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=1.295e^-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
No significant result.

Kruskal-Wallis test
No significant result.

PNG PDF

QQplot

PNG PDF

Manhattan plot

GWAS results

1721 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
2L	2757738	2L_2757738_DEL [dm3] 2L_2757738_DEL [dm6]	AT	A	2.997e^-6	0.988	UTR_3_PRIME Bacc DOWNSTREAM CR44772 & 2 others	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_cad mE1_TFBS_disco mE1_TFBS_GATAe mE1_TFBS_h mE1_TFBS_hkb mE1_TFBS_HSA mE1_TFBS_sens
2R	16659349	2R_16659349_SNP [dm3] 2R_20771844_SNP [dm6]	C	T	3.280e^-6	0.988	INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_cad mE1_TFBS_HSA
X	2662858	X_2662858_SNP [dm3] X_2768825_SNP [dm6]	G	A	3.796e^-6	0.988	INTRON kirre
2R	9526622	2R_9526622_SNP [dm3] 2R_13639117_SNP [dm6]	A	C	3.982e^-6	0.988	INTRON fas	TF binding site mE1_TFBS_chinmo mE1_TFBS_HSA
2R	12148290	2R_12148290_SNP [dm3] 2R_16260785_SNP [dm6]	A	T	4.072e^-6	0.988	UPSTREAM CngA INTERGENIC
2R	3175403	2R_3175403_SNP [dm3] 2R_7287898_SNP [dm6]	T	C	4.905e^-6	0.988	INTRON pwn
3R	14523254	3R_14523254_SNP [dm3] 3R_18697532_SNP [dm6]	A	T	5.502e^-6	0.988	INTERGENIC
2L	8492891	2L_8492891_SNP [dm3] 2L_8492891_SNP [dm6]	G	A	5.772e^-6	0.988	INTRON Dh31
3R	15137983	3R_15137983_SNP [dm3] 3R_19312261_SNP [dm6]	G	A	1.004e^-5	0.988	INTRON Dl	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_sens
3L	18914456	3L_18914456_SNP [dm3] 3L_18921356_SNP [dm6]	G	C	1.018e^-5	0.988	SYNONYMOUS_CODING CG3819	TF binding site mE1_TFBS_cad
X	2662864	X_2662864_SNP [dm3] X_2768831_SNP [dm6]	A	G	1.039e^-5	0.988	INTRON kirre
2R	9526621	2R_9526621_SNP [dm3] 2R_13639116_SNP [dm6]	C	A	1.087e^-5	0.988	INTRON fas	TF binding site mE1_TFBS_chinmo mE1_TFBS_HSA
2L	676520	2L_676520_SNP [dm3] 2L_676520_SNP [dm6]	C	G	1.099e^-5	0.988	INTRON ds
3R	24476268	3R_24476268_SNP [dm3] 3R_28650546_SNP [dm6]	G	A	1.180e^-5	0.988	UPSTREAM CG31050 INTERGENIC
2R	9526623	2R_9526623_INS [dm3] 2R_13639118_INS [dm6]	C	CCCCTGTTTTCC...	1.212e^-5	0.988	INTRON fas	TF binding site mE1_TFBS_chinmo mE1_TFBS_HSA
3L	12671321	3L_12671321_SNP [dm3] 3L_12678221_SNP [dm6]	T	C	1.238e^-5	0.988	INTERGENIC	silencer mE1_HDAC_PRE TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_gt BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_slp1 BDTNP1_TFBS_tll BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
3R	21856194	3R_21856194_SNP [dm3] 3R_26030472_SNP [dm6]	T	C	1.408e^-5	0.988	UPSTREAM E_spl_m5-HLH INTERGENIC	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_sna BDTNP1_TFBS_tll BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_sens
3R	14523268	3R_14523268_SNP [dm3] 3R_18697546_SNP [dm6]	A	C	1.470e^-5	0.988	INTERGENIC
3L	10146873	3L_10146873_SNP [dm3] 3L_10153773_SNP [dm6]	A	G	1.497e^-5	0.988	DOWNSTREAM CG8072 INTRON dpr10
2R	18279183	2R_18279183_SNP [dm3] 2R_22391678_SNP [dm6]	T	C	1.635e^-5	0.988	SPLICE_SITE_REGION CG13506 INTRON CG13506	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
2L	2424463	2L_2424463_INS [dm3] 2L_2424463_INS [dm6]	A	AA	1.708e^-5	0.988	UTR_3_PRIME CG9886 UPSTREAM CG44139
3R	6930710	3R_6930710_SNP [dm3] 3R_11104988_SNP [dm6]	C	T	1.732e^-5	0.988	INTERGENIC
2L	11198371	2L_11198371_SNP [dm3] 2L_11198371_SNP [dm6]	T	A	1.828e^-5	0.988	INTRON Ca-beta
3L	3791730	3L_3791730_SNP [dm3] 3L_3791730_SNP [dm6]	G	A	1.890e^-5	0.988	DOWNSTREAM CG32266 INTRON CG32264	TF binding site mE1_TFBS_HSA
X	2662875	X_2662875_SNP [dm3] X_2768842_SNP [dm6]	C	T	1.911e^-5	0.988	INTRON kirre
2L	12053004	2L_12053004_SNP [dm3] 2L_12053004_SNP [dm6]	T	C	1.957e^-5	0.988	SYNONYMOUS_CODING JhI-21 DOWNSTREAM CG14945
2L	10958177	2L_10958177_SNP [dm3] 2L_10958177_SNP [dm6]	A	G	2.054e^-5	0.988	INTRON dpr2	TF binding site BDTNP1_TFBS_twi
2L	11882120	2L_11882120_SNP [dm3] 2L_11882120_SNP [dm6]	G	T	2.066e^-5	0.988	INTRON Pde1c
2R	16622889	2R_16622889_SNP [dm3] 2R_20735384_SNP [dm6]	C	T	2.162e^-5	0.988	INTRON dpr
2L	11881357	2L_11881357_SNP [dm3] 2L_11881357_SNP [dm6]	C	T	2.303e^-5	0.988	INTRON Pde1c	TF binding site mE1_TFBS_inv
X	3558355	X_3558355_SNP [dm3] X_3664322_SNP [dm6]	G	A	2.396e^-5	0.988	INTRON AstA-R1
X	2662877	X_2662877_SNP [dm3] X_2768844_SNP [dm6]	A	T	2.460e^-5	0.988	INTRON kirre
3L	16452175	3L_16452175_SNP [dm3] 3L_16459075_SNP [dm6]	C	A	2.588e^-5	0.988	INTRON CG33158
2L	2424473	2L_2424473_SNP [dm3] 2L_2424473_SNP [dm6]	C	T	2.596e^-5	0.988	UTR_3_PRIME CG9886 UPSTREAM CG44139
3L	4051322	3L_4051322_SNP [dm3] 3L_4051322_SNP [dm6]	G	A	2.623e^-5	0.988	INTRON CG1136	TF binding site BDTNP1_TFBS_sna mE1_TFBS_HSA
3L	3837822	3L_3837822_SNP [dm3] 3L_3837822_SNP [dm6]	T	G	2.627e^-5	0.988	SYNONYMOUS_CODING enc	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
2R	16659519	2R_16659519_SNP [dm3] 2R_20772014_SNP [dm6]	C	T	2.662e^-5	0.988	INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_cad mE1_TFBS_HSA
2R	17788317	2R_17788317_SNP [dm3] 2R_21900812_SNP [dm6]	T	G	2.829e^-5	0.988	INTRON Fili	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA
2L	10191573	2L_10191573_DEL [dm3] 2L_10191573_DEL [dm6]	AA	T	2.850e^-5	0.988	UPSTREAM CG31874 INTRON Sur
2L	4936358	2L_4936358_SNP [dm3] 2L_4936358_SNP [dm6]	G	A	3.066e^-5	0.988	START_GAINED hoe2 UTR_5_PRIME hoe2	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
X	5078311	X_5078311_INS [dm3] X_5184278_INS [dm6]	C	CC	3.110e^-5	0.988	INTRON rg & 1 other
2L	1274643	2L_1274643_SNP [dm3] 2L_1274643_SNP [dm6]	A	T	3.115e^-5	0.988	INTRON robo3
X	8122337	X_8122337_DEL [dm3] X_8228304_DEL [dm6]	ATGAAATTA	A	3.123e^-5	0.988	INTRON sdt	insulator Insulator_Class_II.mE01 TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_inv
2R	16658621	2R_16658621_INS [dm3] 2R_20771116_INS [dm6]	A	AA	3.126e^-5	0.988	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_Trl
2R	16659539	2R_16659539_SNP [dm3] 2R_20772034_SNP [dm6]	C	A	3.166e^-5	0.988	INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_cad mE1_TFBS_HSA
2L	2007818	2L_2007818_SNP [dm3] 2L_2007818_SNP [dm6]	A	G	3.299e^-5	0.988	UPSTREAM CG15353 & 1 other DOWNSTREAM CR45712 INTERGENIC
2L	10191576	2L_10191576_SNP [dm3] 2L_10191576_SNP [dm6]	T	G	3.330e^-5	0.988	UPSTREAM CG31874 INTRON Sur
3L	10292357	3L_10292357_SNP [dm3] 3L_10299257_SNP [dm6]	T	C	3.334e^-5	0.988	INTERGENIC	TF binding site mE1_TFBS_chinmo mE1_TFBS_HSA
3L	2641281	3L_2641281_SNP [dm3] 3L_2641281_SNP [dm6]	T	G	3.351e^-5	0.988	UTR_3_PRIME CG42245 & 1 other DOWNSTREAM CG14949
3R	16239336	3R_16239336_SNP [dm3] 3R_20413614_SNP [dm6]	A	G	3.376e^-5	0.988	INTRON Gfrl
2L	10620490	2L_10620490_SNP [dm3] 2L_10620490_SNP [dm6]	C	G	3.414e^-5	0.988	SYNONYMOUS_CODING Trim9
2R	15822373	2R_15822373_SNP [dm3] 2R_19934868_SNP [dm6]	G	T	3.484e^-5	0.988	EXON CR44627
3L	10829147	3L_10829147_SNP [dm3] 3L_10836047_SNP [dm6]	A	G	3.495e^-5	0.988	INTERGENIC
3L	4630663	3L_4630663_SNP [dm3] 3L_4630663_SNP [dm6]	T	G	3.759e^-5	0.988	INTRON axo
2R	16622908	2R_16622908_SNP [dm3] 2R_20735403_SNP [dm6]	G	T	3.761e^-5	0.988	INTRON dpr
2L	3873833	2L_3873833_SNP [dm3] 2L_3873833_SNP [dm6]	G	A	3.778e^-5	0.988	SYNONYMOUS_CODING capu	TF binding site mE1_TFBS_chinmo mE1_TFBS_sens
X	2662880	X_2662880_SNP [dm3] X_2768847_SNP [dm6]	T	A	3.825e^-5	0.988	INTRON kirre
2L	11092228	2L_11092228_SNP [dm3] 2L_11092228_SNP [dm6]	A	T	3.826e^-5	0.988	SYNONYMOUS_CODING CG4705
2L	13257856	2L_13257856_SNP [dm3] 2L_13257856_SNP [dm6]	G	A	3.854e^-5	0.988	SYNONYMOUS_CODING CG31851 DOWNSTREAM CG31728
2L	8492926	2L_8492926_SNP [dm3] 2L_8492926_SNP [dm6]	C	G	3.945e^-5	0.988	INTRON Dh31
3R	934529	3R_934529_SNP [dm3] 3R_5108807_SNP [dm6]	C	T	4.159e^-5	0.988	NON_SYNONYMOUS_CODING CG43131	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_cad
3L	2513759	3L_2513759_SNP [dm3] 3L_2513759_SNP [dm6]	T	C	4.166e^-5	0.988	SYNONYMOUS_CODING Spn	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
X	7816116	X_7816116_SNP [dm3] X_7922083_SNP [dm6]	G	A	4.173e^-5	0.988	DOWNSTREAM CG10777 & 1 other INTERGENIC
2L	5825126	2L_5825126_DEL [dm3] 2L_5825126_DEL [dm6]	CATTTGTAAGCTTTCTTAAG...	C	4.185e^-5	0.988	UTR_5_PRIME TrissinR
3L	2591792	3L_2591792_SNP [dm3] 3L_2591792_SNP [dm6]	G	T	4.346e^-5	0.988	INTRON dos	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_HSA mE1_TFBS_sens
3R	8241764	3R_8241764_SNP [dm3] 3R_12416042_SNP [dm6]	T	C	4.409e^-5	0.988	SYNONYMOUS_CODING pps	TF binding site mE1_TFBS_sens
3L	12867573	3L_12867573_SNP [dm3] 3L_12874473_SNP [dm6]	C	A	4.441e^-5	0.988	INTERGENIC
3L	20872286	3L_20872286_INS [dm3] 3L_20879186_INS [dm6]	A	AA	4.454e^-5	0.988	INTRON CG32432
3R	16239305	3R_16239305_SNP [dm3] 3R_20413583_SNP [dm6]	T	A	4.522e^-5	0.988	INTRON Gfrl
2R	18698182	2R_18698182_SNP [dm3] 2R_22810677_SNP [dm6]	T	A	4.595e^-5	0.988	INTRON stl	TF binding site BDTNP1_TFBS_twi
2L	13082829	2L_13082829_SNP [dm3] 2L_13082829_SNP [dm6]	G	A	4.681e^-5	0.988	INTERGENIC
3L	11170952	3L_11170952_SNP [dm3] 3L_11177852_SNP [dm6]	C	T	4.724e^-5	0.988	UTR_3_PRIME GlcAT-P DOWNSTREAM CG14142
3L	1705363	3L_1705363_SNP [dm3] 3L_1705363_SNP [dm6]	G	A	4.790e^-5	0.988	INTRON CG7991
3L	15236549	3L_15236549_SNP [dm3] 3L_15243449_SNP [dm6]	C	T	4.830e^-5	0.988	DOWNSTREAM Tollo INTERGENIC
2L	7398781	2L_7398781_SNP [dm3] 2L_7398781_SNP [dm6]	A	G	4.838e^-5	0.988	UPSTREAM CR44079 & 1 other INTERGENIC
2L	2000406	2L_2000406_DEL [dm3] 2L_2000406_DEL [dm6]	TT	T	5.052e^-5	0.988	SPLICE_SITE_REGION CR43464 INTRON CG33543 & 1 other
3L	1083500	3L_1083500_DEL [dm3] 3L_1083500_DEL [dm6]	AA	A	5.053e^-5	0.988	INTRON bab1	TF binding site BDTNP1_TFBS_dl
2R	12330495	2R_12330495_SNP [dm3] 2R_16442990_SNP [dm6]	G	A	5.172e^-5	0.988	UPSTREAM CG4409 INTERGENIC
X	9073331	X_9073331_SNP [dm3] X_9179298_SNP [dm6]	T	G	5.181e^-5	0.988	UTR_3_PRIME mei-P26
2R	11885404	2R_11885404_SNP [dm3] 2R_15997899_SNP [dm6]	C	G	5.259e^-5	0.988	SYNONYMOUS_CODING ATPCL	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
3R	13562706	3R_13562706_SNP [dm3] 3R_17736984_SNP [dm6]	T	A	5.275e^-5	0.988	UTR_5_PRIME TyrRII
2R	19097092	2R_19097092_SNP [dm3] 2R_23209569_SNP [dm6]	A	G	5.341e^-5	0.988	DOWNSTREAM LS2 INTERGENIC	TF binding site mE1_TFBS_sens
3L	14202312	3L_14202312_SNP [dm3] 3L_14209212_SNP [dm6]	C	T	5.433e^-5	0.988	INTRON nuf
2L	16185023	2L_16185023_SNP [dm3] 2L_16185023_SNP [dm6]	C	T	5.730e^-5	0.988	SYNONYMOUS_CODING Ca-alpha1D	TF binding site mE1_TFBS_cad mE1_TFBS_HSA
2L	11198388	2L_11198388_SNP [dm3] 2L_11198388_SNP [dm6]	C	T	5.878e^-5	0.988	INTRON Ca-beta
2L	13299627	2L_13299627_SNP [dm3] 2L_13299627_SNP [dm6]	C	T	5.879e^-5	0.988	SYNONYMOUS_CODING CG31729	TF binding site mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_sens
3R	10955682	3R_10955682_SNP [dm3] 3R_15129960_SNP [dm6]	G	T	5.891e^-5	0.988	DOWNSTREAM mir-2493 INTRON CG42788
2L	8891499	2L_8891499_SNP [dm3] 2L_8891499_SNP [dm6]	G	C	5.903e^-5	0.988	UTR_5_PRIME CG42713
3L	3837804	3L_3837804_SNP [dm3] 3L_3837804_SNP [dm6]	A	C	5.912e^-5	0.988	SYNONYMOUS_CODING enc	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
2L	2424603	2L_2424603_SNP [dm3] 2L_2424603_SNP [dm6]	G	A	5.991e^-5	0.988	UTR_3_PRIME CG9886 UPSTREAM CG44139
3L	8685381	3L_8685381_SNP [dm3] 3L_8692281_SNP [dm6]	T	A	6.056e^-5	0.988	UPSTREAM CR44526 INTERGENIC	TF binding site mE1_TFBS_cad
2L	6770049	2L_6770049_SNP [dm3] 2L_6770049_SNP [dm6]	T	C	6.063e^-5	0.988	SYNONYMOUS_CODING CG11321	TF binding site mE1_TFBS_chinmo mE1_TFBS_HSA
2R	15236689	2R_15236689_SNP [dm3] 2R_19349184_SNP [dm6]	T	G	6.077e^-5	0.988	INTRON Rgk1
3R	10955290	3R_10955290_SNP [dm3] 3R_15129568_SNP [dm6]	C	T	6.099e^-5	0.988	INTRON CG42788
2L	2000416	2L_2000416_SNP [dm3] 2L_2000416_SNP [dm6]	C	T	6.173e^-5	0.988	SPLICE_SITE_REGION CR43464 INTRON CG33543 EXON CR43464
2R	16843949	2R_16843949_SNP [dm3] 2R_20956444_SNP [dm6]	C	T	6.179e^-5	0.988	INTRON hbn	TF binding site mE1_TFBS_cad mE1_TFBS_sens
2L	10956638	2L_10956638_SNP [dm3] 2L_10956638_SNP [dm6]	A	G	6.299e^-5	0.988	INTRON dpr2
2L	8891492	2L_8891492_SNP [dm3] 2L_8891492_SNP [dm6]	G	A	6.393e^-5	0.988	UTR_5_PRIME CG42713
3L	18918163	3L_18918163_SNP [dm3] 3L_18925063_SNP [dm6]	T	C	6.506e^-5	0.988	UPSTREAM CG43049 INTRON CG32204
3L	1083512	3L_1083512_SNP [dm3] 3L_1083512_SNP [dm6]	T	C	6.715e^-5	0.988	INTRON bab1	TF binding site BDTNP1_TFBS_dl

Showing 1 to 100 of 1,000 entries

Previous1 2 3 4 5…10Next

By genomic position
Variant impact
Gene name

MP phenotype

Phenotype distribution and association to known covariates

QQplot

Manhattan plot

GWAS results