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=6.215e^-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_P	0.07674

Kruskal-Wallis test
No significant result.

PNG PDF

QQplot

PNG PDF

Manhattan plot

GWAS results

236 significant hits at p-value < 0.001.

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
2R	9626545	2R_9626545_SNP [dm3] 2R_13739040_SNP [dm6]	T	G	2.943e^-4	0.893	INTRON fas
3L	13222507	3L_13222507_SNP [dm3] 3L_13229407_SNP [dm6]	T	C	2.943e^-4	0.893	INTRON caps	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_z
X	18122988	X_18122988_SNP [dm3] X_18228955_SNP [dm6]	G	T	2.943e^-4	0.893	UPSTREAM CR45622 INTERGENIC
X	18129270	X_18129270_SNP [dm3] X_18235237_SNP [dm6]	T	C	2.943e^-4	0.893	INTERGENIC
X	6601533	X_6601533_SNP [dm3] X_6707500_SNP [dm6]	A	T	2.943e^-4	0.893	INTRON CG14441	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA
2L	10914352	2L_10914352_SNP [dm3] 2L_10914352_SNP [dm6]	G	A	3.107e^-4	0.893	INTERGENIC
3L	6735735	3L_6735735_SNP [dm3] 3L_6742635_SNP [dm6]	G	T	3.107e^-4	0.893	INTRON dikar	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_cad mE1_TFBS_HSA
X	5197510	X_5197510_SNP [dm3] X_5303477_SNP [dm6]	G	A	3.561e^-4	0.893	SYNONYMOUS_CODING CG3323 DOWNSTREAM CG42749 INTRON CG42749
2R	9476357	2R_9476357_SNP [dm3] 2R_13588852_SNP [dm6]	G	T	3.877e^-4	0.893	INTRON CG6191 & 1 other
2R	9476380	2R_9476380_SNP [dm3] 2R_13588875_SNP [dm6]	T	C	3.877e^-4	0.893	INTRON CG6191 & 1 other
3L	17631270	3L_17631270_SNP [dm3] 3L_17638170_SNP [dm6]	G	A	3.877e^-4	0.893	UTR_3_PRIME Pep DOWNSTREAM CG7497	TF binding site mE1_TFBS_cad
2L	10926966	2L_10926966_SNP [dm3] 2L_10926966_SNP [dm6]	T	A	4.029e^-4	0.893	INTRON dpr2
2L	10926968	2L_10926968_SNP [dm3] 2L_10926968_SNP [dm6]	A	T	4.029e^-4	0.893	INTRON dpr2
2L	10926973	2L_10926973_SNP [dm3] 2L_10926973_SNP [dm6]	T	G	4.029e^-4	0.893	INTRON dpr2
2L	12409752	2L_12409752_SNP [dm3] 2L_12409752_SNP [dm6]	G	C	4.029e^-4	0.893	INTRON vir-1
2L	18571217	2L_18571217_SNP [dm3] 2L_18571217_SNP [dm6]	A	T	4.029e^-4	0.893	INTRON Pde11
2L	20264867	2L_20264867_SNP [dm3] 2L_20264867_SNP [dm6]	G	T	4.029e^-4	0.893	UPSTREAM CG17570 INTERGENIC	TF binding site mE1_TFBS_HSA
2L	20264870	2L_20264870_SNP [dm3] 2L_20264870_SNP [dm6]	G	A	4.029e^-4	0.893	UPSTREAM CG17570 INTERGENIC	TF binding site mE1_TFBS_HSA
2L	20385993	2L_20385993_SNP [dm3] 2L_20385993_SNP [dm6]	C	G	4.029e^-4	0.893	UTR_3_PRIME CG10947 DOWNSTREAM CG10947	TF binding site mE1_TFBS_cad
2L	7100231	2L_7100231_SNP [dm3] 2L_7100231_SNP [dm6]	T	G	4.029e^-4	0.893	INTRON Pvf3	TF binding site BDTNP1_TFBS_sna mE1_TFBS_HSA
2L	7100238	2L_7100238_INS [dm3] 2L_7100238_INS [dm6]	G	GG	4.029e^-4	0.893	INTRON Pvf3	TF binding site BDTNP1_TFBS_sna mE1_TFBS_HSA
2R	17027687	2R_17027687_SNP [dm3] 2R_21140182_SNP [dm6]	A	G	4.029e^-4	0.893	UPSTREAM Magi INTRON Magi	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl mE1_TFBS_HSA
2R	8411479	2R_8411479_SNP [dm3] 2R_12523974_SNP [dm6]	T	C	4.029e^-4	0.893	INTERGENIC
2R	8411480	2R_8411480_SNP [dm3] 2R_12523975_SNP [dm6]	C	G	4.029e^-4	0.893	INTERGENIC
2R	8501870	2R_8501870_SNP [dm3] 2R_12614365_SNP [dm6]	C	G	4.029e^-4	0.893	INTRON Galphaq & 1 other
2R	8736316	2R_8736316_SNP [dm3] 2R_12848811_SNP [dm6]	T	A	4.029e^-4	0.893	UPSTREAM antr DOWNSTREAM CG17574 INTRON CG30486 EXON CR45468
2R	8736320	2R_8736320_SNP [dm3] 2R_12848815_SNP [dm6]	G	A	4.029e^-4	0.893	UPSTREAM antr DOWNSTREAM CG17574 INTRON CG30486 EXON CR45468
2R	8736325	2R_8736325_SNP [dm3] 2R_12848820_SNP [dm6]	A	C	4.029e^-4	0.893	UPSTREAM antr DOWNSTREAM CG17574 INTRON CG30486 EXON CR45468
2R	8736358	2R_8736358_SNP [dm3] 2R_12848853_SNP [dm6]	C	T	4.029e^-4	0.893	NON_SYNONYMOUS_CODING CG30486 UTR_5_PRIME CG30486 UPSTREAM antr DOWNSTREAM CG17574 EXON CR45468
3L	10741645	3L_10741645_SNP [dm3] 3L_10748545_SNP [dm6]	T	C	4.029e^-4	0.893	INTERGENIC
3L	10741695	3L_10741695_SNP [dm3] 3L_10748595_SNP [dm6]	G	A	4.029e^-4	0.893	INTERGENIC
3L	17631303	3L_17631303_SNP [dm3] 3L_17638203_SNP [dm6]	T	G	4.029e^-4	0.893	UTR_3_PRIME Pep DOWNSTREAM CG7497	TF binding site mE1_TFBS_cad
3L	2313691	3L_2313691_SNP [dm3] 3L_2313691_SNP [dm6]	G	A	4.029e^-4	0.893	INTERGENIC
3L	2313717	3L_2313717_SNP [dm3] 3L_2313717_SNP [dm6]	C	T	4.029e^-4	0.893	INTERGENIC
3L	2482976	3L_2482976_SNP [dm3] 3L_2482976_SNP [dm6]	T	G	4.029e^-4	0.893	UPSTREAM CG45186 INTRON CG45186	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_shn BDTNP1_TFBS_slp1 BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
3L	5718868	3L_5718868_SNP [dm3] 3L_5725768_SNP [dm6]	A	T	4.029e^-4	0.893	INTRON sif
X	18169425	X_18169425_SNP [dm3] X_18275392_SNP [dm6]	C	T	4.029e^-4	0.893	INTERGENIC	TF binding site mE1_TFBS_chinmo
X	19935527	X_19935527_SNP [dm3] X_20041494_SNP [dm6]	T	G	4.029e^-4	0.893	INTRON Dop2R
X	19935548	X_19935548_SNP [dm3] X_20041515_SNP [dm6]	G	A	4.029e^-4	0.893	INTRON Dop2R
X	19935579	X_19935579_SNP [dm3] X_20041546_SNP [dm6]	C	T	4.029e^-4	0.893	INTRON Dop2R
X	21329547	X_21329547_SNP [dm3] X_21458520_SNP [dm6]	A	T	4.029e^-4	0.893	UPSTREAM CG42343 INTERGENIC
X	21335717	X_21335717_SNP [dm3] X_21464690_SNP [dm6]	A	T	4.029e^-4	0.893	INTERGENIC
X	5706358	X_5706358_SNP [dm3] X_5812325_SNP [dm6]	A	G	4.029e^-4	0.893	SYNONYMOUS_CODING CG44329
X	5706376	X_5706376_SNP [dm3] X_5812343_SNP [dm6]	G	C	4.029e^-4	0.893	SYNONYMOUS_CODING CG44329
3L	2035099	3L_2035099_SNP [dm3] 3L_2035099_SNP [dm6]	T	A	4.405e^-4	0.893	INTERGENIC
3L	5719440	3L_5719440_SNP [dm3] 3L_5726340_SNP [dm6]	G	A	4.405e^-4	0.893	INTRON sif	TF binding site BDTNP1_TFBS_twi mE1_TFBS_Trl
3L	9870418	3L_9870418_SNP [dm3] 3L_9877318_SNP [dm6]	A	G	4.598e^-4	0.893	DOWNSTREAM CR45406 INTERGENIC
3L	9870489	3L_9870489_SNP [dm3] 3L_9877389_SNP [dm6]	G	C	4.598e^-4	0.893	DOWNSTREAM CR45406 INTERGENIC
3L	2155820	3L_2155820_INS [dm3] 3L_2155820_INS [dm6]	A	AGGA	5.156e^-4	0.893	INTRON CG15822
X	18169509	X_18169509_SNP [dm3] X_18275476_SNP [dm6]	A	T	5.156e^-4	0.893	INTERGENIC	TF binding site mE1_TFBS_chinmo
2L	11617896	2L_11617896_SNP [dm3] 2L_11617896_SNP [dm6]	G	T	5.248e^-4	0.893	INTRON kek2
2R	8736687	2R_8736687_SNP [dm3] 2R_12849182_SNP [dm6]	A	T	5.248e^-4	0.893	UPSTREAM CG30486 DOWNSTREAM CG17574 EXON CR45468
2R	9466257	2R_9466257_SNP [dm3] 2R_13578752_SNP [dm6]	A	G	5.248e^-4	0.893	EXON CR44366	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
3R	21856291	3R_21856291_SNP [dm3] 3R_26030569_SNP [dm6]	T	C	5.248e^-4	0.893	UPSTREAM E_spl_m5-HLH INTERGENIC	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Mad BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_tll BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_sens
2R	12677075	2R_12677075_SNP [dm3] 2R_16789570_SNP [dm6]	A	G	5.438e^-4	0.893	SYNONYMOUS_CODING CG5522
3L	10741808	3L_10741808_SNP [dm3] 3L_10748708_SNP [dm6]	A	T	5.523e^-4	0.893	INTERGENIC
2L	11942092	2L_11942092_SNP [dm3] 2L_11942092_SNP [dm6]	G	A	5.549e^-4	0.893	INTERGENIC	regulatory region REDfly_CRMs
2L	13598746	2L_13598746_SNP [dm3] 2L_13598746_SNP [dm6]	T	C	5.549e^-4	0.893	INTRON kuz
2L	14428833	2L_14428833_SNP [dm3] 2L_14428833_SNP [dm6]	A	C	5.549e^-4	0.893	EXON CR44732	TF binding site mE1_TFBS_cnc mE1_TFBS_D mE1_TFBS_HSA mE1_TFBS_sens
2L	15079196	2L_15079196_SNP [dm3] 2L_15079196_SNP [dm6]	T	G	5.549e^-4	0.893	INTRON CG15270	TF binding site BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_HSA
2L	15079208	2L_15079208_SNP [dm3] 2L_15079208_SNP [dm6]	C	T	5.549e^-4	0.893	INTRON CG15270	TF binding site BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_HSA
2L	15508400	2L_15508400_SNP [dm3] 2L_15508400_SNP [dm6]	C	T	5.549e^-4	0.893	INTERGENIC
2L	17942449	2L_17942449_SNP [dm3] 2L_17942449_SNP [dm6]	A	C	5.549e^-4	0.893	INTERGENIC
2L	17942499	2L_17942499_SNP [dm3] 2L_17942499_SNP [dm6]	C	G	5.549e^-4	0.893	INTERGENIC
2L	17942546	2L_17942546_SNP [dm3] 2L_17942546_SNP [dm6]	T	A	5.549e^-4	0.893	INTERGENIC
2L	17948724	2L_17948724_SNP [dm3] 2L_17948724_SNP [dm6]	C	T	5.549e^-4	0.893	EXON CR44398
2L	21897952	2L_21897952_SNP [dm3] 2L_21897952_SNP [dm6]	T	C	5.549e^-4	0.893	NON_SYNONYMOUS_CODING CG11629	TF binding site mE1_TFBS_cad mE1_TFBS_sens
2L	22096002	2L_22096002_SNP [dm3] 2L_22096002_SNP [dm6]	T	C	5.549e^-4	0.893	INTERGENIC
2R	16241021	2R_16241021_SNP [dm3] 2R_20353516_SNP [dm6]	T	A	5.549e^-4	0.893	DOWNSTREAM CG11192 INTERGENIC
2R	2963586	2R_2963586_SNP [dm3] 2R_7076081_SNP [dm6]	G	A	5.549e^-4	0.893	INTERGENIC
2R	6496924	2R_6496924_SNP [dm3] 2R_10609419_SNP [dm6]	A	T	5.549e^-4	0.893	INTRON psq
2R	7058637	2R_7058637_SNP [dm3] 2R_11171132_SNP [dm6]	T	G	5.549e^-4	0.893	INTRON shn & 1 other
2R	8735866	2R_8735866_SNP [dm3] 2R_12848361_SNP [dm6]	T	C	5.549e^-4	0.893	UPSTREAM antr DOWNSTREAM CG17574 INTRON CG30486 EXON CR45468
2R	8736445	2R_8736445_SNP [dm3] 2R_12848940_SNP [dm6]	A	G	5.549e^-4	0.893	NON_SYNONYMOUS_CODING CG30486 UTR_5_PRIME CG30486 UPSTREAM antr DOWNSTREAM CG17574 EXON CR45468
2R	8736456	2R_8736456_SNP [dm3] 2R_12848951_SNP [dm6]	A	T	5.549e^-4	0.893	SYNONYMOUS_CODING CG30486 UTR_5_PRIME CG30486 UPSTREAM antr DOWNSTREAM CG17574 EXON CR45468
2R	8736715	2R_8736715_SNP [dm3] 2R_12849210_SNP [dm6]	T	A	5.549e^-4	0.893	UPSTREAM CG30486 DOWNSTREAM CG17574 EXON CR45468
2R	9476269	2R_9476269_SNP [dm3] 2R_13588764_SNP [dm6]	G	A	5.549e^-4	0.893	INTRON CG6191 & 1 other
2R	9476291	2R_9476291_SNP [dm3] 2R_13588786_SNP [dm6]	T	C	5.549e^-4	0.893	INTRON CG6191 & 1 other
3L	12524912	3L_12524912_INS [dm3] 3L_12531812_INS [dm6]	A	AC	5.549e^-4	0.893	INTRON Tsf2	TF binding site mE1_TFBS_sens
3L	12524915	3L_12524915_SNP [dm3] 3L_12531815_SNP [dm6]	G	A	5.549e^-4	0.893	INTRON Tsf2	TF binding site mE1_TFBS_sens
3L	12524924	3L_12524924_SNP [dm3] 3L_12531824_SNP [dm6]	A	G	5.549e^-4	0.893	INTRON Tsf2	TF binding site mE1_TFBS_sens
3L	12524931	3L_12524931_INS [dm3] 3L_12531831_INS [dm6]	A	AA	5.549e^-4	0.893	INTRON Tsf2	TF binding site mE1_TFBS_sens
3L	12524938	3L_12524938_SNP [dm3] 3L_12531838_SNP [dm6]	C	G	5.549e^-4	0.893	INTRON Tsf2	TF binding site mE1_TFBS_sens
3L	12666117	3L_12666117_SNP [dm3] 3L_12673017_SNP [dm6]	A	G	5.549e^-4	0.893	INTERGENIC	TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_HSA
3L	12666198	3L_12666198_SNP [dm3] 3L_12673098_SNP [dm6]	A	G	5.549e^-4	0.893	INTERGENIC	TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_HSA
3L	12666276	3L_12666276_SNP [dm3] 3L_12673176_SNP [dm6]	T	G	5.549e^-4	0.893	INTERGENIC	TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_HSA
3L	12666282	3L_12666282_SNP [dm3] 3L_12673182_SNP [dm6]	T	C	5.549e^-4	0.893	INTERGENIC	TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_HSA
3L	12666284	3L_12666284_SNP [dm3] 3L_12673184_SNP [dm6]	G	A	5.549e^-4	0.893	INTERGENIC	TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_HSA
3L	8507392	3L_8507392_SNP [dm3] 3L_8514292_SNP [dm6]	T	C	5.549e^-4	0.893	SYNONYMOUS_CODING CG6683 INTRON CG6765	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
3L	8508380	3L_8508380_SNP [dm3] 3L_8515280_SNP [dm6]	A	G	5.549e^-4	0.893	UPSTREAM CG6683 INTRON CG6765	TF binding site BDTNP1_TFBS_Med mE1_TFBS_cad
3L	8508384	3L_8508384_SNP [dm3] 3L_8515284_SNP [dm6]	G	A	5.549e^-4	0.893	UPSTREAM CG6683 INTRON CG6765	TF binding site BDTNP1_TFBS_Med mE1_TFBS_cad
3L	8508387	3L_8508387_SNP [dm3] 3L_8515287_SNP [dm6]	T	C	5.549e^-4	0.893	UPSTREAM CG6683 INTRON CG6765	TF binding site BDTNP1_TFBS_Med mE1_TFBS_cad
3L	8508395	3L_8508395_SNP [dm3] 3L_8515295_SNP [dm6]	C	T	5.549e^-4	0.893	UPSTREAM CG6683 INTRON CG6765	TF binding site BDTNP1_TFBS_Med mE1_TFBS_cad mE1_TFBS_chinmo
3L	8508400	3L_8508400_SNP [dm3] 3L_8515300_SNP [dm6]	T	C	5.549e^-4	0.893	UPSTREAM CG6683 INTRON CG6765	TF binding site BDTNP1_TFBS_Med mE1_TFBS_cad mE1_TFBS_chinmo
3R	23000598	3R_23000598_SNP [dm3] 3R_27174876_SNP [dm6]	G	A	5.549e^-4	0.893	SYNONYMOUS_CODING Ser	TF binding site mE1_TFBS_cad
3R	23000604	3R_23000604_SNP [dm3] 3R_27174882_SNP [dm6]	A	G	5.549e^-4	0.893	SYNONYMOUS_CODING Ser	TF binding site mE1_TFBS_cad
3R	23000628	3R_23000628_SNP [dm3] 3R_27174906_SNP [dm6]	A	G	5.549e^-4	0.893	SYNONYMOUS_CODING Ser	TF binding site mE1_TFBS_cad
X	10929526	X_10929526_SNP [dm3] X_11035493_SNP [dm6]	T	C	5.549e^-4	0.893	DOWNSTREAM CG42339 INTRON CG42339
X	11830572	X_11830572_SNP [dm3] X_11936539_SNP [dm6]	A	C	5.549e^-4	0.893	INTRON cac	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_HSA
X	11830621	X_11830621_SNP [dm3] X_11936588_SNP [dm6]	T	C	5.549e^-4	0.893	INTRON cac	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_HSA

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By genomic position
Variant impact
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Deaths phenotype

Phenotype distribution and association to known covariates

QQplot

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GWAS results