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=6.277e^-7)
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

1647 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
2R	12331930	2R_12331930_DEL [dm3] 2R_16444425_DEL [dm6]	TT	T	3.083e^-6	0.943	INTRON CG4409
3R	3732123	3R_3732123_DEL [dm3] 3R_7906401_DEL [dm6]	CAA	C	3.142e^-6	0.943	UPSTREAM Taf7 INTRON CG2943	TF binding site BDTNP1_TFBS_dl mE1_TFBS_cad mE1_TFBS_sens
3R	3759385	3R_3759385_SNP [dm3] 3R_7933663_SNP [dm6]	G	A	3.281e^-6	0.943	UTR_3_PRIME dsx DOWNSTREAM dsx INTRON dsx	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
3R	3887125	3R_3887125_SNP [dm3] 3R_8061403_SNP [dm6]	T	G	3.657e^-6	0.943	INTRON mAChR-B	TF binding site mE1_TFBS_inv
3R	3727301	3R_3727301_SNP [dm3] 3R_7901579_SNP [dm6]	C	G	4.891e^-6	0.943	SYNONYMOUS_CODING mRpS9 DOWNSTREAM wtrw
3L	7524569	3L_7524569_SNP [dm3] 3L_7531469_SNP [dm6]	A	G	6.044e^-6	0.943	UPSTREAM lqf INTRON lqf
3L	7523237	3L_7523237_SNP [dm3] 3L_7530137_SNP [dm6]	C	T	6.659e^-6	0.943	INTRON lqf	TF binding site mE1_TFBS_cad
2R	12338832	2R_12338832_SNP [dm3] 2R_16451327_SNP [dm6]	A	T	7.889e^-6	0.943	INTERGENIC
3R	3887121	3R_3887121_SNP [dm3] 3R_8061399_SNP [dm6]	G	A	8.183e^-6	0.943	INTRON mAChR-B	TF binding site mE1_TFBS_inv
3L	7523462	3L_7523462_SNP [dm3] 3L_7530362_SNP [dm6]	G	A	8.239e^-6	0.943	INTRON lqf
2L	9757843	2L_9757843_SNP [dm3] 2L_9757843_SNP [dm6]	A	C	8.987e^-6	0.943	UPSTREAM zf30C INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_slp1 mE1_TFBS_HSA mE1_TFBS_run
3R	12934567	3R_12934567_SNP [dm3] 3R_17108845_SNP [dm6]	G	A	9.346e^-6	0.943	SPLICE_SITE_REGION cher INTRON cher	TF binding site mE1_TFBS_cad
2L	4104744	2L_4104744_SNP [dm3] 2L_4104744_SNP [dm6]	T	C	9.514e^-6	0.943	INTRON ed
2L	9757901	2L_9757901_INS [dm3] 2L_9757901_INS [dm6]	T	TCTT	9.740e^-6	0.943	UPSTREAM zf30C INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 mE1_TFBS_HSA mE1_TFBS_run
3L	7518926	3L_7518926_SNP [dm3] 3L_7525826_SNP [dm6]	T	A	1.015e^-5	0.943	INTRON ltl
2L	9757846	2L_9757846_SNP [dm3] 2L_9757846_SNP [dm6]	G	C	1.144e^-5	0.943	UPSTREAM zf30C INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_slp1 mE1_TFBS_HSA mE1_TFBS_run
3R	3759561	3R_3759561_SNP [dm3] 3R_7933839_SNP [dm6]	C	T	1.188e^-5	0.943	UTR_3_PRIME dsx DOWNSTREAM dsx INTRON dsx	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
2L	9757903	2L_9757903_SNP [dm3] 2L_9757903_SNP [dm6]	G	T	1.253e^-5	0.943	UPSTREAM zf30C INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 mE1_TFBS_HSA mE1_TFBS_run
3L	10892866	3L_10892866_SNP [dm3] 3L_10899766_SNP [dm6]	A	C	1.317e^-5	0.943	UPSTREAM Aps INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_bab1
X	8434733	X_8434733_SNP [dm3] X_8540700_SNP [dm6]	C	T	1.353e^-5	0.943	INTRON Nrg
2R	6997655	2R_6997655_SNP [dm3] 2R_11110150_SNP [dm6]	T	A	1.356e^-5	0.943	INTRON luna
2R	12340981	2R_12340981_SNP [dm3] 2R_16453476_SNP [dm6]	T	A	1.384e^-5	0.943	INTERGENIC
3L	8751152	3L_8751152_SNP [dm3] 3L_8758052_SNP [dm6]	A	C	1.418e^-5	0.943	DOWNSTREAM CG6576 INTRON Fhos
2L	3526443	2L_3526443_SNP [dm3] 2L_3526443_SNP [dm6]	T	C	1.461e^-5	0.943	NON_SYNONYMOUS_CODING CG8852 DOWNSTREAM Spindly	TF binding site mE1_TFBS_HSA
3L	1590954	3L_1590954_SNP [dm3] 3L_1590954_SNP [dm6]	C	T	1.515e^-5	0.943	INTRON CG13917
2L	9757855	2L_9757855_SNP [dm3] 2L_9757855_SNP [dm6]	T	A	1.609e^-5	0.943	UPSTREAM zf30C INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_slp1 mE1_TFBS_HSA mE1_TFBS_run
2L	9757864	2L_9757864_SNP [dm3] 2L_9757864_SNP [dm6]	A	T	1.609e^-5	0.943	UPSTREAM zf30C INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_slp1 mE1_TFBS_HSA mE1_TFBS_run
3L	7514680	3L_7514680_SNP [dm3] 3L_7521580_SNP [dm6]	G	A	1.803e^-5	0.943	INTRON ltl	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_twi
3R	26943417	3R_26943417_SNP [dm3] 3R_31117695_SNP [dm6]	T	G	1.855e^-5	0.943	INTERGENIC
2L	9757847	2L_9757847_SNP [dm3] 2L_9757847_SNP [dm6]	T	A	1.895e^-5	0.943	UPSTREAM zf30C INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_slp1 mE1_TFBS_HSA mE1_TFBS_run
2R	12338800	2R_12338800_SNP [dm3] 2R_16451295_SNP [dm6]	G	T	1.913e^-5	0.943	INTERGENIC
3L	12418526	3L_12418526_SNP [dm3] 3L_12425426_SNP [dm6]	C	T	1.940e^-5	0.943	SYNONYMOUS_CODING toe	TF binding site mE1_TFBS_cad
2L	9757867	2L_9757867_SNP [dm3] 2L_9757867_SNP [dm6]	T	G	1.946e^-5	0.943	UPSTREAM zf30C INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_slp1 mE1_TFBS_HSA mE1_TFBS_run
2L	9757857	2L_9757857_SNP [dm3] 2L_9757857_SNP [dm6]	G	A	2.034e^-5	0.943	UPSTREAM zf30C INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_slp1 mE1_TFBS_HSA mE1_TFBS_run
2L	9757907	2L_9757907_SNP [dm3] 2L_9757907_SNP [dm6]	A	C	2.077e^-5	0.943	UPSTREAM zf30C INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 mE1_TFBS_HSA mE1_TFBS_run
2L	4082586	2L_4082586_SNP [dm3] 2L_4082586_SNP [dm6]	C	T	2.189e^-5	0.943	INTRON ed
2L	1860552	2L_1860552_SNP [dm3] 2L_1860552_SNP [dm6]	C	T	2.229e^-5	0.943	INTRON CG31663
2R	12338784	2R_12338784_SNP [dm3] 2R_16451279_SNP [dm6]	A	T	2.253e^-5	0.943	INTERGENIC
3L	7515973	3L_7515973_SNP [dm3] 3L_7522873_SNP [dm6]	T	C	2.334e^-5	0.943	INTRON ltl	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi mE1_TFBS_HSA
2R	6537499	2R_6537499_SNP [dm3] 2R_10649994_SNP [dm6]	C	T	2.384e^-5	0.943	DOWNSTREAM CG12934 INTERGENIC
2L	9757839	2L_9757839_SNP [dm3] 2L_9757839_SNP [dm6]	G	A	2.443e^-5	0.943	UPSTREAM zf30C INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_slp1 mE1_TFBS_HSA mE1_TFBS_run
X	17462854	X_17462854_SNP [dm3] X_17568821_SNP [dm6]	G	A	2.455e^-5	0.943	SYNONYMOUS_CODING ppk23
2L	15023690	2L_15023690_SNP [dm3] 2L_15023690_SNP [dm6]	A	T	2.462e^-5	0.943	INTRON GABA-B-R1
2R	12338840	2R_12338840_INS [dm3] 2R_16451335_INS [dm6]	T	TT	2.484e^-5	0.943	INTERGENIC
3R	3716577	3R_3716577_SNP [dm3] 3R_7890855_SNP [dm6]	C	G	2.491e^-5	0.943	UPSTREAM wtrw DOWNSTREAM CG10092 INTRON mRpS9
X	4062359	X_4062359_SNP [dm3] X_4168326_SNP [dm6]	A	G	2.540e^-5	0.943	INTRON Fas2	TF binding site mE1_TFBS_disco mE1_TFBS_GATAe mE1_TFBS_h mE1_TFBS_hkb mE1_TFBS_HSA
2R	13975678	2R_13975678_SNP [dm3] 2R_18088173_SNP [dm6]	A	C	2.593e^-5	0.943	INTRON CG34386
3R	17559930	3R_17559930_SNP [dm3] 3R_21734208_SNP [dm6]	G	A	2.716e^-5	0.943	INTERGENIC	TF binding site mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_sbb
3L	12672553	3L_12672553_SNP [dm3] 3L_12679453_SNP [dm6]	A	G	2.775e^-5	0.943	INTERGENIC
2L	20435781	2L_20435781_SNP [dm3] 2L_20435781_SNP [dm6]	G	T	2.808e^-5	0.943	INTRON CG31688
2L	9757833	2L_9757833_SNP [dm3] 2L_9757833_SNP [dm6]	A	C	2.929e^-5	0.943	UPSTREAM zf30C INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_slp1 mE1_TFBS_HSA mE1_TFBS_run
2R	1565042	2R_1565042_SNP [dm3] 2R_5677537_SNP [dm6]	C	T	2.986e^-5	0.943	UTR_3_PRIME scaf
2R	9974008	2R_9974008_SNP [dm3] 2R_14086503_SNP [dm6]	G	A	3.016e^-5	0.943	INTRON Prosap
2R	9974076	2R_9974076_DEL [dm3] 2R_14086571_DEL [dm6]	TATC	T	3.117e^-5	0.943	INTRON Prosap
2R	7225370	2R_7225370_SNP [dm3] 2R_11337865_SNP [dm6]	G	A	3.176e^-5	0.943	UTR_3_PRIME kappaTry DOWNSTREAM lambdaTry	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
2R	15251785	2R_15251785_SNP [dm3] 2R_19364280_SNP [dm6]	T	C	3.191e^-5	0.943	INTRON CG10051	TF binding site mE1_TFBS_cad
3R	3737683	3R_3737683_SNP [dm3] 3R_7911961_SNP [dm6]	A	C	3.231e^-5	0.943	UPSTREAM Prat DOWNSTREAM CG2846 INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_HSA
3L	7518869	3L_7518869_SNP [dm3] 3L_7525769_SNP [dm6]	G	A	3.293e^-5	0.943	INTRON ltl
3L	13895902	3L_13895902_SNP [dm3] 3L_13902802_SNP [dm6]	A	T	3.351e^-5	0.943	UTR_5_PRIME dysc
2R	9976701	2R_9976701_SNP [dm3] 2R_14089196_SNP [dm6]	C	A	3.394e^-5	0.943	INTRON Prosap
3L	8683705	3L_8683705_SNP [dm3] 3L_8690605_SNP [dm6]	A	C	3.415e^-5	0.943	INTERGENIC
3R	22758941	3R_22758941_SNP [dm3] 3R_26933219_SNP [dm6]	G	A	3.416e^-5	0.943	INTRON sda
2R	5317353	2R_5317353_SNP [dm3] 2R_9429848_SNP [dm6]	C	T	3.579e^-5	0.943	INTRON Pdk
2R	12340989	2R_12340989_SNP [dm3] 2R_16453484_SNP [dm6]	G	C	3.593e^-5	0.943	INTERGENIC
2L	9757908	2L_9757908_SNP [dm3] 2L_9757908_SNP [dm6]	G	T	3.665e^-5	0.943	UPSTREAM zf30C INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 mE1_TFBS_HSA mE1_TFBS_run
2L	14577910	2L_14577910_SNP [dm3] 2L_14577910_SNP [dm6]	A	G	3.851e^-5	0.943	DOWNSTREAM CR44856 INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_sens
2L	9757816	2L_9757816_SNP [dm3] 2L_9757816_SNP [dm6]	T	C	4.011e^-5	0.943	UPSTREAM zf30C INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_slp1 mE1_TFBS_HSA mE1_TFBS_run
X	4707004	X_4707004_SNP [dm3] X_4812971_SNP [dm6]	A	T	4.025e^-5	0.943	INTERGENIC
2R	12765594	2R_12765594_SNP [dm3] 2R_16878089_SNP [dm6]	A	C	4.052e^-5	0.943	INTRON CG8910	TF binding site mE1_TFBS_cad
2L	14032182	2L_14032182_DEL [dm3] 2L_14032182_DEL [dm6]	CT	C	4.078e^-5	0.943	UPSTREAM CG18095 EXON CR45284
3R	3736594	3R_3736594_SNP [dm3] 3R_7910872_SNP [dm6]	C	T	4.084e^-5	0.943	SYNONYMOUS_CODING Prat	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_sna mE1_TFBS_chinmo mE1_TFBS_HSA mE1_TFBS_sens
2R	2041861	2R_2041861_SNP [dm3] 2R_6154356_SNP [dm6]	C	A	4.130e^-5	0.943	UPSTREAM tRNA:N5:42Af INTRON EcR
2R	12338836	2R_12338836_SNP [dm3] 2R_16451331_SNP [dm6]	T	G	4.225e^-5	0.943	INTERGENIC
2L	14032154	2L_14032154_INS [dm3] 2L_14032154_INS [dm6]	T	TT	4.225e^-5	0.943	UPSTREAM CG18095 EXON CR45284
3R	3767490	3R_3767490_SNP [dm3] 3R_7941768_SNP [dm6]	T	C	4.314e^-5	0.943	INTRON dsx
3R	3752904	3R_3752904_INS [dm3] 3R_7927182_INS [dm6]	G	GAG	4.346e^-5	0.943	INTRON dsx
3L	11663862	3L_11663862_SNP [dm3] 3L_11670762_SNP [dm6]	A	G	4.414e^-5	0.943	INTRON CG32085
2R	7282692	2R_7282692_SNP [dm3] 2R_11395187_SNP [dm6]	G	A	4.477e^-5	0.943	DOWNSTREAM tRNA:CR30257 INTRON sprt	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_prd BDTNP1_TFBS_twi mE1_TFBS_HSA
3R	18861017	3R_18861017_SNP [dm3] 3R_23035295_SNP [dm6]	T	A	4.521e^-5	0.943	INTRON CG13833
2R	12338773	2R_12338773_SNP [dm3] 2R_16451268_SNP [dm6]	T	G	4.536e^-5	0.943	INTERGENIC
2L	9757975	2L_9757975_SNP [dm3] 2L_9757975_SNP [dm6]	G	A	4.571e^-5	0.943	UPSTREAM zf30C INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 mE1_TFBS_bab1 mE1_TFBS_HSA mE1_TFBS_run mE1_TFBS_Trl
2L	9757852	2L_9757852_SNP [dm3] 2L_9757852_SNP [dm6]	G	T	4.624e^-5	0.943	UPSTREAM zf30C INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_slp1 mE1_TFBS_HSA mE1_TFBS_run
2L	9758035	2L_9758035_SNP [dm3] 2L_9758035_SNP [dm6]	G	A	4.818e^-5	0.943	UPSTREAM zf30C INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 mE1_TFBS_bab1 mE1_TFBS_HSA mE1_TFBS_run mE1_TFBS_Trl
3R	7494204	3R_7494204_SNP [dm3] 3R_11668482_SNP [dm6]	C	T	4.852e^-5	0.943	NON_SYNONYMOUS_CODING CG42327	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
2L	9757831	2L_9757831_SNP [dm3] 2L_9757831_SNP [dm6]	G	A	4.963e^-5	0.943	UPSTREAM zf30C INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_slp1 mE1_TFBS_HSA mE1_TFBS_run
3R	17559947	3R_17559947_SNP [dm3] 3R_21734225_SNP [dm6]	T	A	5.017e^-5	0.943	INTERGENIC	TF binding site mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_sbb
2L	9757890	2L_9757890_SNP [dm3] 2L_9757890_SNP [dm6]	C	A	5.040e^-5	0.943	UPSTREAM zf30C INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 mE1_TFBS_HSA mE1_TFBS_run
2R	12338772	2R_12338772_SNP [dm3] 2R_16451267_SNP [dm6]	C	A	5.046e^-5	0.943	INTERGENIC
2L	15023671	2L_15023671_SNP [dm3] 2L_15023671_SNP [dm6]	G	A	5.057e^-5	0.943	INTRON GABA-B-R1
3R	3768204	3R_3768204_SNP [dm3] 3R_7942482_SNP [dm6]	T	C	5.099e^-5	0.943	INTRON dsx
2L	9758037	2L_9758037_SNP [dm3] 2L_9758037_SNP [dm6]	T	G	5.127e^-5	0.943	UPSTREAM zf30C INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 mE1_TFBS_bab1 mE1_TFBS_HSA mE1_TFBS_run mE1_TFBS_Trl
2R	18154650	2R_18154650_SNP [dm3] 2R_22267145_SNP [dm6]	G	C	5.130e^-5	0.943	INTRON dve	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl mE1_TFBS_HSA
3R	3882804	3R_3882804_SNP [dm3] 3R_8057082_SNP [dm6]	G	A	5.169e^-5	0.943	INTERGENIC
3L	10898033	3L_10898033_SNP [dm3] 3L_10904933_SNP [dm6]	A	T	5.237e^-5	0.943	INTERGENIC
3R	25115832	3R_25115832_SNP [dm3] 3R_29290110_SNP [dm6]	G	A	5.246e^-5	0.943	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_inv mE1_TFBS_sens
3R	3768933	3R_3768933_SNP [dm3] 3R_7943211_SNP [dm6]	T	C	5.274e^-5	0.943	INTRON dsx
2R	4510668	2R_4510668_SNP [dm3] 2R_8623163_SNP [dm6]	C	A	5.326e^-5	0.943	NON_SYNONYMOUS_CODING Cirl	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
2L	2158923	2L_2158923_SNP [dm3] 2L_2158923_SNP [dm6]	A	G	5.329e^-5	0.943	SYNONYMOUS_CODING aop	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
3L	7995293	3L_7995293_SNP [dm3] 3L_8002193_SNP [dm6]	C	T	5.407e^-5	0.943	INTRON nmo
2R	12338949	2R_12338949_SNP [dm3] 2R_16451444_SNP [dm6]	C	A	5.433e^-5	0.943	INTERGENIC

Showing 1 to 100 of 1,000 entries

Previous1 2 3 4 5…10Next

Missing results

By genomic position
Variant impact
Gene name

Cuticul_NI_33 phenotype

Phenotype distribution and association to known covariates

QQplot

Manhattan plot

GWAS results