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=3.263e^-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
No significant result.

Kruskal-Wallis test
No significant result.

PNG PDF

QQplot

PNG PDF

Manhattan plot

GWAS results

3126 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
2L	10196985	2L_10196985_SNP [dm3] 2L_10196985_SNP [dm6]	A	C	1.836e^-72	7.575e^-69	SPLICE_SITE_REGION Sur INTRON Sur
2L	10197179	2L_10197179_SNP [dm3] 2L_10197179_SNP [dm6]	A	T	1.836e^-72	7.575e^-69	NON_SYNONYMOUS_CODING Sur
2L	10275726	2L_10275726_SNP [dm3] 2L_10275726_SNP [dm6]	C	T	1.836e^-72	7.575e^-69	SYNONYMOUS_CODING Utx
2L	10276605	2L_10276605_SNP [dm3] 2L_10276605_SNP [dm6]	G	A	1.836e^-72	7.575e^-69	INTRON Utx	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 mE1_TFBS_HSA
2L	10277292	2L_10277292_SNP [dm3] 2L_10277292_SNP [dm6]	A	T	1.836e^-72	7.575e^-69	UPSTREAM Utx INTRON Utx	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_HSA mE1_TFBS_zfh1
2L	10278154	2L_10278154_SNP [dm3] 2L_10278154_SNP [dm6]	T	G	1.836e^-72	7.575e^-69	UPSTREAM Utx DOWNSTREAM CG34043 INTRON Utx	TF binding site BDTNP1_TFBS_dl
2L	10278209	2L_10278209_SNP [dm3] 2L_10278209_SNP [dm6]	T	G	1.836e^-72	7.575e^-69	UPSTREAM Utx DOWNSTREAM CG34043 INTRON Utx	TF binding site BDTNP1_TFBS_dl
2L	10278225	2L_10278225_SNP [dm3] 2L_10278225_SNP [dm6]	T	A	1.836e^-72	7.575e^-69	UPSTREAM Utx DOWNSTREAM CG34043 INTRON Utx	TF binding site BDTNP1_TFBS_dl
2L	10278242	2L_10278242_SNP [dm3] 2L_10278242_SNP [dm6]	G	T	1.836e^-72	7.575e^-69	SPLICE_SITE_REGION Utx UPSTREAM Utx DOWNSTREAM CG34043 INTRON Utx	TF binding site BDTNP1_TFBS_dl
2L	10278314	2L_10278314_SNP [dm3] 2L_10278314_SNP [dm6]	T	C	1.836e^-72	7.575e^-69	SYNONYMOUS_CODING Utx UPSTREAM Utx DOWNSTREAM CG34043	TF binding site BDTNP1_TFBS_dl
2L	10278393	2L_10278393_SNP [dm3] 2L_10278393_SNP [dm6]	C	T	1.836e^-72	7.575e^-69	NON_SYNONYMOUS_CODING Utx UPSTREAM Utx DOWNSTREAM CG34043	TF binding site BDTNP1_TFBS_dl
2L	10278398	2L_10278398_SNP [dm3] 2L_10278398_SNP [dm6]	A	C	1.836e^-72	7.575e^-69	SYNONYMOUS_CODING Utx UPSTREAM Utx DOWNSTREAM CG34043	TF binding site BDTNP1_TFBS_dl
2L	10278407	2L_10278407_SNP [dm3] 2L_10278407_SNP [dm6]	T	A	1.836e^-72	7.575e^-69	NON_SYNONYMOUS_CODING Utx UPSTREAM Utx DOWNSTREAM CG34043	TF binding site BDTNP1_TFBS_dl
2L	10575021	2L_10575021_SNP [dm3] 2L_10575021_SNP [dm6]	A	G	1.836e^-72	7.575e^-69	DOWNSTREAM w-cup INTRON Trim9
2L	10701637	2L_10701637_SNP [dm3] 2L_10701637_SNP [dm6]	G	C	1.836e^-72	7.575e^-69	UPSTREAM Lip1 DOWNSTREAM Lip2 INTERGENIC	regulatory region REDfly_CRMs
2L	10701657	2L_10701657_SNP [dm3] 2L_10701657_SNP [dm6]	A	G	1.836e^-72	7.575e^-69	UPSTREAM Lip1 DOWNSTREAM Lip2 INTERGENIC	regulatory region REDfly_CRMs
2L	10945902	2L_10945902_SNP [dm3] 2L_10945902_SNP [dm6]	C	A	1.836e^-72	7.575e^-69	INTRON dpr2
2L	11292759	2L_11292759_SNP [dm3] 2L_11292759_SNP [dm6]	C	T	1.836e^-72	7.575e^-69	INTERGENIC
2L	11292882	2L_11292882_SNP [dm3] 2L_11292882_SNP [dm6]	A	G	1.836e^-72	7.575e^-69	INTERGENIC
2L	11292978	2L_11292978_INS [dm3] 2L_11292978_INS [dm6]	T	CATAA	1.836e^-72	7.575e^-69	INTERGENIC
2L	11293996	2L_11293996_SNP [dm3] 2L_11293996_SNP [dm6]	A	G	1.836e^-72	7.575e^-69	INTERGENIC
2L	11294663	2L_11294663_SNP [dm3] 2L_11294663_SNP [dm6]	T	A	1.836e^-72	7.575e^-69	INTERGENIC	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
2L	11294755	2L_11294755_SNP [dm3] 2L_11294755_SNP [dm6]	G	A	1.836e^-72	7.575e^-69	INTERGENIC	TF binding site mE1_TFBS_HSA
2L	11295797	2L_11295797_SNP [dm3] 2L_11295797_SNP [dm6]	T	A	1.836e^-72	7.575e^-69	INTERGENIC
2L	12205357	2L_12205357_SNP [dm3] 2L_12205357_SNP [dm6]	G	T	1.836e^-72	7.575e^-69	UPSTREAM aret INTRON aret
2L	12420212	2L_12420212_SNP [dm3] 2L_12420212_SNP [dm6]	T	C	1.836e^-72	7.575e^-69	INTRON vir-1
2L	12542164	2L_12542164_SNP [dm3] 2L_12542164_SNP [dm6]	G	C	1.836e^-72	7.575e^-69	INTRON bun	TF binding site BDTNP1_TFBS_dl
2L	12542758	2L_12542758_SNP [dm3] 2L_12542758_SNP [dm6]	T	G	1.836e^-72	7.575e^-69	UPSTREAM CR42746 INTRON bun	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_D mE1_TFBS_Trl
2L	12543925	2L_12543925_SNP [dm3] 2L_12543925_SNP [dm6]	G	A	1.836e^-72	7.575e^-69	INTRON bun & 1 other	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_Trl
2L	12604969	2L_12604969_SNP [dm3] 2L_12604969_SNP [dm6]	G	A	1.836e^-72	7.575e^-69	INTRON nub	TF binding site BDTNP1_TFBS_da mE1_TFBS_HSA
2L	1300565	2L_1300565_SNP [dm3] 2L_1300565_SNP [dm6]	G	C	1.836e^-72	7.575e^-69	INTERGENIC
2L	13112191	2L_13112191_SNP [dm3] 2L_13112191_SNP [dm6]	C	T	1.836e^-72	7.575e^-69	INTERGENIC
2L	13623072	2L_13623072_SNP [dm3] 2L_13623072_SNP [dm6]	G	A	1.836e^-72	7.575e^-69	INTRON kuz	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_sens
2L	13642871	2L_13642871_SNP [dm3] 2L_13642871_SNP [dm6]	G	A	1.836e^-72	7.575e^-69	UPSTREAM ics EXON CR44726	TF binding site mE1_TFBS_bab1
2L	14169586	2L_14169586_SNP [dm3] 2L_14169586_SNP [dm6]	G	A	1.836e^-72	7.575e^-69	INTRON CG43333
2L	14169740	2L_14169740_SNP [dm3] 2L_14169740_SNP [dm6]	C	A	1.836e^-72	7.575e^-69	INTRON CG43333
2L	15421606	2L_15421606_SNP [dm3] 2L_15421606_SNP [dm6]	T	G	1.836e^-72	7.575e^-69	INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
2L	15435053	2L_15435053_SNP [dm3] 2L_15435053_SNP [dm6]	C	A	1.836e^-72	7.575e^-69	UTR_3_PRIME CG4161 UPSTREAM CR44861
2L	15435054	2L_15435054_SNP [dm3] 2L_15435054_SNP [dm6]	G	A	1.836e^-72	7.575e^-69	UTR_3_PRIME CG4161 UPSTREAM CR44861
2L	16932867	2L_16932867_SNP [dm3] 2L_16932867_SNP [dm6]	G	A	1.836e^-72	7.575e^-69	INTERGENIC
2L	16932878	2L_16932878_SNP [dm3] 2L_16932878_SNP [dm6]	T	A	1.836e^-72	7.575e^-69	INTERGENIC
2L	16932911	2L_16932911_SNP [dm3] 2L_16932911_SNP [dm6]	T	G	1.836e^-72	7.575e^-69	INTERGENIC
2L	16932913	2L_16932913_SNP [dm3] 2L_16932913_SNP [dm6]	G	A	1.836e^-72	7.575e^-69	INTERGENIC
2L	16932921	2L_16932921_SNP [dm3] 2L_16932921_SNP [dm6]	A	T	1.836e^-72	7.575e^-69	INTERGENIC
2L	16932924	2L_16932924_SNP [dm3] 2L_16932924_SNP [dm6]	A	T	1.836e^-72	7.575e^-69	INTERGENIC
2L	16932931	2L_16932931_SNP [dm3] 2L_16932931_SNP [dm6]	T	C	1.836e^-72	7.575e^-69	INTERGENIC
2L	16932965	2L_16932965_SNP [dm3] 2L_16932965_SNP [dm6]	A	G	1.836e^-72	7.575e^-69	INTERGENIC
2L	17267560	2L_17267560_SNP [dm3] 2L_17267560_SNP [dm6]	C	T	1.836e^-72	7.575e^-69	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_cad
2L	17334106	2L_17334106_SNP [dm3] 2L_17334106_SNP [dm6]	T	C	1.836e^-72	7.575e^-69	INTERGENIC
2L	17580855	2L_17580855_SNP [dm3] 2L_17580855_SNP [dm6]	T	A	1.836e^-72	7.575e^-69	DOWNSTREAM CR45698 INTERGENIC
2L	17588412	2L_17588412_SNP [dm3] 2L_17588412_SNP [dm6]	G	A	1.836e^-72	7.575e^-69	UPSTREAM Oli DOWNSTREAM CR44411 EXON CR44411	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA
2L	17590818	2L_17590818_SNP [dm3] 2L_17590818_SNP [dm6]	T	A	1.836e^-72	7.575e^-69	SPLICE_SITE_REGION Oli DOWNSTREAM CG6870 INTRON Oli
2L	17591005	2L_17591005_SNP [dm3] 2L_17591005_SNP [dm6]	G	A	1.836e^-72	7.575e^-69	UTR_3_PRIME Oli DOWNSTREAM CG6870
2L	17591012	2L_17591012_SNP [dm3] 2L_17591012_SNP [dm6]	C	A	1.836e^-72	7.575e^-69	UTR_3_PRIME Oli DOWNSTREAM CG6870
2L	17591021	2L_17591021_SNP [dm3] 2L_17591021_SNP [dm6]	A	G	1.836e^-72	7.575e^-69	UTR_3_PRIME Oli DOWNSTREAM CG6870
2L	17591037	2L_17591037_SNP [dm3] 2L_17591037_SNP [dm6]	T	A	1.836e^-72	7.575e^-69	UTR_3_PRIME Oli DOWNSTREAM CG6870
2L	17611236	2L_17611236_SNP [dm3] 2L_17611236_SNP [dm6]	T	A	1.836e^-72	7.575e^-69	INTERGENIC	TF binding site BDTNP1_TFBS_sna
2L	17632370	2L_17632370_SNP [dm3] 2L_17632370_SNP [dm6]	A	G	1.836e^-72	7.575e^-69	INTERGENIC
2L	17882328	2L_17882328_SNP [dm3] 2L_17882328_SNP [dm6]	T	C	1.836e^-72	7.575e^-69	INTERGENIC
2L	18628692	2L_18628692_SNP [dm3] 2L_18628692_SNP [dm6]	C	T	1.836e^-72	7.575e^-69	INTRON MESR3	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA mE1_TFBS_Trl
2L	20039647	2L_20039647_SNP [dm3] 2L_20039647_SNP [dm6]	C	T	1.836e^-72	7.575e^-69	INTRON sNPF
2L	20070339	2L_20070339_SNP [dm3] 2L_20070339_SNP [dm6]	T	C	1.836e^-72	7.575e^-69	NON_SYNONYMOUS_CODING CG10730 INTRON bwa	TF binding site mE1_TFBS_cad mE1_TFBS_HSA
2L	20070466	2L_20070466_SNP [dm3] 2L_20070466_SNP [dm6]	T	C	1.836e^-72	7.575e^-69	SYNONYMOUS_CODING CG10730 INTRON bwa	TF binding site mE1_TFBS_cad
2L	20147612	2L_20147612_SNP [dm3] 2L_20147612_SNP [dm6]	T	C	1.836e^-72	7.575e^-69	INTERGENIC
2L	20415763	2L_20415763_SNP [dm3] 2L_20415763_SNP [dm6]	T	G	1.836e^-72	7.575e^-69	SYNONYMOUS_CODING CG10949 UPSTREAM CG10947	TF binding site mE1_TFBS_sens
2L	20574980	2L_20574980_SNP [dm3] 2L_20574980_SNP [dm6]	C	G	1.836e^-72	7.575e^-69	INTRON CR45347
2L	2797132	2L_2797132_SNP [dm3] 2L_2797132_SNP [dm6]	A	C	1.836e^-72	7.575e^-69	UPSTREAM CR43821 INTRON Syt1	TF binding site mE1_TFBS_Trl
2L	3876505	2L_3876505_SNP [dm3] 2L_3876505_SNP [dm6]	T	C	1.836e^-72	7.575e^-69	INTRON capu
2L	5495429	2L_5495429_SNP [dm3] 2L_5495429_SNP [dm6]	G	T	1.836e^-72	7.575e^-69	INTERGENIC
2L	5506199	2L_5506199_SNP [dm3] 2L_5506199_SNP [dm6]	G	A	1.836e^-72	7.575e^-69	INTERGENIC
2L	5630314	2L_5630314_SNP [dm3] 2L_5630314_SNP [dm6]	T	A	1.836e^-72	7.575e^-69	INTRON CG31646	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi mE1_TFBS_chinmo
2L	6317451	2L_6317451_SNP [dm3] 2L_6317451_SNP [dm6]	A	G	1.836e^-72	7.575e^-69	INTRON Ddr
2L	7023589	2L_7023589_SNP [dm3] 2L_7023589_SNP [dm6]	G	A	1.836e^-72	7.575e^-69	SYNONYMOUS_CODING ade3	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
2L	7354259	2L_7354259_SNP [dm3] 2L_7354259_SNP [dm6]	T	A	1.836e^-72	7.575e^-69	INTERGENIC
2L	7385584	2L_7385584_SNP [dm3] 2L_7385584_SNP [dm6]	C	T	1.836e^-72	7.575e^-69	SYNONYMOUS_CODING CG5149
2L	7388759	2L_7388759_SNP [dm3] 2L_7388759_SNP [dm6]	A	C	1.836e^-72	7.575e^-69	SYNONYMOUS_CODING gudu UPSTREAM CG5149	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi
2L	7388951	2L_7388951_SNP [dm3] 2L_7388951_SNP [dm6]	G	A	1.836e^-72	7.575e^-69	SYNONYMOUS_CODING gudu UPSTREAM CG5149
2L	7389018	2L_7389018_SNP [dm3] 2L_7389018_SNP [dm6]	T	C	1.836e^-72	7.575e^-69	SYNONYMOUS_CODING gudu UPSTREAM CG5149
2L	7389023	2L_7389023_SNP [dm3] 2L_7389023_SNP [dm6]	T	C	1.836e^-72	7.575e^-69	SYNONYMOUS_CODING gudu UPSTREAM CG5149
2L	7389026	2L_7389026_SNP [dm3] 2L_7389026_SNP [dm6]	C	T	1.836e^-72	7.575e^-69	SYNONYMOUS_CODING gudu UPSTREAM CG5149
2L	7389070	2L_7389070_SNP [dm3] 2L_7389070_SNP [dm6]	A	C	1.836e^-72	7.575e^-69	NON_SYNONYMOUS_CODING gudu UPSTREAM CG5149
2L	7389426	2L_7389426_SNP [dm3] 2L_7389426_SNP [dm6]	C	G	1.836e^-72	7.575e^-69	SYNONYMOUS_CODING gudu
2L	7389624	2L_7389624_SNP [dm3] 2L_7389624_SNP [dm6]	C	G	1.836e^-72	7.575e^-69	SYNONYMOUS_CODING gudu
2L	7389681	2L_7389681_SNP [dm3] 2L_7389681_SNP [dm6]	G	A	1.836e^-72	7.575e^-69	SYNONYMOUS_CODING gudu
2L	7389762	2L_7389762_SNP [dm3] 2L_7389762_SNP [dm6]	A	G	1.836e^-72	7.575e^-69	SYNONYMOUS_CODING gudu
2L	7389792	2L_7389792_SNP [dm3] 2L_7389792_SNP [dm6]	T	C	1.836e^-72	7.575e^-69	SYNONYMOUS_CODING gudu
2L	7389822	2L_7389822_SNP [dm3] 2L_7389822_SNP [dm6]	C	T	1.836e^-72	7.575e^-69	SYNONYMOUS_CODING gudu
2L	7509926	2L_7509926_SNP [dm3] 2L_7509926_SNP [dm6]	C	G	1.836e^-72	7.575e^-69	INTRON RapGAP1
2L	7916501	2L_7916501_SNP [dm3] 2L_7916501_SNP [dm6]	T	C	1.836e^-72	7.575e^-69	INTRON Snoo
2L	8207340	2L_8207340_SNP [dm3] 2L_8207340_SNP [dm6]	G	A	1.836e^-72	7.575e^-69	SYNONYMOUS_CODING CG8419	TF binding site mE1_TFBS_sens
2L	8207388	2L_8207388_SNP [dm3] 2L_8207388_SNP [dm6]	T	A	1.836e^-72	7.575e^-69	SYNONYMOUS_CODING CG8419	TF binding site mE1_TFBS_sens
2L	8207421	2L_8207421_SNP [dm3] 2L_8207421_SNP [dm6]	C	G	1.836e^-72	7.575e^-69	SYNONYMOUS_CODING CG8419	TF binding site mE1_TFBS_sens
2L	8207489	2L_8207489_SNP [dm3] 2L_8207489_SNP [dm6]	A	T	1.836e^-72	7.575e^-69	INTRON CG8419
2L	8207494	2L_8207494_SNP [dm3] 2L_8207494_SNP [dm6]	T	C	1.836e^-72	7.575e^-69	INTRON CG8419
2L	8207498	2L_8207498_SNP [dm3] 2L_8207498_SNP [dm6]	G	A	1.836e^-72	7.575e^-69	INTRON CG8419
2L	8207508	2L_8207508_SNP [dm3] 2L_8207508_SNP [dm6]	A	C	1.836e^-72	7.575e^-69	INTRON CG8419
2L	8222248	2L_8222248_SNP [dm3] 2L_8222248_SNP [dm6]	G	A	1.836e^-72	7.575e^-69	SYNONYMOUS_CODING Pvr
2L	8232472	2L_8232472_SNP [dm3] 2L_8232472_SNP [dm6]	G	A	1.836e^-72	7.575e^-69	INTRON Pvr
2L	8609144	2L_8609144_SNP [dm3] 2L_8609144_SNP [dm6]	G	T	1.836e^-72	7.575e^-69	INTRON Sema-1a
2L	9272718	2L_9272718_SNP [dm3] 2L_9272718_SNP [dm6]	T	C	1.836e^-72	7.575e^-69	INTRON Ggamma30A	TF binding site mE1_TFBS_Trl

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By genomic position
Variant impact
Gene name

NWMRC_Block phenotype

Phenotype distribution and association to known covariates

QQplot

Manhattan plot

GWAS results