©2022-2025 Deplancke lab, EPFL, 1015 Lausanne
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| By genomic position | |
| Variant impact | |
| Gene name |
| Involved in binding site | |
| Binding site |
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
Phenotype distribution and association to known covariates
Shapiro-Wilk test of normality (p-value=3.541e-1)
Null hypothesis is not rejected (p>0.05).
Interpretation: NORMAL distribution of this phenotype
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.
No significant result.
Kruskal-Wallis test
No significant result.
No significant result.
GWAS results
1507
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
| Chromosome | Position | ID | Reference | Variant | p-value | FDR_BH | Transcript annotation | Binding site annotation | |
|---|---|---|---|---|---|---|---|---|---|
| 2L | 13423472 | 2L_13423472_SNP [dm3] 2L_13423472_SNP [dm6] | T | C | 1.276e-6 | 1 |
INTRON
CG42784 |
||
| 2L | 16629767 | 2L_16629767_SNP [dm3] 2L_16629767_SNP [dm6] | C | T | 2.156e-6 | 1 |
UPSTREAM
CR44151 INTRON CG42389 |
||
| 2R | 5719124 | 2R_5719124_SNP [dm3] 2R_9831619_SNP [dm6] | G | C | 3.316e-6 | 1 |
UPSTREAM
hebe INTRON hebe |
||
| 2L | 13423478 | 2L_13423478_SNP [dm3] 2L_13423478_SNP [dm6] | A | T | 3.503e-6 | 1 |
INTRON
CG42784 |
||
| 2L | 16629760 | 2L_16629760_SNP [dm3] 2L_16629760_SNP [dm6] | A | T | 4.312e-6 | 1 |
UPSTREAM
CR44151 INTRON CG42389 |
||
| 2L | 12449551 | 2L_12449551_SNP [dm3] 2L_12449551_SNP [dm6] | A | T | 9.305e-6 | 1 |
INTRON
Oatp33Eb |
||
| 2L | 11896894 | 2L_11896894_SNP [dm3] 2L_11896894_SNP [dm6] | A | C | 9.649e-6 | 1 |
UPSTREAM
Pde1c INTRON Pde1c |
||
| 3L | 11144317 | 3L_11144317_SNP [dm3] 3L_11151217_SNP [dm6] | T | C | 1.012e-5 | 1 |
UTR_5_PRIME
CG32082 UPSTREAM CG6216 |
||
| 2L | 12449573 | 2L_12449573_SNP [dm3] 2L_12449573_SNP [dm6] | C | T | 1.031e-5 | 1 |
INTRON
Oatp33Eb |
TF binding site
mE1_TFBS_cad
|
|
| 3L | 10607808 | 3L_10607808_SNP [dm3] 3L_10614708_SNP [dm6] | C | T | 1.124e-5 | 1 |
INTERGENIC
|
||
| X | 15090314 | X_15090314_SNP [dm3] X_15196281_SNP [dm6] | A | G | 1.149e-5 | 1 |
INTERGENIC
|
||
| 2L | 14907465 | 2L_14907465_SNP [dm3] 2L_14907465_SNP [dm6] | T | C | 1.163e-5 | 1 |
DOWNSTREAM
CG42313 INTERGENIC |
||
| 2L | 12449593 | 2L_12449593_SNP [dm3] 2L_12449593_SNP [dm6] | A | G | 1.213e-5 | 1 |
SPLICE_SITE_REGION
Oatp33Eb INTRON Oatp33Eb |
TF binding site
mE1_TFBS_cad
|
|
| 2R | 20006260 | 2R_20006260_SNP [dm3] 2R_24118737_SNP [dm6] | C | T | 1.256e-5 | 1 |
INTRON
CG3257 |
TF binding site
mE1_TFBS_chinmo mE1_TFBS_inv
|
|
| 2L | 12449579 | 2L_12449579_INS [dm3] 2L_12449579_INS [dm6] | T | TT | 1.270e-5 | 1 |
INTRON
Oatp33Eb |
TF binding site
mE1_TFBS_cad
|
|
| 2L | 13350116 | 2L_13350116_SNP [dm3] 2L_13350116_SNP [dm6] | C | T | 1.346e-5 | 1 |
UTR_3_PRIME
CG9395 |
||
| X | 8278714 | X_8278714_SNP [dm3] X_8384681_SNP [dm6] | A | G | 1.816e-5 | 1 |
INTERGENIC
|
||
| 3R | 4218596 | 3R_4218596_SNP [dm3] 3R_8392874_SNP [dm6] | A | G | 1.860e-5 | 1 |
INTRON
CG45263 |
TF binding site
mE1_TFBS_chinmo
|
|
| 3R | 18154701 | 3R_18154701_SNP [dm3] 3R_22328979_SNP [dm6] | G | C | 1.990e-5 | 1 |
UPSTREAM
CG7080 INTERGENIC |
||
| 2R | 14208398 | 2R_14208398_DEL [dm3] 2R_18320893_DEL [dm6] | ATTTATCAA | G | 2.039e-5 | 1 |
INTRON
sbb |
||
| X | 6823113 | X_6823113_SNP [dm3] X_6929080_SNP [dm6] | C | T | 2.087e-5 | 1 |
INTRON
CG14431 |
||
| 2L | 15190090 | 2L_15190090_SNP [dm3] 2L_15190090_SNP [dm6] | C | A | 2.174e-5 | 1 |
INTRON
CG4168 |
||
| X | 15090235 | X_15090235_SNP [dm3] X_15196202_SNP [dm6] | A | C | 2.219e-5 | 1 |
INTERGENIC
|
||
| 3R | 13267902 | 3R_13267902_SNP [dm3] 3R_17442180_SNP [dm6] | A | G | 2.242e-5 | 1 |
INTRON
CG5873 |
||
| 2R | 2999617 | 2R_2999617_DEL [dm3] 2R_7112112_DEL [dm6] | GCAGTG | G | 2.518e-5 | 1 |
INTRON
esn |
TF binding site
mE1_TFBS_inv
|
|
| 3R | 18153423 | 3R_18153423_SNP [dm3] 3R_22327701_SNP [dm6] | A | T | 2.529e-5 | 1 |
INTERGENIC
|
||
| 3R | 10825186 | 3R_10825186_SNP [dm3] 3R_14999464_SNP [dm6] | G | A | 2.711e-5 | 1 |
INTERGENIC
|
||
| 2R | 14208408 | 2R_14208408_SNP [dm3] 2R_18320903_SNP [dm6] | A | C | 2.761e-5 | 1 |
INTRON
sbb |
||
| 2L | 16629796 | 2L_16629796_INS [dm3] 2L_16629796_INS [dm6] | G | GCCCTCGCATTTCG... | 2.850e-5 | 1 |
UPSTREAM
CR44151 INTRON CG42389 |
||
| 2L | 9777988 | 2L_9777988_SNP [dm3] 2L_9777988_SNP [dm6] | C | G | 3.129e-5 | 1 |
INTERGENIC
|
TF binding site
BDTNP1_TFBS_twi
|
|
| 2L | 332036 | 2L_332036_SNP [dm3] 2L_332036_SNP [dm6] | G | T | 3.213e-5 | 1 |
NON_SYNONYMOUS_CODING
CG31921 INTRON Plc21C |
TF binding site
mE1_TFBS_cad
|
|
| 2L | 13423499 | 2L_13423499_SNP [dm3] 2L_13423499_SNP [dm6] | G | A | 3.669e-5 | 1 |
INTRON
CG42784 |
||
| X | 15087849 | X_15087849_SNP [dm3] X_15193816_SNP [dm6] | G | A | 4.127e-5 | 1 |
INTERGENIC
|
||
| 3L | 3411695 | 3L_3411695_SNP [dm3] 3L_3411695_SNP [dm6] | C | T | 4.182e-5 | 1 |
DOWNSTREAM
mir-2282 INTRON sty |
TF binding site
BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA
|
|
| 3R | 17252101 | 3R_17252101_SNP [dm3] 3R_21426379_SNP [dm6] | C | T | 4.410e-5 | 1 |
UTR_3_PRIME
lbl INTRON lbl |
regulatory region
REDfly_CRMs
TF binding site BDTNP1_TFBS_prd BDTNP1_TFBS_twi |
|
| 2L | 14862077 | 2L_14862077_SNP [dm3] 2L_14862077_SNP [dm6] | G | C | 4.525e-5 | 1 |
INTERGENIC
|
||
| 3L | 3844729 | 3L_3844729_SNP [dm3] 3L_3844729_SNP [dm6] | G | T | 4.688e-5 | 1 |
INTERGENIC
|
TF binding site
BDTNP1_TFBS_z mE1_TFBS_cad
|
|
| X | 5253275 | X_5253275_SNP [dm3] X_5359242_SNP [dm6] | G | C | 4.748e-5 | 1 |
INTRON
SK |
||
| 3L | 2662128 | 3L_2662128_SNP [dm3] 3L_2662128_SNP [dm6] | A | G | 4.862e-5 | 1 |
DOWNSTREAM
CG33233 INTRON Fife & 1 other |
||
| 3L | 13488915 | 3L_13488915_SNP [dm3] 3L_13495815_SNP [dm6] | T | A | 4.867e-5 | 1 |
SYNONYMOUS_CODING
Tgi INTRON Tgi |
TF binding site
mE1_TFBS_cad mE1_TFBS_chinmo
|
|
| 2L | 19702903 | 2L_19702903_SNP [dm3] 2L_19702903_SNP [dm6] | T | C | 4.879e-5 | 1 |
INTRON
Lar |
TF binding site
BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
|
|
| 2L | 19703300 | 2L_19703300_SNP [dm3] 2L_19703300_SNP [dm6] | G | T | 4.879e-5 | 1 |
INTRON
Lar |
TF binding site
BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
|
|
| 3R | 3699626 | 3R_3699626_SNP [dm3] 3R_7873904_SNP [dm6] | A | T | 4.927e-5 | 1 |
INTRON
CG17816 |
||
| X | 11185517 | X_11185517_SNP [dm3] X_11291484_SNP [dm6] | T | C | 5.040e-5 | 1 |
INTRON
CG44422 |
||
| 2L | 17002615 | 2L_17002615_DEL [dm3] 2L_17002615_DEL [dm6] | TT | T | 5.045e-5 | 1 |
INTERGENIC
|
||
| 3L | 8858910 | 3L_8858910_SNP [dm3] 3L_8865810_SNP [dm6] | C | T | 5.338e-5 | 1 |
INTRON
dally |
TF binding site
mE1_TFBS_HSA mE1_TFBS_sbb
|
|
| 3L | 11626941 | 3L_11626941_DEL [dm3] 3L_11633841_DEL [dm6] | GACATATA | G | 5.358e-5 | 1 |
UPSTREAM
CR45158 INTRON CG32091 |
||
| 2R | 9334440 | 2R_9334440_SNP [dm3] 2R_13446935_SNP [dm6] | T | C | 5.388e-5 | 1 |
UPSTREAM
CG30062 INTRON cnn |
TF binding site
BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_sna BDTNP1_TFBS_twi
|
|
| 3L | 2662065 | 3L_2662065_SNP [dm3] 3L_2662065_SNP [dm6] | T | G | 5.466e-5 | 1 |
SYNONYMOUS_CODING
CG33234 DOWNSTREAM CG33233 INTRON Fife |
||
| 3L | 14229649 | 3L_14229649_SNP [dm3] 3L_14236549_SNP [dm6] | T | C | 5.479e-5 | 1 |
UPSTREAM
CG7906 & 1 other INTERGENIC |
||
| 3R | 9868453 | 3R_9868453_DEL [dm3] 3R_14042731_DEL [dm6] | TAAAGACATTAAAC... | T | 5.499e-5 | 1 |
INTERGENIC
|
||
| 2R | 12445980 | 2R_12445980_SNP [dm3] 2R_16558475_SNP [dm6] | A | G | 5.572e-5 | 1 |
UTR_3_PRIME
Syn2 DOWNSTREAM DAT |
||
| 3R | 4239652 | 3R_4239652_SNP [dm3] 3R_8413930_SNP [dm6] | G | T | 5.661e-5 | 1 |
INTRON
CG45263 |
||
| 2L | 12468391 | 2L_12468391_SNP [dm3] 2L_12468391_SNP [dm6] | A | C | 5.795e-5 | 1 |
INTRON
bun |
||
| 3R | 13580276 | 3R_13580276_SNP [dm3] 3R_17754554_SNP [dm6] | A | G | 6.216e-5 | 1 |
INTRON
TyrR |
||
| 3L | 11985250 | 3L_11985250_SNP [dm3] 3L_11992150_SNP [dm6] | G | A | 6.287e-5 | 1 |
UTR_3_PRIME
viaf DOWNSTREAM CG6931 |
TF binding site
mE1_TFBS_chinmo
|
|
| 2L | 5296159 | 2L_5296159_SNP [dm3] 2L_5296159_SNP [dm6] | A | G | 6.374e-5 | 1 |
INTRON
vri |
||
| 3R | 13626331 | 3R_13626331_SNP [dm3] 3R_17800609_SNP [dm6] | A | T | 6.699e-5 | 1 |
DOWNSTREAM
CG17806 INTRON CG17803 |
||
| X | 21100288 | X_21100288_DEL [dm3] X_21229261_DEL [dm6] | ACAAATGGA | A | 6.809e-5 | 1 |
INTRON
CG32521 |
||
| 2L | 7370100 | 2L_7370100_SNP [dm3] 2L_7370100_SNP [dm6] | T | C | 6.852e-5 | 1 |
SYNONYMOUS_CODING
Wnt10 INTRON CR44063 |
||
| 2L | 2757738 | 2L_2757738_DEL [dm3] 2L_2757738_DEL [dm6] | AT | A | 6.857e-5 | 1 |
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
|
|
| 3L | 11626938 | 3L_11626938_SNP [dm3] 3L_11633838_SNP [dm6] | A | C | 7.055e-5 | 1 |
UPSTREAM
CR45158 INTRON CG32091 |
||
| 3L | 16201184 | 3L_16201184_SNP [dm3] 3L_16208084_SNP [dm6] | T | G | 7.134e-5 | 1 |
INTERGENIC
|
||
| 3L | 1284818 | 3L_1284818_SNP [dm3] 3L_1284818_SNP [dm6] | T | C | 7.249e-5 | 1 |
SYNONYMOUS_CODING
CG32333 |
||
| 2L | 15368501 | 2L_15368501_SNP [dm3] 2L_15368501_SNP [dm6] | A | G | 7.350e-5 | 1 |
INTERGENIC
|
||
| 3L | 19269587 | 3L_19269587_SNP [dm3] 3L_19276487_SNP [dm6] | T | G | 7.509e-5 | 1 |
UTR_5_PRIME
CG14086 |
||
| 3L | 10072176 | 3L_10072176_SNP [dm3] 3L_10079076_SNP [dm6] | C | A | 7.704e-5 | 1 |
INTRON
dpr6 |
||
| 2R | 14323259 | 2R_14323259_SNP [dm3] 2R_18435754_SNP [dm6] | A | G | 7.909e-5 | 1 |
INTRON
CG30118 |
TF binding site
BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA
|
|
| 2L | 12468329 | 2L_12468329_SNP [dm3] 2L_12468329_SNP [dm6] | A | C | 7.931e-5 | 1 |
INTRON
bun |
||
| 2L | 12266744 | 2L_12266744_SNP [dm3] 2L_12266744_SNP [dm6] | T | G | 8.052e-5 | 1 |
INTRON
aret |
||
| 2L | 12449528 | 2L_12449528_DEL [dm3] 2L_12449528_DEL [dm6] | AT | A | 8.217e-5 | 1 |
INTRON
Oatp33Eb |
||
| 3R | 4952791 | 3R_4952791_SNP [dm3] 3R_9127069_SNP [dm6] | T | G | 8.444e-5 | 1 |
INTRON
pum |
||
| 2L | 16427771 | 2L_16427771_SNP [dm3] 2L_16427771_SNP [dm6] | C | T | 8.609e-5 | 1 |
INTRON
CG5888 |
TF binding site
mE1_TFBS_HSA mE1_TFBS_Kr
|
|
| 3L | 4094233 | 3L_4094233_SNP [dm3] 3L_4094233_SNP [dm6] | T | A | 8.616e-5 | 1 |
NON_SYNONYMOUS_CODING
CG14990 DOWNSTREAM CG14995 |
TF binding site
mE1_TFBS_cad
|
|
| 2R | 1172896 | 2R_1172896_SNP [dm3] 2R_5285391_SNP [dm6] | G | T | 8.728e-5 | 1 |
INTRON
d4 |
transposable element
FlyBase
|
|
| 3R | 18554301 | 3R_18554301_SNP [dm3] 3R_22728579_SNP [dm6] | A | G | 8.732e-5 | 1 |
INTRON
CG45049 |
TF binding site
BDTNP1_TFBS_dl
|
|
| 3L | 6248671 | 3L_6248671_SNP [dm3] 3L_6255571_SNP [dm6] | A | G | 8.811e-5 | 1 |
INTRON
Best2 |
||
| 2L | 17588412 | 2L_17588412_SNP [dm3] 2L_17588412_SNP [dm6] | G | A | 8.850e-5 | 1 |
UPSTREAM
Oli DOWNSTREAM CR44411 EXON CR44411 |
TF binding site
BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA
|
|
| 2L | 17338628 | 2L_17338628_SNP [dm3] 2L_17338628_SNP [dm6] | A | C | 8.906e-5 | 1 |
INTERGENIC
|
||
| 3R | 4831949 | 3R_4831949_SNP [dm3] 3R_9006227_SNP [dm6] | C | G | 8.946e-5 | 1 |
UPSTREAM
CG11982 & 1 other DOWNSTREAM CG11980 INTERGENIC |
TF binding site
BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_cnc mE1_TFBS_HSA
|
|
| 2L | 11634389 | 2L_11634389_SNP [dm3] 2L_11634389_SNP [dm6] | G | C | 9.006e-5 | 1 |
INTERGENIC
|
||
| 3L | 18117202 | 3L_18117202_SNP [dm3] 3L_18124102_SNP [dm6] | A | T | 9.062e-5 | 1 |
INTERGENIC
|
||
| 2L | 17584889 | 2L_17584889_SNP [dm3] 2L_17584889_SNP [dm6] | G | A | 9.228e-5 | 1 |
DOWNSTREAM
CR45111 EXON CR45112 |
||
| 3L | 17089210 | 3L_17089210_SNP [dm3] 3L_17096110_SNP [dm6] | C | G | 9.299e-5 | 1 |
INTRON
Rbp6 |
||
| 3R | 23225070 | 3R_23225070_SNP [dm3] 3R_27399348_SNP [dm6] | C | A | 9.345e-5 | 1 |
INTRON
side |
TF binding site
mE1_TFBS_chinmo mE1_TFBS_HSA
|
|
| 2L | 15368918 | 2L_15368918_SNP [dm3] 2L_15368918_SNP [dm6] | A | C | 9.366e-5 | 1 |
INTERGENIC
|
TF binding site
mE1_TFBS_cad
|
|
| 3L | 12333887 | 3L_12333887_SNP [dm3] 3L_12340787_SNP [dm6] | A | T | 9.414e-5 | 1 |
INTRON
CrzR |
||
| X | 18374083 | X_18374083_SNP [dm3] X_18480050_SNP [dm6] | T | C | 9.452e-5 | 1 |
UTR_3_PRIME
Hayan UPSTREAM CR45714 & 1 other DOWNSTREAM Hayan |
||
| 3R | 10850608 | 3R_10850608_SNP [dm3] 3R_15024886_SNP [dm6] | C | A | 9.462e-5 | 1 |
INTERGENIC
|
||
| 2R | 13544152 | 2R_13544152_INS [dm3] 2R_17656647_INS [dm6] | C | CC | 9.512e-5 | 1 |
INTRON
CCHa1-R |
||
| 2R | 12529801 | 2R_12529801_SNP [dm3] 2R_16642296_SNP [dm6] | C | T | 9.552e-5 | 1 |
INTRON
gprs |
||
| 2L | 6779868 | 2L_6779868_SNP [dm3] 2L_6779868_SNP [dm6] | A | G | 9.560e-5 | 1 |
SYNONYMOUS_CODING
nrv1 |
||
| 3R | 17585349 | 3R_17585349_SNP [dm3] 3R_21759627_SNP [dm6] | C | G | 9.565e-5 | 1 |
NON_SYNONYMOUS_CODING
CG42335 |
||
| 3R | 11517852 | 3R_11517852_SNP [dm3] 3R_15692130_SNP [dm6] | G | T | 9.765e-5 | 1 |
UPSTREAM
CG31446 INTERGENIC |
||
| 2L | 11760595 | 2L_11760595_SNP [dm3] 2L_11760595_SNP [dm6] | C | T | 9.853e-5 | 1 |
INTERGENIC
|
||
| 3R | 27626990 | 3R_27626990_SNP [dm3] 3R_31801268_SNP [dm6] | T | C | 1.006e-4 | 1 |
SYNONYMOUS_CODING
Ir100a INTRON CG42233 |
||
| 3L | 12003278 | 3L_12003278_SNP [dm3] 3L_12010178_SNP [dm6] | A | C | 1.018e-4 | 1 |
SYNONYMOUS_CODING
rols |
TF binding site
mE1_TFBS_cad mE1_TFBS_chinmo
|
|
| X | 17285326 | X_17285326_SNP [dm3] X_17391293_SNP [dm6] | G | T | 1.022e-4 | 1 |
INTERGENIC
|
||
| 2L | 17007572 | 2L_17007572_SNP [dm3] 2L_17007572_SNP [dm6] | G | A | 1.022e-4 | 1 |
INTERGENIC
|
||
| 2L | 12258226 | 2L_12258226_SNP [dm3] 2L_12258226_SNP [dm6] | T | C | 1.023e-4 | 1 |
INTRON
aret |
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