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=3.666e^-3)
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

Covariate	χ²	p-value	Significance
In_2R_NS	4.9397	0.0846

PNG PDF

QQplot

PNG PDF

Manhattan plot

GWAS results

1556 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	9824945	2L_9824945_SNP [dm3] 2L_9824945_SNP [dm6]	A	G	8.835e^-7	0.978	INTRON nAChRalpha6
2L	10216987	2L_10216987_SNP [dm3] 2L_10216987_SNP [dm6]	C	T	5.762e^-6	0.978	SYNONYMOUS_CODING Npc1a	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
2L	10029121	2L_10029121_SNP [dm3] 2L_10029121_SNP [dm6]	C	G	8.123e^-6	0.978	UTR_3_PRIME CG13127
3R	24882287	3R_24882287_SNP [dm3] 3R_29056565_SNP [dm6]	A	T	1.085e^-5	0.978	NON_SYNONYMOUS_CODING Sirt7 DOWNSTREAM CG11843
X	11843564	X_11843564_SNP [dm3] X_11949531_SNP [dm6]	A	T	1.159e^-5	0.978	INTRON cac	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
2L	10091948	2L_10091948_SNP [dm3] 2L_10091948_SNP [dm6]	A	G	1.327e^-5	0.978	SYNONYMOUS_CODING CG13133 INTRON CG44153	TF binding site mE1_TFBS_chinmo mE1_TFBS_HSA
2R	9854889	2R_9854889_SNP [dm3] 2R_13967384_SNP [dm6]	T	C	1.619e^-5	0.978	SYNONYMOUS_CODING Cp1 UPSTREAM Aats-phe	TF binding site BDTNP1_TFBS_dl mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_sens
X	11843567	X_11843567_SNP [dm3] X_11949534_SNP [dm6]	G	T	1.759e^-5	0.978	INTRON cac	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
2R	3040600	2R_3040600_SNP [dm3] 2R_7153095_SNP [dm6]	A	T	1.791e^-5	0.978	SYNONYMOUS_CODING Spn43Ab DOWNSTREAM Spn43Ad INTRON pk	TF binding site mE1_TFBS_cad mE1_TFBS_HSA
3R	26963749	3R_26963749_SNP [dm3] 3R_31138027_SNP [dm6]	T	C	1.943e^-5	0.978	INTRON Gycbeta100B
3L	3633461	3L_3633461_SNP [dm3] 3L_3633461_SNP [dm6]	A	G	1.989e^-5	0.978	INTRON dar1	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA mE1_TFBS_inv
2R	12392094	2R_12392094_INS [dm3] 2R_16504589_INS [dm6]	C	CACCCCCCA	2.057e^-5	0.978	INTRON Sema-2a
3L	2922495	3L_2922495_SNP [dm3] 3L_2922495_SNP [dm6]	T	C	2.123e^-5	0.978	INTRON Shab
3L	3633278	3L_3633278_SNP [dm3] 3L_3633278_SNP [dm6]	G	T	2.144e^-5	0.978	INTRON dar1	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
3L	8024626	3L_8024626_SNP [dm3] 3L_8031526_SNP [dm6]	T	C	2.166e^-5	0.978	INTRON nmo
2L	1318084	2L_1318084_SNP [dm3] 2L_1318084_SNP [dm6]	C	A	2.361e^-5	0.978	INTERGENIC
2L	1318088	2L_1318088_SNP [dm3] 2L_1318088_SNP [dm6]	G	T	2.361e^-5	0.978	INTERGENIC
2R	14531475	2R_14531475_SNP [dm3] 2R_18643970_SNP [dm6]	C	T	2.384e^-5	0.978	INTRON SP2637
2R	11663155	2R_11663155_SNP [dm3] 2R_15775650_SNP [dm6]	G	A	2.402e^-5	0.978	INTRON Zasp52	TF binding site mE1_TFBS_chinmo
2L	10230182	2L_10230182_SNP [dm3] 2L_10230182_SNP [dm6]	C	T	2.570e^-5	0.978	INTRON CG5694	TF binding site BDTNP1_TFBS_dl mE1_TFBS_cad
3L	4289564	3L_4289564_SNP [dm3] 3L_4289564_SNP [dm6]	T	C	2.672e^-5	0.978	SYNONYMOUS_CODING Hexo1	TF binding site mE1_TFBS_chinmo mE1_TFBS_sens
2R	12392088	2R_12392088_SNP [dm3] 2R_16504583_SNP [dm6]	A	C	2.835e^-5	0.978	INTRON Sema-2a
3R	24883928	3R_24883928_SNP [dm3] 3R_29058206_SNP [dm6]	A	G	2.871e^-5	0.978	NON_SYNONYMOUS_CODING Sirt7	TF binding site mE1_TFBS_sens
2L	7051350	2L_7051350_SNP [dm3] 2L_7051350_SNP [dm6]	C	T	2.912e^-5	0.978	INTRON milt	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl mE1_TFBS_cad
3R	25103909	3R_25103909_SNP [dm3] 3R_29278187_SNP [dm6]	C	T	2.943e^-5	0.978	INTERGENIC	regulatory region REDfly_CRMs
X	2284680	X_2284680_SNP [dm3] X_2390647_SNP [dm6]	T	A	3.246e^-5	0.978	INTERGENIC
3L	2991753	3L_2991753_SNP [dm3] 3L_2991753_SNP [dm6]	T	C	3.280e^-5	0.978	INTERGENIC
3R	18991357	3R_18991357_SNP [dm3] 3R_23165635_SNP [dm6]	C	T	3.350e^-5	0.978	INTERGENIC
3R	14048852	3R_14048852_SNP [dm3] 3R_18223130_SNP [dm6]	T	C	3.458e^-5	0.978	SYNONYMOUS_CODING mTerf5 UPSTREAM CG7993	TF binding site mE1_TFBS_sens
2L	14894113	2L_14894113_SNP [dm3] 2L_14894113_SNP [dm6]	G	C	3.538e^-5	0.978	INTERGENIC
3R	24884393	3R_24884393_SNP [dm3] 3R_29058671_SNP [dm6]	A	C	3.654e^-5	0.978	SYNONYMOUS_CODING Sirt7 DOWNSTREAM Cul5
2R	13779380	2R_13779380_SNP [dm3] 2R_17891875_SNP [dm6]	A	G	3.659e^-5	0.978	INTRON Elk	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi
3R	5143433	3R_5143433_SNP [dm3] 3R_9317711_SNP [dm6]	C	T	3.692e^-5	0.978	INTRON CG8861
3L	8973595	3L_8973595_SNP [dm3] 3L_8980495_SNP [dm6]	T	C	3.974e^-5	0.978	UPSTREAM CG5644 INTERGENIC
2L	19789025	2L_19789025_SNP [dm3] 2L_19789025_SNP [dm6]	G	A	3.986e^-5	0.978	INTRON CdGAPr
2R	6358554	2R_6358554_SNP [dm3] 2R_10471049_SNP [dm6]	G	T	4.001e^-5	0.978	INTRON whd
3L	1189002	3L_1189002_SNP [dm3] 3L_1189002_SNP [dm6]	G	A	4.062e^-5	0.978	UPSTREAM CG13912 INTERGENIC	TF binding site mE1_TFBS_cad mE1_TFBS_Trl
2R	17886860	2R_17886860_SNP [dm3] 2R_21999355_SNP [dm6]	G	T	4.136e^-5	0.978	INTRON CG34370
2R	20496324	2R_20496324_SNP [dm3] 2R_24608801_SNP [dm6]	G	A	4.179e^-5	0.978	DOWNSTREAM CG42361 INTRON CG42360	TF binding site mE1_TFBS_cad
3L	8331303	3L_8331303_SNP [dm3] 3L_8338203_SNP [dm6]	G	A	4.181e^-5	0.978	UTR_3_PRIME Cpr66Cb UPSTREAM Pex2	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
3L	9509103	3L_9509103_SNP [dm3] 3L_9516003_SNP [dm6]	C	A	4.309e^-5	0.978	INTRON CG33700
2R	7422794	2R_7422794_SNP [dm3] 2R_11535289_SNP [dm6]	G	A	4.340e^-5	0.978	INTERGENIC	TF binding site BDTNP1_TFBS_twi mE1_TFBS_HSA
2L	10514949	2L_10514949_SNP [dm3] 2L_10514949_SNP [dm6]	C	T	4.398e^-5	0.978	INTRON Fatp & 1 other
2L	11607832	2L_11607832_SNP [dm3] 2L_11607832_SNP [dm6]	C	T	4.550e^-5	0.978	INTRON kek2	TF binding site mE1_TFBS_Ubx
2L	11166476	2L_11166476_SNP [dm3] 2L_11166476_SNP [dm6]	G	A	4.611e^-5	0.978	INTRON Ca-beta
3L	15896021	3L_15896021_INS [dm3] 3L_15902921_INS [dm6]	T	TCTT	4.685e^-5	0.978	UTR_3_PRIME sff
3R	13611718	3R_13611718_SNP [dm3] 3R_17785996_SNP [dm6]	C	T	4.786e^-5	0.978	INTRON CG43102
3R	14696910	3R_14696910_SNP [dm3] 3R_18871188_SNP [dm6]	C	G	4.797e^-5	0.978	INTERGENIC
X	16868262	X_16868262_SNP [dm3] X_16974229_SNP [dm6]	G	A	4.884e^-5	0.978	SYNONYMOUS_CODING CG45002	TF binding site mE1_TFBS_chinmo mE1_TFBS_inv
X	2666078	X_2666078_SNP [dm3] X_2772045_SNP [dm6]	G	C	5.077e^-5	0.978	INTRON kirre
3L	20617793	3L_20617793_SNP [dm3] 3L_20624693_SNP [dm6]	T	C	5.101e^-5	0.978	UPSTREAM CR44684 INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_prd BDTNP1_TFBS_twi mE1_TFBS_HSA
2L	702221	2L_702221_SNP [dm3] 2L_702221_SNP [dm6]	G	A	5.211e^-5	0.978	INTRON ds	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_shn BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_D mE1_TFBS_HSA mE1_TFBS_kn mE1_TFBS_sens mE1_TFBS_Trl
3R	14175778	3R_14175778_DEL [dm3] 3R_18350056_DEL [dm6]	CTAAGTATAT	C	5.420e^-5	0.978	INTRON CG15803
2L	7908374	2L_7908374_SNP [dm3] 2L_7908374_SNP [dm6]	C	T	5.425e^-5	0.978	INTRON Snoo
2L	1318102	2L_1318102_SNP [dm3] 2L_1318102_SNP [dm6]	G	T	5.431e^-5	0.978	INTERGENIC
X	5465862	X_5465862_DEL [dm3] X_5571829_DEL [dm6]	GG	G	5.458e^-5	0.978	INTERGENIC
X	12213571	X_12213571_SNP [dm3] X_12319538_SNP [dm6]	T	C	5.516e^-5	0.978	INTRON Ten-a	TF binding site mE1_TFBS_cad
3R	24881038	3R_24881038_SNP [dm3] 3R_29055316_SNP [dm6]	C	T	5.627e^-5	0.978	NON_SYNONYMOUS_CODING CG11843 UPSTREAM Sirt7	TF binding site BDTNP1_TFBS_dl
3R	24881063	3R_24881063_SNP [dm3] 3R_29055341_SNP [dm6]	G	C	5.627e^-5	0.978	SYNONYMOUS_CODING CG11843 UPSTREAM Sirt7	TF binding site BDTNP1_TFBS_dl
2R	15273213	2R_15273213_SNP [dm3] 2R_19385708_SNP [dm6]	T	A	5.658e^-5	0.978	UPSTREAM CG10081 DOWNSTREAM CG10073 INTERGENIC
2R	2036857	2R_2036857_SNP [dm3] 2R_6149352_SNP [dm6]	A	G	5.692e^-5	0.978	INTRON EcR
2R	19102584	2R_19102584_SNP [dm3] 2R_23215061_SNP [dm6]	G	A	5.742e^-5	0.978	INTERGENIC
3R	27078849	3R_27078849_SNP [dm3] 3R_31253127_SNP [dm6]	C	A	5.924e^-5	0.978	NON_SYNONYMOUS_CODING mRpL32 UPSTREAM qless DOWNSTREAM CG1750	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_gt BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_Ubx
3R	27079408	3R_27079408_SNP [dm3] 3R_31253686_SNP [dm6]	G	A	5.924e^-5	0.978	SYNONYMOUS_CODING CG1750 UTR_3_PRIME mRpL32	TF binding site mE1_TFBS_sens
2L	22051149	2L_22051149_SNP [dm3] 2L_22051149_SNP [dm6]	T	C	5.948e^-5	0.978	INTERGENIC	TF binding site mE1_TFBS_sens
3L	13879456	3L_13879456_SNP [dm3] 3L_13886356_SNP [dm6]	C	T	5.967e^-5	0.978	SPLICE_SITE_REGION dysc INTRON dysc	TF binding site mE1_TFBS_cad
2R	9739622	2R_9739622_SNP [dm3] 2R_13852117_SNP [dm6]	T	C	6.012e^-5	0.978	NON_SYNONYMOUS_CODING CG30485 DOWNSTREAM CG6543
2L	20039836	2L_20039836_SNP [dm3] 2L_20039836_SNP [dm6]	A	G	6.168e^-5	0.978	INTRON sNPF
3R	10854896	3R_10854896_SNP [dm3] 3R_15029174_SNP [dm6]	C	T	6.223e^-5	0.978	INTERGENIC
X	4850023	X_4850023_SNP [dm3] X_4955990_SNP [dm6]	C	A	6.269e^-5	0.978	DOWNSTREAM Ptp4E & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_sna mE1_TFBS_HSA mE1_TFBS_kn
3L	20603215	3L_20603215_SNP [dm3] 3L_20610115_SNP [dm6]	C	G	6.399e^-5	0.978	INTRON knrl
2L	19789027	2L_19789027_SNP [dm3] 2L_19789027_SNP [dm6]	T	A	6.403e^-5	0.978	INTRON CdGAPr
2L	19789033	2L_19789033_SNP [dm3] 2L_19789033_SNP [dm6]	A	G	6.403e^-5	0.978	INTRON CdGAPr
2R	5877242	2R_5877242_SNP [dm3] 2R_9989737_SNP [dm6]	C	T	6.500e^-5	0.978	UPSTREAM TER94 & 1 other INTRON TER94	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_z mE1_TFBS_cad mE1_TFBS_cnc mE1_TFBS_HSA mE1_TFBS_kn
2R	13760370	2R_13760370_SNP [dm3] 2R_17872865_SNP [dm6]	G	A	6.511e^-5	0.978	UPSTREAM Mapmodulin INTERGENIC	TF binding site BDTNP1_TFBS_dl
2R	13760403	2R_13760403_SNP [dm3] 2R_17872898_SNP [dm6]	T	C	6.511e^-5	0.978	UPSTREAM Mapmodulin INTERGENIC	TF binding site BDTNP1_TFBS_dl
3R	26963771	3R_26963771_SNP [dm3] 3R_31138049_SNP [dm6]	A	T	6.614e^-5	0.978	INTRON Gycbeta100B
3R	16020533	3R_16020533_SNP [dm3] 3R_20194811_SNP [dm6]	T	C	6.686e^-5	0.978	INTERGENIC
X	2285147	X_2285147_SNP [dm3] X_2391114_SNP [dm6]	G	A	6.720e^-5	0.978	INTERGENIC	TF binding site BDTNP1_TFBS_da
2L	10230278	2L_10230278_SNP [dm3] 2L_10230278_SNP [dm6]	A	T	6.851e^-5	0.978	INTRON CG5694	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_cad
2L	3981132	2L_3981132_SNP [dm3] 2L_3981132_SNP [dm6]	C	A	6.912e^-5	0.978	INTRON fred
3L	1188053	3L_1188053_SNP [dm3] 3L_1188053_SNP [dm6]	G	A	6.919e^-5	0.978	INTERGENIC
2R	13042287	2R_13042287_SNP [dm3] 2R_17154782_SNP [dm6]	T	G	6.947e^-5	0.978	INTRON CG17290
2L	9618172	2L_9618172_SNP [dm3] 2L_9618172_SNP [dm6]	A	T	6.982e^-5	0.978	INTRON GlcAT-S
3R	22573603	3R_22573603_SNP [dm3] 3R_26747881_SNP [dm6]	G	A	7.006e^-5	0.978	INTERGENIC
2L	7904690	2L_7904690_SNP [dm3] 2L_7904690_SNP [dm6]	C	G	7.061e^-5	0.978	INTRON Snoo	TF binding site mE1_TFBS_chinmo
3L	2903314	3L_2903314_SNP [dm3] 3L_2903314_SNP [dm6]	T	G	7.212e^-5	0.978	INTRON Shab
2L	11607792	2L_11607792_SNP [dm3] 2L_11607792_SNP [dm6]	A	G	7.271e^-5	0.978	INTRON kek2	TF binding site mE1_TFBS_Ubx
3R	8151515	3R_8151515_SNP [dm3] 3R_12325793_SNP [dm6]	T	C	7.315e^-5	0.978	DOWNSTREAM CG10013 INTERGENIC	TF binding site BDTNP1_TFBS_da
2R	13042332	2R_13042332_DEL [dm3] 2R_17154827_DEL [dm6]	TT	T	7.327e^-5	0.978	INTRON CG17290
2R	8374654	2R_8374654_SNP [dm3] 2R_12487149_SNP [dm6]	C	T	7.427e^-5	0.978	SYNONYMOUS_CODING CG34234 UTR_3_PRIME Dh44-R2 DOWNSTREAM fdl & 1 other
3R	14174865	3R_14174865_SNP [dm3] 3R_18349143_SNP [dm6]	T	C	7.529e^-5	0.978	INTRON CG15803
3L	1614702	3L_1614702_SNP [dm3] 3L_1614702_SNP [dm6]	C	T	7.796e^-5	0.978	NON_SYNONYMOUS_CODING CG12105 UPSTREAM CG12105 INTRON CG33791 & 1 other	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
2R	14761328	2R_14761328_SNP [dm3] 2R_18873823_SNP [dm6]	T	A	7.943e^-5	0.978	INTERGENIC
2R	16218604	2R_16218604_SNP [dm3] 2R_20331099_SNP [dm6]	G	A	7.943e^-5	0.978	DOWNSTREAM CG8929 INTERGENIC	TF binding site mE1_TFBS_sens
2R	19643339	2R_19643339_SNP [dm3] 2R_23755816_SNP [dm6]	T	G	7.943e^-5	0.978	SYNONYMOUS_CODING CG9850 INTRON CG9850
3L	1190231	3L_1190231_SNP [dm3] 3L_1190231_SNP [dm6]	C	T	7.943e^-5	0.978	SYNONYMOUS_CODING CG13912 DOWNSTREAM Trh	TF binding site mE1_TFBS_cad
3L	14233691	3L_14233691_SNP [dm3] 3L_14240591_SNP [dm6]	T	G	7.943e^-5	0.978	INTERGENIC	TF binding site mE1_TFBS_cad
3L	20869524	3L_20869524_SNP [dm3] 3L_20876424_SNP [dm6]	C	T	7.943e^-5	0.978	INTRON CG32432
X	13194306	X_13194306_SNP [dm3] X_13300273_SNP [dm6]	A	G	7.943e^-5	0.978	DOWNSTREAM CG1622 INTRON CG1764

Showing 1 to 100 of 1,000 entries

Previous1 2 3 4 5…10Next

Missing results

By genomic position
Variant impact
Gene name

CN_Hobo_TIDAL phenotype

Phenotype distribution and association to known covariates

QQplot

Manhattan plot

GWAS results