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=1.563e^-2)
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

1799 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
X	21280862	X_21280862_INS [dm3] X_21409835_INS [dm6]	G	GG	2.825e^-7	0.53	EXON CR45003
2L	777869	2L_777869_SNP [dm3] 2L_777869_SNP [dm6]	C	T	1.993e^-6	0.735	DOWNSTREAM CG13946 INTERGENIC
2R	17280566	2R_17280566_SNP [dm3] 2R_21393061_SNP [dm6]	T	A	2.026e^-6	0.735	UTR_3_PRIME Sdc DOWNSTREAM Acox57D-d & 1 other
3R	10171644	3R_10171644_SNP [dm3] 3R_14345922_SNP [dm6]	C	A	2.580e^-6	0.735	INTRON NK7.1
X	21280854	X_21280854_SNP [dm3] X_21409827_SNP [dm6]	T	C	3.107e^-6	0.735	EXON CR45003
X	22055432	X_22055432_SNP [dm3] X_22653596_SNP [dm6]	C	G	3.390e^-6	0.735	INTERGENIC	TF binding site BDTNP1_TFBS_twi mE1_TFBS_HSA
X	21280957	X_21280957_SNP [dm3] X_21409930_SNP [dm6]	T	C	3.695e^-6	0.735	SPLICE_SITE_REGION CR45003 EXON CR45003
X	14757015	X_14757015_SNP [dm3] X_14862982_SNP [dm6]	T	C	4.745e^-6	0.735	DOWNSTREAM CG9518 INTRON Flo2
X	14757014	X_14757014_SNP [dm3] X_14862981_SNP [dm6]	T	G	4.766e^-6	0.735	DOWNSTREAM CG9518 INTRON Flo2
X	21282846	X_21282846_SNP [dm3] X_21411819_SNP [dm6]	G	C	4.770e^-6	0.735	INTERGENIC
3L	2083804	3L_2083804_SNP [dm3] 3L_2083804_SNP [dm6]	C	T	5.307e^-6	0.735	NON_SYNONYMOUS_CODING sls INTRON sls
3R	20493348	3R_20493348_SNP [dm3] 3R_24667626_SNP [dm6]	C	T	5.403e^-6	0.735	UPSTREAM slo INTRON slo	regulatory region REDfly_CRMs
3L	13620160	3L_13620160_SNP [dm3] 3L_13627060_SNP [dm6]	A	G	5.726e^-6	0.735	INTRON bru-3	TF binding site mE1_TFBS_chinmo
X	12509390	X_12509390_SNP [dm3] X_12615357_SNP [dm6]	G	C	6.273e^-6	0.735	UTR_3_PRIME CG2543 UPSTREAM CG11085 INTRON CR45621	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl
2R	5649544	2R_5649544_SNP [dm3] 2R_9762039_SNP [dm6]	T	C	6.534e^-6	0.735	SPLICE_SITE_REGION trpl INTRON trpl	TF binding site mE1_TFBS_cad
2L	12281930	2L_12281930_SNP [dm3] 2L_12281930_SNP [dm6]	T	C	6.667e^-6	0.735	INTRON aret
X	14756804	X_14756804_SNP [dm3] X_14862771_SNP [dm6]	C	A	6.892e^-6	0.735	DOWNSTREAM CG9518 INTRON Flo2
X	12509392	X_12509392_SNP [dm3] X_12615359_SNP [dm6]	A	G	7.056e^-6	0.735	UTR_3_PRIME CG2543 UPSTREAM CG11085 INTRON CR45621	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl
3R	16425755	3R_16425755_SNP [dm3] 3R_20600033_SNP [dm6]	C	T	7.788e^-6	0.769	INTRON bon
3L	2434573	3L_2434573_SNP [dm3] 3L_2434573_SNP [dm6]	T	C	9.047e^-6	0.805	INTRON CG45186	TF binding site mE1_TFBS_cad mE1_TFBS_HSA
X	12509678	X_12509678_SNP [dm3] X_12615645_SNP [dm6]	A	C	9.338e^-6	0.805	UPSTREAM CG11085 DOWNSTREAM CG2543 EXON CR45621	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl
X	1822706	X_1822706_SNP [dm3] X_1928673_SNP [dm6]	T	A	1.002e^-5	0.805	INTRON CG11596	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA
3L	18866607	3L_18866607_SNP [dm3] 3L_18873507_SNP [dm6]	G	A	1.024e^-5	0.805	SYNONYMOUS_CODING Ugt UPSTREAM Rad9	TF binding site mE1_TFBS_sens
2R	4017765	2R_4017765_SNP [dm3] 2R_8130260_SNP [dm6]	C	A	1.030e^-5	0.805	SYNONYMOUS_CODING Pbp49 UTR_3_PRIME CG42516 DOWNSTREAM Socs44A	TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_sens
3L	18866634	3L_18866634_SNP [dm3] 3L_18873534_SNP [dm6]	T	C	1.190e^-5	0.843	SYNONYMOUS_CODING Ugt UPSTREAM Rad9	TF binding site mE1_TFBS_sens
2R	12483337	2R_12483337_SNP [dm3] 2R_16595832_SNP [dm6]	A	G	1.196e^-5	0.843	SYNONYMOUS_CODING CG8303	TF binding site mE1_TFBS_sens
3L	18866643	3L_18866643_SNP [dm3] 3L_18873543_SNP [dm6]	C	T	1.218e^-5	0.843	SYNONYMOUS_CODING Ugt UPSTREAM Rad9	TF binding site mE1_TFBS_sens
X	22055445	X_22055445_SNP [dm3] X_22653609_SNP [dm6]	A	T	1.302e^-5	0.843	INTERGENIC	TF binding site BDTNP1_TFBS_twi mE1_TFBS_HSA
3L	18866625	3L_18866625_SNP [dm3] 3L_18873525_SNP [dm6]	T	C	1.344e^-5	0.843	SYNONYMOUS_CODING Ugt UPSTREAM Rad9	TF binding site mE1_TFBS_sens
2L	4306167	2L_4306167_SNP [dm3] 2L_4306167_SNP [dm6]	A	G	1.417e^-5	0.843	DOWNSTREAM tutl INTRON tutl	TF binding site mE1_TFBS_chinmo
X	8714909	X_8714909_DEL [dm3] X_8820876_DEL [dm6]	CC	C	1.490e^-5	0.843	INTERGENIC
X	21280848	X_21280848_SNP [dm3] X_21409821_SNP [dm6]	G	A	1.563e^-5	0.843	EXON CR45003
X	2338456	X_2338456_SNP [dm3] X_2444423_SNP [dm6]	C	A	1.613e^-5	0.843	UTR_3_PRIME boi UPSTREAM tko	TF binding site BDTNP1_TFBS_dl mE1_TFBS_kn
3R	16880183	3R_16880183_SNP [dm3] 3R_21054461_SNP [dm6]	A	G	1.634e^-5	0.843	DOWNSTREAM Mvl INTRON Mvl	TF binding site mE1_TFBS_HSA mE1_TFBS_inv
3R	23003397	3R_23003397_SNP [dm3] 3R_27177675_SNP [dm6]	C	A	1.666e^-5	0.843	INTRON Ser	TF binding site mE1_TFBS_cad
3L	18866287	3L_18866287_SNP [dm3] 3L_18873187_SNP [dm6]	T	A	1.694e^-5	0.843	UPSTREAM Rad9 INTRON Ugt
X	21280814	X_21280814_SNP [dm3] X_21409787_SNP [dm6]	A	G	1.741e^-5	0.843	EXON CR45003
3R	17943965	3R_17943965_SNP [dm3] 3R_22118243_SNP [dm6]	G	A	1.781e^-5	0.843	SYNONYMOUS_CODING Ir94c UPSTREAM Ir94b
3R	2666092	3R_2666092_SNP [dm3] 3R_6840370_SNP [dm6]	C	G	1.842e^-5	0.843	INTRON Scr
3L	2090326	3L_2090326_SNP [dm3] 3L_2090326_SNP [dm6]	A	C	1.850e^-5	0.843	UTR_3_PRIME sls DOWNSTREAM sls & 1 other INTRON sls	TF binding site BDTNP1_TFBS_z mE1_TFBS_HSA
3L	18868479	3L_18868479_SNP [dm3] 3L_18875379_SNP [dm6]	C	G	1.908e^-5	0.843	SYNONYMOUS_CODING Ugt	TF binding site mE1_TFBS_sens
3R	7875836	3R_7875836_SNP [dm3] 3R_12050114_SNP [dm6]	C	A	1.931e^-5	0.843	UPSTREAM CG14739 INTERGENIC
2R	10022329	2R_10022329_SNP [dm3] 2R_14134824_SNP [dm6]	G	A	1.989e^-5	0.843	INTRON Prosap
2R	3493904	2R_3493904_SNP [dm3] 2R_7606399_SNP [dm6]	A	G	2.020e^-5	0.843	INTRON CG1358	TF binding site BDTNP1_TFBS_twi mE1_TFBS_HSA
X	21281000	X_21281000_SNP [dm3] X_21409973_SNP [dm6]	A	G	2.023e^-5	0.843	INTRON CR45003
3L	2105746	3L_2105746_SNP [dm3] 3L_2105746_SNP [dm6]	A	G	2.085e^-5	0.843	SYNONYMOUS_CODING sls	TF binding site BDTNP1_TFBS_sna mE1_TFBS_chinmo mE1_TFBS_HSA
3R	23003428	3R_23003428_SNP [dm3] 3R_27177706_SNP [dm6]	A	C	2.111e^-5	0.843	INTRON Ser	TF binding site mE1_TFBS_cad
2L	4306168	2L_4306168_SNP [dm3] 2L_4306168_SNP [dm6]	G	C	2.186e^-5	0.849	DOWNSTREAM tutl INTRON tutl	TF binding site mE1_TFBS_chinmo
X	1834381	X_1834381_SNP [dm3] X_1940348_SNP [dm6]	A	G	2.218e^-5	0.849	UTR_5_PRIME CG3587 UPSTREAM CG3857	TF binding site BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_disco mE1_TFBS_GATAe mE1_TFBS_HSA mE1_TFBS_run mE1_TFBS_sens
3L	2226141	3L_2226141_SNP [dm3] 3L_2226141_SNP [dm6]	A	G	2.461e^-5	0.911	INTERGENIC
2L	14695550	2L_14695550_SNP [dm3] 2L_14695550_SNP [dm6]	T	C	2.533e^-5	0.911	INTERGENIC
2R	3494115	2R_3494115_SNP [dm3] 2R_7606610_SNP [dm6]	T	G	2.572e^-5	0.911	INTRON CG1358	TF binding site BDTNP1_TFBS_twi
2L	16955833	2L_16955833_SNP [dm3] 2L_16955833_SNP [dm6]	T	G	2.627e^-5	0.911	INTERGENIC
X	16766781	X_16766781_SNP [dm3] X_16872748_SNP [dm6]	C	T	2.639e^-5	0.911	INTRON CG13003
X	4475320	X_4475320_SNP [dm3] X_4581287_SNP [dm6]	C	T	2.726e^-5	0.911	INTRON CR32773
X	6640250	X_6640250_DEL [dm3] X_6746217_DEL [dm6]	CTAC	C	2.798e^-5	0.911	DOWNSTREAM CR44964 EXON CR44895
2R	3747357	2R_3747357_SNP [dm3] 2R_7859852_SNP [dm6]	T	C	2.813e^-5	0.911	INTRON Dgk	TF binding site mE1_TFBS_cad
3R	23799951	3R_23799951_SNP [dm3] 3R_27974229_SNP [dm6]	C	G	2.835e^-5	0.911	SYNONYMOUS_CODING betaTub97EF	TF binding site mE1_TFBS_chinmo mE1_TFBS_HSA
3R	17943956	3R_17943956_SNP [dm3] 3R_22118234_SNP [dm6]	C	T	2.889e^-5	0.911	SYNONYMOUS_CODING Ir94c UPSTREAM Ir94b
X	11659510	X_11659510_SNP [dm3] X_11765477_SNP [dm6]	C	G	2.939e^-5	0.911	UPSTREAM CG9360 INTRON m	TF binding site mE1_TFBS_cnc
X	7466250	X_7466250_INS [dm3] X_7572217_INS [dm6]	T	TT	2.963e^-5	0.911	INTERGENIC	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_hb mE1_TFBS_cad mE1_TFBS_HSA
3L	7647508	3L_7647508_SNP [dm3] 3L_7654408_SNP [dm6]	T	A	3.094e^-5	0.926	UTR_5_PRIME CG7492 DOWNSTREAM Ank2 INTRON CG32373	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA mE1_TFBS_sens
3R	23003425	3R_23003425_SNP [dm3] 3R_27177703_SNP [dm6]	T	C	3.158e^-5	0.926	INTRON Ser	TF binding site mE1_TFBS_cad
3R	23688673	3R_23688673_SNP [dm3] 3R_27862951_SNP [dm6]	C	T	3.288e^-5	0.926	INTRON CG34353
3R	23688694	3R_23688694_DEL [dm3] 3R_27862972_DEL [dm6]	CA	C	3.288e^-5	0.926	INTRON CG34353
3R	23688714	3R_23688714_SNP [dm3] 3R_27862992_SNP [dm6]	A	T	3.288e^-5	0.926	INTRON CG34353
2L	2293607	2L_2293607_SNP [dm3] 2L_2293607_SNP [dm6]	T	A	3.307e^-5	0.926	INTERGENIC	TF binding site BDTNP1_TFBS_da
3L	15390080	3L_15390080_SNP [dm3] 3L_15396980_SNP [dm6]	C	T	3.462e^-5	0.929	INTERGENIC
3R	10409395	3R_10409395_SNP [dm3] 3R_14583673_SNP [dm6]	T	C	3.514e^-5	0.929	INTRON stumps
3L	9298923	3L_9298923_SNP [dm3] 3L_9305823_SNP [dm6]	G	A	3.671e^-5	0.929	INTERGENIC
3L	2083833	3L_2083833_SNP [dm3] 3L_2083833_SNP [dm6]	T	C	3.696e^-5	0.929	NON_SYNONYMOUS_CODING sls INTRON sls
X	12509614	X_12509614_INS [dm3] X_12615581_INS [dm6]	T	TATTGCACA	3.702e^-5	0.929	UPSTREAM CG11085 DOWNSTREAM CG2543 INTRON CR45621	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl
3R	17941991	3R_17941991_SNP [dm3] 3R_22116269_SNP [dm6]	A	G	3.774e^-5	0.929	SYNONYMOUS_CODING Ir94b
2L	3324493	2L_3324493_SNP [dm3] 2L_3324493_SNP [dm6]	C	G	3.779e^-5	0.929	INTRON CG33281
X	12509469	X_12509469_SNP [dm3] X_12615436_SNP [dm6]	A	T	3.782e^-5	0.929	UTR_3_PRIME CG2543 UPSTREAM CG11085 INTRON CR45621	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl
3L	9297951	3L_9297951_SNP [dm3] 3L_9304851_SNP [dm6]	C	T	3.788e^-5	0.929	INTERGENIC
3R	20493467	3R_20493467_SNP [dm3] 3R_24667745_SNP [dm6]	G	C	3.866e^-5	0.929	UPSTREAM slo INTRON slo	regulatory region REDfly_CRMs
X	12509619	X_12509619_SNP [dm3] X_12615586_SNP [dm6]	G	T	3.935e^-5	0.929	UPSTREAM CG11085 DOWNSTREAM CG2543 INTRON CR45621	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl
3L	2121473	3L_2121473_SNP [dm3] 3L_2121473_SNP [dm6]	G	A	3.941e^-5	0.929	INTRON zormin	TF binding site BDTNP1_TFBS_twi
X	22055528	X_22055528_SNP [dm3] X_22653692_SNP [dm6]	G	A	4.131e^-5	0.929	INTERGENIC	TF binding site mE1_TFBS_HSA
2L	8390445	2L_8390445_SNP [dm3] 2L_8390445_SNP [dm6]	A	G	4.156e^-5	0.929	SYNONYMOUS_CODING CG42820 DOWNSTREAM snRNA:U6atac:29B	TF binding site BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_sens
3R	7875831	3R_7875831_SNP [dm3] 3R_12050109_SNP [dm6]	C	T	4.248e^-5	0.929	UPSTREAM CG14739 INTERGENIC
3R	7876536	3R_7876536_SNP [dm3] 3R_12050814_SNP [dm6]	A	G	4.255e^-5	0.929	INTERGENIC
X	12282071	X_12282071_SNP [dm3] X_12388038_SNP [dm6]	A	G	4.316e^-5	0.929	INTERGENIC
3R	3344790	3R_3344790_SNP [dm3] 3R_7519068_SNP [dm6]	G	C	4.349e^-5	0.929	SYNONYMOUS_CODING Ubc84D DOWNSTREAM alpha-Est7
2L	2293416	2L_2293416_SNP [dm3] 2L_2293416_SNP [dm6]	G	C	4.354e^-5	0.929	INTERGENIC	TF binding site BDTNP1_TFBS_da mE1_TFBS_HSA
2R	13966671	2R_13966671_DEL [dm3] 2R_18079166_DEL [dm6]	TTCT	A	4.398e^-5	0.929	INTRON CG34386
3L	3907783	3L_3907783_DEL [dm3] 3L_3907783_DEL [dm6]	TT	T	4.399e^-5	0.929	UTR_3_PRIME ida DOWNSTREAM mge
3L	2121463	3L_2121463_SNP [dm3] 3L_2121463_SNP [dm6]	G	T	4.459e^-5	0.929	INTRON zormin	TF binding site BDTNP1_TFBS_twi
3R	24103813	3R_24103813_SNP [dm3] 3R_28278091_SNP [dm6]	G	T	4.540e^-5	0.929	INTERGENIC
2L	18418090	2L_18418090_SNP [dm3] 2L_18418090_SNP [dm6]	A	G	4.740e^-5	0.929	INTERGENIC
2L	7373651	2L_7373651_DEL [dm3] 2L_7373651_DEL [dm6]	GAGATCGGG	G	4.770e^-5	0.929	INTRON Wnt10	TF binding site mE1_TFBS_cad mE1_TFBS_HSA
3R	20970980	3R_20970980_SNP [dm3] 3R_25145258_SNP [dm6]	C	A	4.823e^-5	0.929	INTERGENIC
3R	26169789	3R_26169789_SNP [dm3] 3R_30344067_SNP [dm6]	A	T	4.939e^-5	0.929	INTRON hdc	TF binding site BDTNP1_TFBS_dl
2L	2286527	2L_2286527_SNP [dm3] 2L_2286527_SNP [dm6]	G	A	4.988e^-5	0.929	SYNONYMOUS_CODING CG31681 DOWNSTREAM CG4271 & 1 other
2L	15205484	2L_15205484_SNP [dm3] 2L_15205484_SNP [dm6]	G	A	4.991e^-5	0.929	INTERGENIC
3L	15391612	3L_15391612_SNP [dm3] 3L_15398512_SNP [dm6]	A	G	5.062e^-5	0.929	INTERGENIC
3R	20938571	3R_20938571_SNP [dm3] 3R_25112849_SNP [dm6]	A	C	5.133e^-5	0.929	UPSTREAM CG13650 DOWNSTREAM CG31108 INTERGENIC
3L	3903514	3L_3903514_SNP [dm3] 3L_3903514_SNP [dm6]	A	G	5.138e^-5	0.929	UTR_5_PRIME Sc2 UPSTREAM Ubi-p63E	TF binding site BDTNP1_TFBS_dl mE1_TFBS_Ubx
3R	26169735	3R_26169735_SNP [dm3] 3R_30344013_SNP [dm6]	C	G	5.209e^-5	0.929	INTRON hdc	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

anteriorLength phenotype

Phenotype distribution and association to known covariates

QQplot

Manhattan plot

GWAS results