©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=8.413e-10)
Null Hypothesis is rejected (p<=0.05).
Interpretation: NOT NORMAL distribution of this phenotype
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.
No significant result.
Kruskal-Wallis test
No significant result.
No significant result.
GWAS results
1292
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 | |
|---|---|---|---|---|---|---|---|---|---|
| 3R | 20686871 | 3R_20686871_SNP [dm3] 3R_24861149_SNP [dm6] | T | C | 1.207e-6 | 1 |
UPSTREAM
CG13639 DOWNSTREAM CG13640 INTERGENIC |
||
| 2R | 8833281 | 2R_8833281_SNP [dm3] 2R_12945776_SNP [dm6] | G | C | 3.291e-6 | 1 |
INTRON
Mdr49 |
TF binding site
BDTNP1_TFBS_dl BDTNP1_TFBS_twi
|
|
| 2R | 8565305 | 2R_8565305_SNP [dm3] 2R_12677800_SNP [dm6] | A | T | 3.519e-6 | 1 |
INTRON
CG42708 |
||
| 3R | 23373731 | 3R_23373731_DEL [dm3] 3R_27548009_DEL [dm6] | TGTT | T | 4.858e-6 | 1 |
UTR_3_PRIME
Klp98A DOWNSTREAM Gr98d |
TF binding site
BDTNP1_TFBS_z mE1_TFBS_bab1 mE1_TFBS_HSA
|
|
| 3R | 20686906 | 3R_20686906_SNP [dm3] 3R_24861184_SNP [dm6] | A | T | 5.692e-6 | 1 |
UPSTREAM
CG13639 DOWNSTREAM CG13640 INTERGENIC |
||
| 2R | 8565304 | 2R_8565304_SNP [dm3] 2R_12677799_SNP [dm6] | T | C | 6.060e-6 | 1 |
INTRON
CG42708 |
||
| 2L | 3520636 | 2L_3520636_SNP [dm3] 2L_3520636_SNP [dm6] | A | T | 6.114e-6 | 1 |
NON_SYNONYMOUS_CODING
CG8851 UPSTREAM CG3213 |
TF binding site
mE1_TFBS_cad
|
|
| 2L | 6517497 | 2L_6517497_SNP [dm3] 2L_6517497_SNP [dm6] | T | G | 6.968e-6 | 1 |
INTRON
CG31637 |
||
| 3R | 20686849 | 3R_20686849_SNP [dm3] 3R_24861127_SNP [dm6] | G | T | 7.012e-6 | 1 |
UPSTREAM
CG13639 DOWNSTREAM CG13640 INTERGENIC |
||
| X | 10146042 | X_10146042_SNP [dm3] X_10252009_SNP [dm6] | A | G | 7.030e-6 | 1 |
INTRON
Hk |
||
| 2R | 12504385 | 2R_12504385_SNP [dm3] 2R_16616880_SNP [dm6] | G | C | 1.111e-5 | 1 |
INTRON
CG5065 |
||
| 2R | 7927637 | 2R_7927637_SNP [dm3] 2R_12040132_SNP [dm6] | T | C | 1.121e-5 | 1 |
SYNONYMOUS_CODING
RpIII128 |
TF binding site
mE1_TFBS_HSA mE1_TFBS_sens
|
|
| 3L | 14152533 | 3L_14152533_INS [dm3] 3L_14159433_INS [dm6] | T | TTCGT | 1.153e-5 | 1 |
INTERGENIC
|
regulatory region
REDfly_CRMs
|
|
| 3L | 6517775 | 3L_6517775_SNP [dm3] 3L_6524675_SNP [dm6] | G | T | 1.405e-5 | 1 |
INTRON
sfl |
||
| 3R | 23574522 | 3R_23574522_SNP [dm3] 3R_27748800_SNP [dm6] | C | T | 1.478e-5 | 1 |
DOWNSTREAM
Ets98B INTERGENIC |
||
| X | 18381380 | X_18381380_SNP [dm3] X_18487347_SNP [dm6] | A | T | 1.636e-5 | 1 |
UPSTREAM
psh DOWNSTREAM CG15046 INTERGENIC |
||
| X | 12421844 | X_12421844_SNP [dm3] X_12527811_SNP [dm6] | A | T | 1.714e-5 | 1 |
INTRON
CG43921 |
TF binding site
BDTNP1_TFBS_dl
|
|
| 2L | 6725654 | 2L_6725654_SNP [dm3] 2L_6725654_SNP [dm6] | G | A | 1.731e-5 | 1 |
INTRON
Liprin-alpha |
TF binding site
BDTNP1_TFBS_bcd BDTNP1_TFBS_dl
|
|
| 2R | 14237235 | 2R_14237235_SNP [dm3] 2R_18349730_SNP [dm6] | A | T | 1.988e-5 | 1 |
INTRON
sbb |
||
| 2L | 7473736 | 2L_7473736_SNP [dm3] 2L_7473736_SNP [dm6] | G | A | 2.197e-5 | 1 |
SYNONYMOUS_CODING
Ziz UPSTREAM CG6441 |
TF binding site
mE1_TFBS_HSA mE1_TFBS_inv mE1_TFBS_sens
|
|
| 2R | 8587241 | 2R_8587241_SNP [dm3] 2R_12699736_SNP [dm6] | T | C | 2.302e-5 | 1 |
UPSTREAM
wuc INTERGENIC |
||
| 2R | 9249045 | 2R_9249045_SNP [dm3] 2R_13361540_SNP [dm6] | A | T | 2.417e-5 | 1 |
DOWNSTREAM
CR45312 INTERGENIC |
||
| X | 18242156 | X_18242156_SNP [dm3] X_18348123_SNP [dm6] | C | T | 2.462e-5 | 1 |
INTRON
CG6123 |
||
| 2L | 7351643 | 2L_7351643_SNP [dm3] 2L_7351643_SNP [dm6] | G | A | 2.645e-5 | 1 |
SYNONYMOUS_CODING
Wnt6 |
TF binding site
BDTNP1_TFBS_da BDTNP1_TFBS_sna mE1_TFBS_cad mE1_TFBS_HSA
|
|
| 3L | 14152568 | 3L_14152568_SNP [dm3] 3L_14159468_SNP [dm6] | G | T | 2.820e-5 | 1 |
INTERGENIC
|
regulatory region
REDfly_CRMs
|
|
| 3L | 5360518 | 3L_5360518_SNP [dm3] 3L_5367418_SNP [dm6] | C | T | 2.858e-5 | 1 |
SYNONYMOUS_CODING
CG10635 DOWNSTREAM Membrin |
TF binding site
BDTNP1_TFBS_dl mE1_TFBS_cad mE1_TFBS_sens
|
|
| 2L | 12889803 | 2L_12889803_SNP [dm3] 2L_12889803_SNP [dm6] | T | C | 2.880e-5 | 1 |
INTERGENIC
|
||
| 2L | 12889733 | 2L_12889733_SNP [dm3] 2L_12889733_SNP [dm6] | C | T | 2.888e-5 | 1 |
INTERGENIC
|
||
| 2R | 13960390 | 2R_13960390_SNP [dm3] 2R_18072885_SNP [dm6] | A | G | 2.901e-5 | 1 |
INTRON
CG34386 |
||
| 3R | 12190084 | 3R_12190084_SNP [dm3] 3R_16364362_SNP [dm6] | T | G | 2.938e-5 | 1 |
INTRON
CG14880 |
||
| 2R | 9249027 | 2R_9249027_SNP [dm3] 2R_13361522_SNP [dm6] | G | C | 2.971e-5 | 1 |
DOWNSTREAM
CR45312 INTERGENIC |
||
| 2L | 13532019 | 2L_13532019_SNP [dm3] 2L_13532019_SNP [dm6] | G | T | 2.979e-5 | 1 |
UPSTREAM
CG33644 & 1 other DOWNSTREAM CG33643 INTRON B4 |
||
| 2R | 8565308 | 2R_8565308_SNP [dm3] 2R_12677803_SNP [dm6] | G | T | 3.016e-5 | 1 |
INTRON
CG42708 |
||
| 2R | 8565309 | 2R_8565309_SNP [dm3] 2R_12677804_SNP [dm6] | C | A | 3.016e-5 | 1 |
INTRON
CG42708 |
||
| 2L | 12889937 | 2L_12889937_SNP [dm3] 2L_12889937_SNP [dm6] | A | T | 3.080e-5 | 1 |
INTERGENIC
|
||
| 2R | 13960391 | 2R_13960391_SNP [dm3] 2R_18072886_SNP [dm6] | T | A | 3.124e-5 | 1 |
INTRON
CG34386 |
||
| 3R | 21852480 | 3R_21852480_SNP [dm3] 3R_26026758_SNP [dm6] | C | T | 3.132e-5 | 1 |
INTERGENIC
|
TF binding site
BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_gt BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_D mE1_TFBS_HSA
|
|
| 3R | 21852377 | 3R_21852377_SNP [dm3] 3R_26026655_SNP [dm6] | A | T | 3.186e-5 | 1 |
INTERGENIC
|
TF binding site
BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_D mE1_TFBS_HSA mE1_TFBS_sens
|
|
| 2L | 12889704 | 2L_12889704_SNP [dm3] 2L_12889704_SNP [dm6] | G | A | 3.253e-5 | 1 |
INTERGENIC
|
||
| 2L | 3348752 | 2L_3348752_SNP [dm3] 2L_3348752_SNP [dm6] | G | C | 3.386e-5 | 1 |
INTRON
E23 |
||
| 2R | 7927532 | 2R_7927532_SNP [dm3] 2R_12040027_SNP [dm6] | T | C | 3.407e-5 | 1 |
INTRON
RpIII128 |
TF binding site
mE1_TFBS_HSA mE1_TFBS_sens
|
|
| 2L | 12889675 | 2L_12889675_INS [dm3] 2L_12889675_INS [dm6] | A | ATGA | 3.431e-5 | 1 |
INTERGENIC
|
||
| 3L | 8986045 | 3L_8986045_SNP [dm3] 3L_8992945_SNP [dm6] | T | C | 3.494e-5 | 1 |
SYNONYMOUS_CODING
smg |
||
| 3L | 14152551 | 3L_14152551_SNP [dm3] 3L_14159451_SNP [dm6] | G | A | 3.519e-5 | 1 |
INTERGENIC
|
regulatory region
REDfly_CRMs
|
|
| 3L | 13153072 | 3L_13153072_SNP [dm3] 3L_13159972_SNP [dm6] | A | T | 3.585e-5 | 1 |
INTERGENIC
|
TF binding site
BDTNP1_TFBS_twi
|
|
| 3L | 1565633 | 3L_1565633_DEL [dm3] 3L_1565633_DEL [dm6] | GGTG | G | 3.597e-5 | 1 |
INTRON
CG7879 & 1 other |
TF binding site
mE1_TFBS_sens
|
|
| 2L | 3796598 | 2L_3796598_SNP [dm3] 2L_3796598_SNP [dm6] | C | T | 3.692e-5 | 1 |
SYNONYMOUS_CODING
CG3921 |
||
| 2L | 10963066 | 2L_10963066_SNP [dm3] 2L_10963066_SNP [dm6] | C | A | 3.763e-5 | 1 |
INTRON
dpr2 |
||
| 3R | 1784289 | 3R_1784289_SNP [dm3] 3R_5958567_SNP [dm6] | C | T | 3.810e-5 | 1 |
INTRON
CG34113 |
TF binding site
BDTNP1_TFBS_sna mE1_TFBS_HSA mE1_TFBS_sbb
|
|
| 3L | 5360539 | 3L_5360539_SNP [dm3] 3L_5367439_SNP [dm6] | C | T | 3.841e-5 | 1 |
SYNONYMOUS_CODING
CG10635 DOWNSTREAM Membrin |
TF binding site
BDTNP1_TFBS_dl mE1_TFBS_cad mE1_TFBS_sens
|
|
| 2L | 7351646 | 2L_7351646_SNP [dm3] 2L_7351646_SNP [dm6] | T | C | 4.203e-5 | 1 |
SYNONYMOUS_CODING
Wnt6 |
TF binding site
BDTNP1_TFBS_da BDTNP1_TFBS_sna mE1_TFBS_cad mE1_TFBS_HSA
|
|
| 2L | 19847480 | 2L_19847480_SNP [dm3] 2L_19847480_SNP [dm6] | A | G | 4.216e-5 | 1 |
INTRON
sick |
||
| 2L | 12889686 | 2L_12889686_SNP [dm3] 2L_12889686_SNP [dm6] | C | T | 4.224e-5 | 1 |
INTERGENIC
|
||
| 2L | 19846833 | 2L_19846833_SNP [dm3] 2L_19846833_SNP [dm6] | G | C | 4.289e-5 | 1 |
INTRON
sick |
TF binding site
BDTNP1_TFBS_twi
|
|
| 2L | 10247351 | 2L_10247351_SNP [dm3] 2L_10247351_SNP [dm6] | T | A | 4.500e-5 | 1 |
UPSTREAM
chico DOWNSTREAM bsk INTERGENIC |
TF binding site
BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA
|
|
| 2L | 3485683 | 2L_3485683_SNP [dm3] 2L_3485683_SNP [dm6] | A | T | 4.641e-5 | 1 |
INTRON
CG15414 |
||
| 2L | 12889668 | 2L_12889668_SNP [dm3] 2L_12889668_SNP [dm6] | A | C | 4.647e-5 | 1 |
INTERGENIC
|
||
| 2L | 6515063 | 2L_6515063_DEL [dm3] 2L_6515063_DEL [dm6] | TT | T | 4.687e-5 | 1 |
INTRON
CG31637 |
||
| 2L | 12889677 | 2L_12889677_SNP [dm3] 2L_12889677_SNP [dm6] | T | C | 4.799e-5 | 1 |
INTERGENIC
|
||
| 2R | 12423466 | 2R_12423466_SNP [dm3] 2R_16535961_SNP [dm6] | A | G | 4.832e-5 | 1 |
SYNONYMOUS_CODING
loopin-1 |
TF binding site
mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
|
|
| X | 18873631 | X_18873631_SNP [dm3] X_18979598_SNP [dm6] | C | A | 4.870e-5 | 1 |
INTRON
CG43759 |
TF binding site
BDTNP1_TFBS_da mE1_TFBS_HSA
|
|
| 3L | 13151846 | 3L_13151846_SNP [dm3] 3L_13158746_SNP [dm6] | C | G | 4.890e-5 | 1 |
INTERGENIC
|
||
| 2L | 5837988 | 2L_5837988_SNP [dm3] 2L_5837988_SNP [dm6] | A | G | 5.059e-5 | 1 |
INTRON
TrissinR |
||
| 2L | 12889806 | 2L_12889806_SNP [dm3] 2L_12889806_SNP [dm6] | A | T | 5.064e-5 | 1 |
INTERGENIC
|
||
| 3L | 10784216 | 3L_10784216_DEL [dm3] 3L_10791116_DEL [dm6] | TTA | T | 5.133e-5 | 1 |
INTERGENIC
|
||
| 2L | 5838004 | 2L_5838004_SNP [dm3] 2L_5838004_SNP [dm6] | G | T | 5.179e-5 | 1 |
INTRON
TrissinR |
||
| 3L | 13151827 | 3L_13151827_SNP [dm3] 3L_13158727_SNP [dm6] | T | C | 5.186e-5 | 1 |
INTERGENIC
|
||
| 3L | 5360190 | 3L_5360190_SNP [dm3] 3L_5367090_SNP [dm6] | C | T | 5.197e-5 | 1 |
SYNONYMOUS_CODING
Membrin UPSTREAM Uev1A DOWNSTREAM CG10635 |
TF binding site
BDTNP1_TFBS_da BDTNP1_TFBS_dl mE1_TFBS_cad mE1_TFBS_sens
|
|
| 2L | 3623593 | 2L_3623593_SNP [dm3] 2L_3623593_SNP [dm6] | G | A | 5.267e-5 | 1 |
SYNONYMOUS_CODING
for |
TF binding site
mE1_TFBS_HSA mE1_TFBS_sens
|
|
| X | 6813778 | X_6813778_SNP [dm3] X_6919745_SNP [dm6] | C | A | 5.317e-5 | 1 |
INTRON
CG14431 |
||
| X | 6813791 | X_6813791_SNP [dm3] X_6919758_SNP [dm6] | G | T | 5.317e-5 | 1 |
INTRON
CG14431 |
||
| X | 6813830 | X_6813830_SNP [dm3] X_6919797_SNP [dm6] | T | C | 5.317e-5 | 1 |
INTRON
CG14431 |
||
| 2R | 4479504 | 2R_4479504_SNP [dm3] 2R_8591999_SNP [dm6] | T | C | 5.515e-5 | 1 |
UPSTREAM
CG43183 DOWNSTREAM CG14752 INTERGENIC |
TF binding site
mE1_TFBS_cad mE1_TFBS_HSA
|
|
| 2L | 9751892 | 2L_9751892_SNP [dm3] 2L_9751892_SNP [dm6] | G | T | 5.563e-5 | 1 |
INTERGENIC
|
||
| 3L | 14152582 | 3L_14152582_SNP [dm3] 3L_14159482_SNP [dm6] | T | G | 5.592e-5 | 1 |
INTERGENIC
|
regulatory region
REDfly_CRMs
|
|
| 3L | 3634318 | 3L_3634318_SNP [dm3] 3L_3634318_SNP [dm6] | G | C | 5.814e-5 | 1 |
INTRON
dar1 |
TF binding site
mE1_TFBS_HSA
|
|
| X | 17149243 | X_17149243_SNP [dm3] X_17255210_SNP [dm6] | T | G | 5.928e-5 | 1 |
INTRON
f |
||
| X | 8752947 | X_8752947_SNP [dm3] X_8858914_SNP [dm6] | T | C | 5.983e-5 | 1 |
INTRON
CG12075 |
||
| 3L | 13566289 | 3L_13566289_SNP [dm3] 3L_13573189_SNP [dm6] | G | C | 6.011e-5 | 1 |
INTRON
bru-3 |
||
| 2R | 18065387 | 2R_18065387_SNP [dm3] 2R_22177882_SNP [dm6] | T | A | 6.150e-5 | 1 |
NON_SYNONYMOUS_CODING
CG11170 DOWNSTREAM CG6758 |
||
| X | 12421861 | X_12421861_SNP [dm3] X_12527828_SNP [dm6] | A | G | 6.508e-5 | 1 |
INTRON
CG43921 |
TF binding site
BDTNP1_TFBS_dl
|
|
| 3L | 8690701 | 3L_8690701_SNP [dm3] 3L_8697601_SNP [dm6] | G | T | 6.569e-5 | 1 |
INTERGENIC
|
||
| 2L | 12889670 | 2L_12889670_SNP [dm3] 2L_12889670_SNP [dm6] | A | T | 6.908e-5 | 1 |
INTERGENIC
|
||
| 3L | 5672405 | 3L_5672405_SNP [dm3] 3L_5679305_SNP [dm6] | T | C | 6.914e-5 | 1 |
INTRON
sif |
||
| 2L | 12889801 | 2L_12889801_SNP [dm3] 2L_12889801_SNP [dm6] | C | T | 6.926e-5 | 1 |
INTERGENIC
|
||
| 2R | 11854886 | 2R_11854886_SNP [dm3] 2R_15967381_SNP [dm6] | A | C | 7.080e-5 | 1 |
SYNONYMOUS_CODING
Strn-Mlck INTRON Strn-Mlck |
TF binding site
mE1_TFBS_cad mE1_TFBS_chinmo
|
|
| X | 18275607 | X_18275607_SNP [dm3] X_18381574_SNP [dm6] | T | A | 7.118e-5 | 1 |
UTR_3_PRIME
betaCOP DOWNSTREAM CG6179 |
TF binding site
mE1_TFBS_cad
|
|
| 2L | 10247341 | 2L_10247341_SNP [dm3] 2L_10247341_SNP [dm6] | A | G | 7.127e-5 | 1 |
UPSTREAM
chico DOWNSTREAM bsk INTERGENIC |
TF binding site
BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA
|
|
| 2L | 12889938 | 2L_12889938_SNP [dm3] 2L_12889938_SNP [dm6] | C | G | 7.284e-5 | 1 |
INTERGENIC
|
||
| X | 12421890 | X_12421890_SNP [dm3] X_12527857_SNP [dm6] | G | T | 7.473e-5 | 1 |
INTRON
CG43921 |
TF binding site
BDTNP1_TFBS_dl
|
|
| 2R | 8963063 | 2R_8963063_SNP [dm3] 2R_13075558_SNP [dm6] | A | C | 7.537e-5 | 1 |
INTRON
Drl-2 |
||
| 2L | 12889358 | 2L_12889358_SNP [dm3] 2L_12889358_SNP [dm6] | T | G | 7.797e-5 | 1 |
INTERGENIC
|
||
| X | 20613429 | X_20613429_SNP [dm3] X_20742402_SNP [dm6] | T | C | 7.904e-5 | 1 |
INTERGENIC
|
TF binding site
BDTNP1_TFBS_da mE1_TFBS_HSA
|
|
| 3L | 5360049 | 3L_5360049_SNP [dm3] 3L_5366949_SNP [dm6] | G | A | 8.004e-5 | 1 |
SYNONYMOUS_CODING
Membrin UPSTREAM Uev1A DOWNSTREAM CG10635 |
TF binding site
BDTNP1_TFBS_da BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_sens
|
|
| 2L | 12889882 | 2L_12889882_SNP [dm3] 2L_12889882_SNP [dm6] | A | G | 8.055e-5 | 1 |
INTERGENIC
|
||
| 2R | 16532232 | 2R_16532232_SNP [dm3] 2R_20644727_SNP [dm6] | T | C | 8.160e-5 | 1 |
UPSTREAM
CG33785 & 1 other INTRON DMAP1 |
TF binding site
BDTNP1_TFBS_dl BDTNP1_TFBS_hb mE1_TFBS_sens
|
|
| 3L | 13152927 | 3L_13152927_SNP [dm3] 3L_13159827_SNP [dm6] | C | A | 8.517e-5 | 1 |
INTERGENIC
|
TF binding site
BDTNP1_TFBS_twi
|
|
| 3L | 13152931 | 3L_13152931_SNP [dm3] 3L_13159831_SNP [dm6] | G | A | 8.517e-5 | 1 |
INTERGENIC
|
TF binding site
BDTNP1_TFBS_twi
|
|
| 3L | 8690187 | 3L_8690187_SNP [dm3] 3L_8697087_SNP [dm6] | A | T | 8.530e-5 | 1 |
INTERGENIC
|
||
| 3L | 8690214 | 3L_8690214_SNP [dm3] 3L_8697114_SNP [dm6] | A | T | 8.530e-5 | 1 |
INTERGENIC
|
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