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=3.727e^-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

Covariate	p-value	Significance
In_3R_K	0.02648

Kruskal-Wallis test

Covariate	χ²	p-value	Significance
wolba	3.1454	0.0761
In_3R_K	4.9867	0.0826

PNG PDF

QQplot

PNG PDF

Manhattan plot

GWAS results

2503 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	12866230	2L_12866230_SNP [dm3] 2L_12866230_SNP [dm6]	C	T	1.704e^-7	0.17	INTERGENIC
3R	24632310	3R_24632310_SNP [dm3] 3R_28806588_SNP [dm6]	T	G	1.987e^-7	0.17	UPSTREAM CheB98a INTERGENIC
2L	11597543	2L_11597543_SNP [dm3] 2L_11597543_SNP [dm6]	C	G	4.107e^-7	0.17	INTRON kek2	TF binding site mE1_TFBS_inv
2L	11597544	2L_11597544_SNP [dm3] 2L_11597544_SNP [dm6]	A	C	4.724e^-7	0.17	INTRON kek2	TF binding site mE1_TFBS_inv
2L	12866005	2L_12866005_DEL [dm3] 2L_12866005_DEL [dm6]	CT	C	5.206e^-7	0.17	INTERGENIC
2L	12865301	2L_12865301_SNP [dm3] 2L_12865301_SNP [dm6]	C	T	5.533e^-7	0.17	INTERGENIC
2L	12875748	2L_12875748_SNP [dm3] 2L_12875748_SNP [dm6]	T	G	6.342e^-7	0.17	INTERGENIC
2L	12866368	2L_12866368_SNP [dm3] 2L_12866368_SNP [dm6]	G	T	8.504e^-7	0.199	INTERGENIC
2L	12875632	2L_12875632_DEL [dm3] 2L_12875632_DEL [dm6]	GA	G	1.441e^-6	0.287	INTERGENIC
2R	14359261	2R_14359261_SNP [dm3] 2R_18471756_SNP [dm6]	T	A	1.898e^-6	0.287	INTRON CG30116
3R	15181495	3R_15181495_SNP [dm3] 3R_19355773_SNP [dm6]	A	T	1.977e^-6	0.287	DOWNSTREAM CG43203 INTERGENIC	TF binding site mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_Kr
3R	11587959	3R_11587959_SNP [dm3] 3R_15762237_SNP [dm6]	G	T	1.983e^-6	0.287	UPSTREAM CG12784 INTERGENIC
2L	11597564	2L_11597564_SNP [dm3] 2L_11597564_SNP [dm6]	G	A	1.988e^-6	0.287	INTRON kek2	TF binding site mE1_TFBS_inv
2L	12875210	2L_12875210_DEL [dm3] 2L_12875210_DEL [dm6]	TACCCCAA	T	2.372e^-6	0.315	INTERGENIC
2L	12873796	2L_12873796_DEL [dm3] 2L_12873796_DEL [dm6]	CACTC	C	2.516e^-6	0.315	INTERGENIC
2L	8784561	2L_8784561_SNP [dm3] 2L_8784561_SNP [dm6]	T	C	3.029e^-6	0.355	INTERGENIC	TF binding site mE1_TFBS_sbb
3R	16561852	3R_16561852_SNP [dm3] 3R_20736130_SNP [dm6]	C	T	3.252e^-6	0.359	SYNONYMOUS_CODING cdc2c DOWNSTREAM CR42786 & 1 other	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_ttk
2L	9561228	2L_9561228_DEL [dm3] 2L_9561228_DEL [dm6]	TT	T	3.597e^-6	0.375	UPSTREAM jp INTRON jp
2L	13044388	2L_13044388_SNP [dm3] 2L_13044388_SNP [dm6]	G	A	4.474e^-6	0.377	INTRON CG9932
2L	12834274	2L_12834274_SNP [dm3] 2L_12834274_SNP [dm6]	C	A	5.136e^-6	0.377	INTERGENIC
2R	4646609	2R_4646609_SNP [dm3] 2R_8759104_SNP [dm6]	G	A	5.354e^-6	0.377	INTRON CG8740	TF binding site mE1_TFBS_bab1 mE1_TFBS_cad
3R	21402355	3R_21402355_SNP [dm3] 3R_25576633_SNP [dm6]	C	T	5.508e^-6	0.377	INTRON msi
2L	21885277	2L_21885277_SNP [dm3] 2L_21885277_SNP [dm6]	A	T	5.815e^-6	0.377	INTERGENIC
2L	11597621	2L_11597621_SNP [dm3] 2L_11597621_SNP [dm6]	A	G	5.898e^-6	0.377	INTRON kek2	TF binding site mE1_TFBS_inv
2L	8784567	2L_8784567_SNP [dm3] 2L_8784567_SNP [dm6]	G	T	5.983e^-6	0.377	INTERGENIC	TF binding site mE1_TFBS_sbb
2L	12226685	2L_12226685_SNP [dm3] 2L_12226685_SNP [dm6]	T	G	6.907e^-6	0.377	INTRON aret
3R	20433750	3R_20433750_DEL [dm3] 3R_24608028_DEL [dm6]	TGT	T	7.116e^-6	0.377	INTRON mld
2R	19935425	2R_19935425_SNP [dm3] 2R_24047902_SNP [dm6]	T	A	7.127e^-6	0.377	UTR_5_PRIME sei INTRON gammaSnap1	TF binding site BDTNP1_TFBS_dl mE1_TFBS_sens
3R	16561903	3R_16561903_SNP [dm3] 3R_20736181_SNP [dm6]	A	G	7.210e^-6	0.377	SYNONYMOUS_CODING cdc2c DOWNSTREAM CR42786 & 1 other	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_ttk
2R	18564634	2R_18564634_SNP [dm3] 2R_22677129_SNP [dm6]	G	C	7.433e^-6	0.377	INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
3L	2047570	3L_2047570_SNP [dm3] 3L_2047570_SNP [dm6]	G	T	7.494e^-6	0.377	SYNONYMOUS_CODING sls
3R	16561984	3R_16561984_SNP [dm3] 3R_20736262_SNP [dm6]	C	T	7.592e^-6	0.377	SYNONYMOUS_CODING cdc2c DOWNSTREAM CR42786 & 1 other	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_ttk
3R	9880849	3R_9880849_SNP [dm3] 3R_14055127_SNP [dm6]	C	T	7.708e^-6	0.377	INTERGENIC
2L	11597810	2L_11597810_SNP [dm3] 2L_11597810_SNP [dm6]	A	G	7.748e^-6	0.377	INTRON kek2
2L	8783408	2L_8783408_SNP [dm3] 2L_8783408_SNP [dm6]	C	A	7.981e^-6	0.377	UPSTREAM CG42710 INTERGENIC
3L	3242220	3L_3242220_SNP [dm3] 3L_3242220_SNP [dm6]	G	A	8.117e^-6	0.377	INTERGENIC
3R	16561974	3R_16561974_SNP [dm3] 3R_20736252_SNP [dm6]	A	G	8.136e^-6	0.377	NON_SYNONYMOUS_CODING cdc2c DOWNSTREAM CR42786 & 1 other	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_ttk
2L	12866101	2L_12866101_SNP [dm3] 2L_12866101_SNP [dm6]	T	A	8.396e^-6	0.377	INTERGENIC
3R	16561894	3R_16561894_SNP [dm3] 3R_20736172_SNP [dm6]	A	C	8.455e^-6	0.377	SYNONYMOUS_CODING cdc2c DOWNSTREAM CR42786 & 1 other	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_ttk
3R	20433786	3R_20433786_DEL [dm3] 3R_24608064_DEL [dm6]	CTACAATTCA	C	8.484e^-6	0.377	INTRON mld
2L	12866505	2L_12866505_DEL [dm3] 2L_12866505_DEL [dm6]	TGCTAAGCACAAGT...	T	8.519e^-6	0.377	INTERGENIC
X	16550703	X_16550703_SNP [dm3] X_16656670_SNP [dm6]	A	G	8.741e^-6	0.377	SYNONYMOUS_CODING r	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi mE1_TFBS_chinmo
2L	12865088	2L_12865088_SNP [dm3] 2L_12865088_SNP [dm6]	A	C	8.855e^-6	0.377	INTERGENIC
3R	24847825	3R_24847825_INS [dm3] 3R_29022103_INS [dm6]	T	TC	8.855e^-6	0.377	UPSTREAM CR45567 EXON CR44264
3R	16254549	3R_16254549_SNP [dm3] 3R_20428827_SNP [dm6]	A	C	9.286e^-6	0.387	INTRON Gfrl
3R	16767467	3R_16767467_SNP [dm3] 3R_20941745_SNP [dm6]	C	T	1.006e^-5	0.394	INTRON CG31191
2L	12858565	2L_12858565_SNP [dm3] 2L_12858565_SNP [dm6]	A	T	1.033e^-5	0.394	INTERGENIC
3L	3776685	3L_3776685_SNP [dm3] 3L_3776685_SNP [dm6]	A	G	1.036e^-5	0.394	INTRON CG32264
3R	23893983	3R_23893983_SNP [dm3] 3R_28068261_SNP [dm6]	G	T	1.038e^-5	0.394	INTRON CG34362
3R	16562035	3R_16562035_SNP [dm3] 3R_20736313_SNP [dm6]	A	C	1.049e^-5	0.394	DOWNSTREAM CR42786 & 1 other INTRON cdc2c	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_ttk
3R	16254515	3R_16254515_SNP [dm3] 3R_20428793_SNP [dm6]	A	C	1.090e^-5	0.4	INTRON Gfrl
3L	3776678	3L_3776678_SNP [dm3] 3L_3776678_SNP [dm6]	G	A	1.109e^-5	0.4	INTRON CG32264
2L	12869341	2L_12869341_SNP [dm3] 2L_12869341_SNP [dm6]	A	G	1.160e^-5	0.411	INTERGENIC
2L	12872282	2L_12872282_SNP [dm3] 2L_12872282_SNP [dm6]	T	G	1.254e^-5	0.414	INTERGENIC
3L	4207400	3L_4207400_SNP [dm3] 3L_4207400_SNP [dm6]	T	A	1.256e^-5	0.414	DOWNSTREAM Cpr64Aa INTRON CG43367
3L	16115014	3L_16115014_SNP [dm3] 3L_16121914_SNP [dm6]	C	T	1.258e^-5	0.414	UPSTREAM CG12272 DOWNSTREAM Taf4 INTERGENIC	TF binding site mE1_TFBS_HSA
2L	12865256	2L_12865256_SNP [dm3] 2L_12865256_SNP [dm6]	A	C	1.283e^-5	0.414	INTERGENIC
3L	10266841	3L_10266841_SNP [dm3] 3L_10273741_SNP [dm6]	C	T	1.283e^-5	0.414	SYNONYMOUS_CODING Or67d
2L	13225955	2L_13225955_DEL [dm3] 2L_13225955_DEL [dm6]	TCACT	T	1.303e^-5	0.414	UPSTREAM CG15480 INTERGENIC	TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_ftz BDTNP1_TFBS_gt BDTNP1_TFBS_hb BDTNP1_TFBS_kni BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_shn BDTNP1_TFBS_sna BDTNP1_TFBS_tll BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_Kr mE1_TFBS_Stat92E
3R	15149600	3R_15149600_SNP [dm3] 3R_19323878_SNP [dm6]	G	A	1.406e^-5	0.436	INTRON Dl
2L	12878015	2L_12878015_SNP [dm3] 2L_12878015_SNP [dm6]	T	C	1.419e^-5	0.436	INTERGENIC
3R	16562031	3R_16562031_SNP [dm3] 3R_20736309_SNP [dm6]	C	A	1.522e^-5	0.447	DOWNSTREAM CR42786 & 1 other INTRON cdc2c	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_ttk
2R	17846754	2R_17846754_SNP [dm3] 2R_21959249_SNP [dm6]	G	C	1.540e^-5	0.447	INTERGENIC
2L	8783849	2L_8783849_SNP [dm3] 2L_8783849_SNP [dm6]	T	G	1.570e^-5	0.447	INTERGENIC
3R	24632489	3R_24632489_SNP [dm3] 3R_28806767_SNP [dm6]	C	T	1.576e^-5	0.447	SYNONYMOUS_CODING CheB98a
2L	1705693	2L_1705693_SNP [dm3] 2L_1705693_SNP [dm6]	G	A	1.578e^-5	0.447	SYNONYMOUS_CODING cpb	TF binding site mE1_TFBS_chinmo mE1_TFBS_HSA
2L	11597549	2L_11597549_SNP [dm3] 2L_11597549_SNP [dm6]	T	C	1.597e^-5	0.447	INTRON kek2	TF binding site mE1_TFBS_inv
3R	18460021	3R_18460021_SNP [dm3] 3R_22634299_SNP [dm6]	T	C	1.662e^-5	0.45	INTRON loco	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_sens
3L	3776937	3L_3776937_SNP [dm3] 3L_3776937_SNP [dm6]	A	C	1.673e^-5	0.45	INTRON CG32264
2L	4265787	2L_4265787_SNP [dm3] 2L_4265787_SNP [dm6]	C	G	1.679e^-5	0.45	INTERGENIC
2L	12865246	2L_12865246_SNP [dm3] 2L_12865246_SNP [dm6]	T	C	1.743e^-5	0.46	INTERGENIC
3R	20433862	3R_20433862_SNP [dm3] 3R_24608140_SNP [dm6]	G	A	1.785e^-5	0.46	INTRON mld
3R	16258263	3R_16258263_SNP [dm3] 3R_20432541_SNP [dm6]	T	A	1.825e^-5	0.46	INTRON Gfrl
2L	12878727	2L_12878727_SNP [dm3] 2L_12878727_SNP [dm6]	A	G	1.862e^-5	0.46	INTERGENIC
3R	15184463	3R_15184463_SNP [dm3] 3R_19358741_SNP [dm6]	C	T	1.863e^-5	0.46	INTERGENIC
3R	16561639	3R_16561639_SNP [dm3] 3R_20735917_SNP [dm6]	G	A	1.870e^-5	0.46	UPSTREAM mir-995 DOWNSTREAM CR42786 INTRON cdc2c	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_ttk
3R	24827437	3R_24827437_SNP [dm3] 3R_29001715_SNP [dm6]	A	G	1.893e^-5	0.46	INTRON wat
3L	2043687	3L_2043687_SNP [dm3] 3L_2043687_SNP [dm6]	T	A	1.931e^-5	0.46	SYNONYMOUS_CODING sls	TF binding site mE1_TFBS_cad mE1_TFBS_HSA
X	7778971	X_7778971_SNP [dm3] X_7884938_SNP [dm6]	T	C	1.957e^-5	0.46	SYNONYMOUS_CODING Ir7g UPSTREAM Ir7f
3R	16561922	3R_16561922_SNP [dm3] 3R_20736200_SNP [dm6]	C	T	1.971e^-5	0.46	SYNONYMOUS_CODING cdc2c DOWNSTREAM CR42786 & 1 other	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_ttk
2L	10592710	2L_10592710_SNP [dm3] 2L_10592710_SNP [dm6]	T	A	2.014e^-5	0.46	INTRON Trim9
3R	22546616	3R_22546616_SNP [dm3] 3R_26720894_SNP [dm6]	T	A	2.040e^-5	0.46	INTRON CG6420	TF binding site BDTNP1_TFBS_sna mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
3R	20433904	3R_20433904_SNP [dm3] 3R_24608182_SNP [dm6]	A	T	2.063e^-5	0.46	INTRON mld
2L	12865180	2L_12865180_SNP [dm3] 2L_12865180_SNP [dm6]	A	G	2.084e^-5	0.46	INTERGENIC
3R	15184459	3R_15184459_SNP [dm3] 3R_19358737_SNP [dm6]	A	T	2.089e^-5	0.46	INTERGENIC
2L	20827688	2L_20827688_SNP [dm3] 2L_20827688_SNP [dm6]	C	T	2.108e^-5	0.46	UTR_3_PRIME CG9331
2L	19240811	2L_19240811_SNP [dm3] 2L_19240811_SNP [dm6]	C	T	2.218e^-5	0.462	INTERGENIC
3R	9880894	3R_9880894_SNP [dm3] 3R_14055172_SNP [dm6]	C	A	2.232e^-5	0.462	INTERGENIC
3R	15186073	3R_15186073_SNP [dm3] 3R_19360351_SNP [dm6]	C	A	2.258e^-5	0.462	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_prd BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi mE1_TFBS_HSA
3R	15186075	3R_15186075_SNP [dm3] 3R_19360353_SNP [dm6]	G	C	2.258e^-5	0.462	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_prd BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi mE1_TFBS_HSA
3R	15186088	3R_15186088_SNP [dm3] 3R_19360366_SNP [dm6]	A	T	2.258e^-5	0.462	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
3R	20433915	3R_20433915_SNP [dm3] 3R_24608193_SNP [dm6]	C	G	2.266e^-5	0.462	INTRON mld
2L	12201024	2L_12201024_DEL [dm3] 2L_12201024_DEL [dm6]	CTTTATGAACTCAGAG...	C	2.297e^-5	0.463	UPSTREAM aret INTRON aret
X	4401547	X_4401547_SNP [dm3] X_4507514_SNP [dm6]	G	C	2.389e^-5	0.474	INTRON CR32773	silencer mE1_HDAC_PRE TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_z mE1_TFBS_bab1 mE1_TFBS_D mE1_TFBS_disco mE1_TFBS_GATAe mE1_TFBS_HSA mE1_TFBS_Trl mE1_TFBS_zfh1
2R	19130061	2R_19130061_SNP [dm3] 2R_23242538_SNP [dm6]	A	G	2.399e^-5	0.474	INTERGENIC	TF binding site BDTNP1_TFBS_twi mE1_TFBS_HSA
2L	12866132	2L_12866132_SNP [dm3] 2L_12866132_SNP [dm6]	A	T	2.457e^-5	0.48	INTERGENIC
3R	15185308	3R_15185308_SNP [dm3] 3R_19359586_SNP [dm6]	T	C	2.526e^-5	0.482	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
3R	15186136	3R_15186136_DEL [dm3] 3R_19360414_DEL [dm6]	GGATCTATG	G	2.564e^-5	0.482	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
3R	15186188	3R_15186188_SNP [dm3] 3R_19360466_SNP [dm6]	T	C	2.573e^-5	0.482	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_slp1 mE1_TFBS_HSA
2R	17694803	2R_17694803_SNP [dm3] 2R_21807298_SNP [dm6]	A	T	2.601e^-5	0.482	INTERGENIC

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By genomic position
Variant impact
Gene name

sd_Lifespan phenotype

Phenotype distribution and association to known covariates

QQplot

Manhattan plot

GWAS results