken from two database: the Gene Ontology (GO) and the FlyBase phenotypes. GO enrichment FlyBase phenotype enrichment

Variant impact HIGH MODERATE LOW MODIFIER

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Chromosome	Position	ID	Reference	Variant	p-value	FDR_BH	Transcript annotation	Binding site annotation
3R	6455818	3R_6455818_SNP [dm3] 3R_10630096_SNP [dm6]	G	C	1.043e^-7	0.195	INTRON hth	TF binding site mE1_TFBS_cad
3R	6404817	3R_6404817_SNP [dm3] 3R_10579095_SNP [dm6]	A	C	1.043e^-6	0.781	INTRON hth	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_hb mE1_TFBS_disco mE1_TFBS_hkb mE1_TFBS_HSA
3R	6983761	3R_6983761_SNP [dm3] 3R_11158039_SNP [dm6]	A	T	2.159e^-6	0.781	INTRON Ugt86Da
3L	10697113	3L_10697113_SNP [dm3] 3L_10704013_SNP [dm6]	A	C	2.573e^-6	0.781	INTERGENIC
2L	12298152	2L_12298152_SNP [dm3] 2L_12298152_SNP [dm6]	C	T	2.683e^-6	0.781	INTRON aret	TF binding site mE1_TFBS_inv
2L	15990382	2L_15990382_SNP [dm3] 2L_15990382_SNP [dm6]	A	T	3.641e^-6	0.781	DOWNSTREAM CR43412 INTERGENIC
2L	15990388	2L_15990388_SNP [dm3] 2L_15990388_SNP [dm6]	A	G	4.357e^-6	0.781	DOWNSTREAM CR43412 INTERGENIC
3R	6446314	3R_6446314_SNP [dm3] 3R_10620592_SNP [dm6]	T	C	4.757e^-6	0.781	INTRON hth	TF binding site mE1_TFBS_cad
3L	9632157	3L_9632157_SNP [dm3] 3L_9639057_SNP [dm6]	G	T	5.076e^-6	0.781	UPSTREAM CG18179 DOWNSTREAM CG8329 INTRON fry	TF binding site mE1_TFBS_cad mE1_TFBS_HSA
3L	8378399	3L_8378399_SNP [dm3] 3L_8385299_SNP [dm6]	A	C	6.201e^-6	0.781	INTRON ImpE1
3L	15081132	3L_15081132_INS [dm3] 3L_15088032_INS [dm6]	T	TTATTTGATTT...	6.444e^-6	0.781	INTRON cp309
2L	17713037	2L_17713037_SNP [dm3] 2L_17713037_SNP [dm6]	G	C	7.048e^-6	0.781	INTRON CadN
3R	16897008	3R_16897008_SNP [dm3] 3R_21071286_SNP [dm6]	T	G	7.648e^-6	0.781	SYNONYMOUS_CODING r-l DOWNSTREAM AnxB9	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
3R	6980491	3R_6980491_SNP [dm3] 3R_11154769_SNP [dm6]	T	G	7.693e^-6	0.781	NON_SYNONYMOUS_CODING Ugt86Dc UPSTREAM Ugt86Di
2L	16473653	2L_16473653_SNP [dm3] 2L_16473653_SNP [dm6]	T	A	8.312e^-6	0.781	INTRON dac
3R	6960557	3R_6960557_SNP [dm3] 3R_11134835_SNP [dm6]	T	A	8.454e^-6	0.781	INTERGENIC
3R	6960554	3R_6960554_SNP [dm3] 3R_11134832_SNP [dm6]	C	T	9.930e^-6	0.781	INTERGENIC
2L	6976313	2L_6976313_SNP [dm3] 2L_6976313_SNP [dm6]	T	A	1.065e^-5	0.781	INTRON uif	TF binding site mE1_TFBS_cad
2L	7096505	2L_7096505_SNP [dm3] 2L_7096505_SNP [dm6]	T	C	1.089e^-5	0.781	INTERGENIC	TF binding site BDTNP1_TFBS_dl
3R	6640350	3R_6640350_SNP [dm3] 3R_10814628_SNP [dm6]	C	A	1.111e^-5	0.781	NON_SYNONYMOUS_CODING CG14693 UPSTREAM CG14693 & 1 other
3R	16773530	3R_16773530_INS [dm3] 3R_20947808_INS [dm6]	A	AA	1.253e^-5	0.781	UPSTREAM Atpalpha INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_zfh1
3L	5467789	3L_5467789_SNP [dm3] 3L_5474689_SNP [dm6]	A	C	1.286e^-5	0.781	INTERGENIC
3L	6481133	3L_6481133_SNP [dm3] 3L_6488033_SNP [dm6]	T	C	1.416e^-5	0.781	SYNONYMOUS_CODING CG10147 UPSTREAM CG8270	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_Kr mE1_TFBS_sens
2L	11477692	2L_11477692_SNP [dm3] 2L_11477692_SNP [dm6]	G	A	1.420e^-5	0.781	INTERGENIC
3R	16897347	3R_16897347_SNP [dm3] 3R_21071625_SNP [dm6]	T	A	1.512e^-5	0.781	SYNONYMOUS_CODING r-l DOWNSTREAM AnxB9	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
3R	16773550	3R_16773550_SNP [dm3] 3R_20947828_SNP [dm6]	G	C	1.512e^-5	0.781	UPSTREAM Atpalpha INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_zfh1
3R	9154859	3R_9154859_SNP [dm3] 3R_13329137_SNP [dm6]	T	C	1.582e^-5	0.781	UTR_3_PRIME PK2-R2
3L	15690074	3L_15690074_SNP [dm3] 3L_15696974_SNP [dm6]	A	T	1.592e^-5	0.781	DOWNSTREAM comm2 INTERGENIC
X	7998203	X_7998203_SNP [dm3] X_8104170_SNP [dm6]	C	T	1.686e^-5	0.781	NON_SYNONYMOUS_CODING Gclc	TF binding site mE1_TFBS_chinmo
3L	10697056	3L_10697056_SNP [dm3] 3L_10703956_SNP [dm6]	A	T	1.696e^-5	0.781	INTERGENIC
3R	16963192	3R_16963192_SNP [dm3] 3R_21137470_SNP [dm6]	G	T	1.753e^-5	0.781	SPLICE_SITE_REGION Ubpy UPSTREAM meigo INTRON Ubpy	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
3R	12516171	3R_12516171_SNP [dm3] 3R_16690449_SNP [dm6]	G	T	1.811e^-5	0.781	INTRON Ubx	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi
3L	2552127	3L_2552127_SNP [dm3] 3L_2552127_SNP [dm6]	A	C	1.812e^-5	0.781	INTRON Spn
3R	3879169	3R_3879169_SNP [dm3] 3R_8053447_SNP [dm6]	T	A	1.835e^-5	0.781	INTRON CG43060
3R	16962199	3R_16962199_SNP [dm3] 3R_21136477_SNP [dm6]	C	T	1.884e^-5	0.781	UPSTREAM Ubpy INTRON Ubpy
2L	17769017	2L_17769017_SNP [dm3] 2L_17769017_SNP [dm6]	A	C	1.909e^-5	0.781	INTRON CadN
3L	4811585	3L_4811585_SNP [dm3] 3L_4811585_SNP [dm6]	C	A	1.917e^-5	0.781	SYNONYMOUS_CODING Dhc64C
2R	17129016	2R_17129016_SNP [dm3] 2R_21241511_SNP [dm6]	A	G	1.955e^-5	0.781	INTRON ASPP
3R	23292838	3R_23292838_SNP [dm3] 3R_27467116_SNP [dm6]	G	A	1.966e^-5	0.781	DOWNSTREAM CG13978 INTERGENIC	TF binding site mE1_TFBS_HSA mE1_TFBS_inv
3R	23292839	3R_23292839_SNP [dm3] 3R_27467117_SNP [dm6]	T	C	1.966e^-5	0.781	DOWNSTREAM CG13978 INTERGENIC	TF binding site mE1_TFBS_HSA mE1_TFBS_inv
2L	17762237	2L_17762237_SNP [dm3] 2L_17762237_SNP [dm6]	G	A	2.035e^-5	0.781	INTRON CadN
3L	17999051	3L_17999051_DEL [dm3] 3L_18005951_DEL [dm6]	GG	G	2.059e^-5	0.781	INTRON Eip75B	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_z mE1_TFBS_Trl
3R	6933945	3R_6933945_SNP [dm3] 3R_11108223_SNP [dm6]	C	T	2.209e^-5	0.781	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA
2R	17089115	2R_17089115_SNP [dm3] 2R_21201610_SNP [dm6]	G	A	2.216e^-5	0.781	INTRON Glycogenin & 1 other	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_Trl
2R	17089116	2R_17089116_SNP [dm3] 2R_21201611_SNP [dm6]	T	A	2.216e^-5	0.781	INTRON Glycogenin & 1 other	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_Trl
3R	6958412	3R_6958412_SNP [dm3] 3R_11132690_SNP [dm6]	T	G	2.273e^-5	0.781	INTERGENIC
3R	23291066	3R_23291066_SNP [dm3] 3R_27465344_SNP [dm6]	C	T	2.308e^-5	0.781	SYNONYMOUS_CODING CG13978	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
3R	6641328	3R_6641328_SNP [dm3] 3R_10815606_SNP [dm6]	G	T	2.318e^-5	0.781	SYNONYMOUS_CODING CG4089 UPSTREAM CG14693	TF binding site mE1_TFBS_sens
3R	19061110	3R_19061110_SNP [dm3] 3R_23235388_SNP [dm6]	T	A	2.410e^-5	0.781	INTRON CG4467
3R	6965208	3R_6965208_SNP [dm3] 3R_11139486_SNP [dm6]	C	T	2.464e^-5	0.781	SYNONYMOUS_CODING CG4706
2L	12141596	2L_12141596_SNP [dm3] 2L_12141596_SNP [dm6]	C	T	2.625e^-5	0.781	INTERGENIC
2L	18384190	2L_18384190_SNP [dm3] 2L_18384190_SNP [dm6]	C	T	2.682e^-5	0.781	INTRON Fas3	TF binding site mE1_TFBS_cad
3R	8360687	3R_8360687_SNP [dm3] 3R_12534965_SNP [dm6]	G	A	2.695e^-5	0.781	INTRON Octbeta3R
2L	14576260	2L_14576260_SNP [dm3] 2L_14576260_SNP [dm6]	G	A	2.740e^-5	0.781	UPSTREAM CR44856 INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi
3L	13573725	3L_13573725_SNP [dm3] 3L_13580625_SNP [dm6]	A	C	2.774e^-5	0.781	INTRON bru-3
2L	9983637	2L_9983637_SNP [dm3] 2L_9983637_SNP [dm6]	A	G	2.784e^-5	0.781	DOWNSTREAM CR13130 INTERGENIC	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_dl
2R	18138776	2R_18138776_SNP [dm3] 2R_22251271_SNP [dm6]	G	A	2.861e^-5	0.781	INTRON dve	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl mE1_TFBS_HSA
3L	23944819	3L_23944819_SNP [dm3] 3L_23951719_SNP [dm6]	A	C	2.940e^-5	0.781	INTRON CG40470
2L	8052493	2L_8052493_SNP [dm3] 2L_8052493_SNP [dm6]	T	C	2.951e^-5	0.781	SYNONYMOUS_CODING CG7466
2L	7096494	2L_7096494_SNP [dm3] 2L_7096494_SNP [dm6]	T	G	3.056e^-5	0.781	INTERGENIC	TF binding site BDTNP1_TFBS_dl
3R	16991456	3R_16991456_SNP [dm3] 3R_21165734_SNP [dm6]	C	G	3.166e^-5	0.781	NON_SYNONYMOUS_CODING Snmp1 DOWNSTREAM CG5810 INTRON SNF4Agamma
3L	18225915	3L_18225915_SNP [dm3] 3L_18232815_SNP [dm6]	T	A	3.243e^-5	0.781	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA
3R	6440408	3R_6440408_SNP [dm3] 3R_10614686_SNP [dm6]	C	G	3.259e^-5	0.781	UPSTREAM hth INTRON hth	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_z mE1_TFBS_cad mE1_TFBS_D mE1_TFBS_disco mE1_TFBS_h mE1_TFBS_hkb mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_Trl
X	17715708	X_17715708_DEL [dm3] X_17821675_DEL [dm6]	TGTTACT	T	3.262e^-5	0.781	UTR_3_PRIME Socs16D	TF binding site BDTNP1_TFBS_dl mE1_TFBS_kn
3R	3161114	3R_3161114_SNP [dm3] 3R_7335392_SNP [dm6]	T	G	3.284e^-5	0.781	INTERGENIC
3R	21877137	3R_21877137_SNP [dm3] 3R_26051415_SNP [dm6]	A	G	3.316e^-5	0.781	SYNONYMOUS_CODING Exo84	TF binding site BDTNP1_TFBS_prd
3R	9341795	3R_9341795_SNP [dm3] 3R_13516073_SNP [dm6]	A	T	3.319e^-5	0.781	INTERGENIC
3L	8842727	3L_8842727_SNP [dm3] 3L_8849627_SNP [dm6]	C	T	3.328e^-5	0.781	INTRON dally
2L	17749366	2L_17749366_SNP [dm3] 2L_17749366_SNP [dm6]	A	T	3.398e^-5	0.781	INTRON CadN	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
X	6934656	X_6934656_SNP [dm3] X_7040623_SNP [dm6]	G	A	3.492e^-5	0.781	UTR_5_PRIME CG14427 INTRON CG12541	TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_ftz BDTNP1_TFBS_gt BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_shn BDTNP1_TFBS_sna BDTNP1_TFBS_tll BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_eve mE1_TFBS_HSA
X	17715695	X_17715695_SNP [dm3] X_17821662_SNP [dm6]	C	T	3.495e^-5	0.781	UTR_3_PRIME Socs16D	TF binding site BDTNP1_TFBS_dl mE1_TFBS_kn
3L	13626419	3L_13626419_SNP [dm3] 3L_13633319_SNP [dm6]	A	G	3.540e^-5	0.781	INTRON bru-3
3R	6446399	3R_6446399_SNP [dm3] 3R_10620677_SNP [dm6]	T	G	3.541e^-5	0.781	INTRON hth	TF binding site mE1_TFBS_cad
2L	13949532	2L_13949532_SNP [dm3] 2L_13949532_SNP [dm6]	A	T	3.724e^-5	0.781	INTRON Ance-3	TF binding site mE1_TFBS_HSA mE1_TFBS_sbb
2R	4439243	2R_4439243_SNP [dm3] 2R_8551738_SNP [dm6]	G	T	3.736e^-5	0.781	DOWNSTREAM CG12780 INTERGENIC
3R	23293808	3R_23293808_SNP [dm3] 3R_27468086_SNP [dm6]	T	A	3.810e^-5	0.781	INTERGENIC
2L	696945	2L_696945_SNP [dm3] 2L_696945_SNP [dm6]	C	T	3.839e^-5	0.781	INTRON ds
X	9845166	X_9845166_SNP [dm3] X_9951133_SNP [dm6]	C	A	3.845e^-5	0.781	INTERGENIC
3L	14705041	3L_14705041_SNP [dm3] 3L_14711941_SNP [dm6]	G	A	3.868e^-5	0.781	INTRON ome
2L	13876135	2L_13876135_SNP [dm3] 2L_13876135_SNP [dm6]	C	T	3.873e^-5	0.781	INTRON CenG1A
2R	17547111	2R_17547111_SNP [dm3] 2R_21659606_SNP [dm6]	G	A	3.929e^-5	0.781	SYNONYMOUS_CODING Rae1 DOWNSTREAM CG10320	TF binding site BDTNP1_TFBS_dl mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_sens mE1_TFBS_ttk
2L	17768131	2L_17768131_SNP [dm3] 2L_17768131_SNP [dm6]	C	T	3.956e^-5	0.781	INTRON CadN
2L	17769316	2L_17769316_SNP [dm3] 2L_17769316_SNP [dm6]	C	G	4.027e^-5	0.781	INTRON CadN
3R	16773596	3R_16773596_SNP [dm3] 3R_20947874_SNP [dm6]	T	C	4.160e^-5	0.781	UPSTREAM Atpalpha INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_zfh1
3R	6405090	3R_6405090_SNP [dm3] 3R_10579368_SNP [dm6]	C	T	4.198e^-5	0.781	INTRON hth	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_hb mE1_TFBS_HSA
2L	17713251	2L_17713251_DEL [dm3] 2L_17713251_DEL [dm6]	AA	A	4.230e^-5	0.781	INTRON CadN
3R	21877167	3R_21877167_SNP [dm3] 3R_26051445_SNP [dm6]	A	G	4.304e^-5	0.781	SYNONYMOUS_CODING Exo84	TF binding site BDTNP1_TFBS_prd
3R	16962381	3R_16962381_SNP [dm3] 3R_21136659_SNP [dm6]	G	C	4.415e^-5	0.781	INTRON Ubpy
3R	24089095	3R_24089095_SNP [dm3] 3R_28263373_SNP [dm6]	G	A	4.568e^-5	0.781	SYNONYMOUS_CODING CG43125 DOWNSTREAM CG43124
3L	4293492	3L_4293492_SNP [dm3] 3L_4293492_SNP [dm6]	A	C	4.649e^-5	0.781	DOWNSTREAM dyl & 1 other INTERGENIC
2L	17864039	2L_17864039_SNP [dm3] 2L_17864039_SNP [dm6]	T	G	4.691e^-5	0.781	UTR_5_PRIME CadN2
3L	3448456	3L_3448456_SNP [dm3] 3L_3448456_SNP [dm6]	C	T	4.724e^-5	0.781	INTRON eIF5B
3R	6987046	3R_6987046_DEL [dm3] 3R_11161324_DEL [dm6]	AGCCAA	A	4.754e^-5	0.781	FRAME_SHIFT CG4757
2L	11476375	2L_11476375_SNP [dm3] 2L_11476375_SNP [dm6]	T	C	4.765e^-5	0.781	INTERGENIC
2L	17867172	2L_17867172_SNP [dm3] 2L_17867172_SNP [dm6]	C	A	4.823e^-5	0.781	INTRON CadN2
3R	6966512	3R_6966512_SNP [dm3] 3R_11140790_SNP [dm6]	A	C	4.957e^-5	0.781	INTERGENIC
2L	13326891	2L_13326891_SNP [dm3] 2L_13326891_SNP [dm6]	A	T	4.996e^-5	0.781	INTRON CG43778
2L	17857516	2L_17857516_SNP [dm3] 2L_17857516_SNP [dm6]	A	G	4.997e^-5	0.781	INTRON CadN2
2L	11473837	2L_11473837_DEL [dm3] 2L_11473837_DEL [dm6]	TCT	T	5.026e^-5	0.781	INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_sna mE1_TFBS_cad
3R	6494423	3R_6494423_SNP [dm3] 3R_10668701_SNP [dm6]	C	T	5.030e^-5	0.781	INTERGENIC	TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_ftz BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA

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By genomic position
Variant impact
Gene name

mn_Glucose_Pooled phenotype

Phenotype distribution and association to known covariates

QQplot

Manhattan plot

GWAS results