Search for Variation information by Variation ID:

Please input a variation ID (e.g., vg0722097923).

Detailed information for vg0138625526:

Variant ID: vg0138625526 (JBrowse)Variation Type: INDEL
Chromosome: chr01Position: 38625526
Reference Allele: CAlternative Allele: CAACTTCTTCCAAAATAAGAAGGGGCCTGTTTGGGGACAAACAGTCCAGCTTT,CAACTTCTTCCAAAATAAGAAGGGGCCTATTTGGGGACAAACAGTCCAGCTTT,T,CAACTTCTTCCAAAATAAAAAGGGGCCTGTTTGGGGACAAACAGTCCAGCTTT,CAACTTCTTCCAAAATAAGAAGGGGCCTGTTTGGGGACAAATAGTCCAGCTTT,CAACTTCTTCCAAAATAAGAAGGGACCTGTTTGGGGACAAACAGTCCAGCTTT
Primary Allele: CSecondary Allele: CAACTTCTTCCAAAATAAGA AGGGGCCTGTTTGGGGACAA ACAGTCCAGCTTT

Inferred Ancestral Allele : T (evidence from allele frequency in Oryza rufipogon: T: 0.76, C: 0.24, others allele: 0.00, population size: 41. )

Flanking Sequence (100 bp) in Reference Genome:


GAGGATCAGTTTAACCTATACTCATATTTTAGCCTCGAATCTTGAATCGTAGAGAAATTAATTAAGATGTACTTGAATCTGTTTGGGTAGTTTTTAGCTG[C/CAACTTCTTCCAAAATAAGAAGGGGCCTGTTTGGGGACAAACAGTCCAGCTTT,CAACTTCTTCCAAAATAAGAAGGGGCCTATTTGGGGACAAACAGTCCAGCTTT,T,CAACTTCTTCCAAAATAAAAAGGGGCCTGTTTGGGGACAAACAGTCCAGCTTT,CAACTTCTTCCAAAATAAGAAGGGGCCTGTTTGGGGACAAATAGTCCAGCTTT,CAACTTCTTCCAAAATAAGAAGGGACCTGTTTGGGGACAAACAGTCCAGCTTT]
TGGATCATATTCTGAAAAGCTGCAGTTGTAAAATCTAGAAAATAAACTAGAAGTTAGAACCTAGTAAGCCTAGTTTTTTTTTTGATTCTTAGAAATTGGC

Reverse complement sequence

GCCAATTTCTAAGAATCAAAAAAAAAACTAGGCTTACTAGGTTCTAACTTCTAGTTTATTTTCTAGATTTTACAACTGCAGCTTTTCAGAATATGATCCA[G/AAAGCTGGACTGTTTGTCCCCAAACAGGCCCCTTCTTATTTTGGAAGAAGTTG,AAAGCTGGACTGTTTGTCCCCAAATAGGCCCCTTCTTATTTTGGAAGAAGTTG,A,AAAGCTGGACTGTTTGTCCCCAAACAGGCCCCTTTTTATTTTGGAAGAAGTTG,AAAGCTGGACTATTTGTCCCCAAACAGGCCCCTTCTTATTTTGGAAGAAGTTG,AAAGCTGGACTGTTTGTCCCCAAACAGGTCCCTTCTTATTTTGGAAGAAGTTG]
CAGCTAAAAACTACCCAAACAGATTCAAGTACATCTTAATTAATTTCTCTACGATTCAAGATTCGAGGCTAAAATATGAGTATAGGTTAAACTGATCCTC

Allele Frequencies:

Populations Population SizeFrequency of C(primary allele) Frequency of CAACTTCTTCCAAAATAAGA AGGGGCCTGTTTGGGGACAA ACAGTCCAGCTTT(secondary allele) Frequency of N Frequency of DEL Frequency of others Allele
All  4726 57.70% 34.30% 0.38% 1.04% CAACTTCTTCCAAAATAAGAAGGGGCCTATTTGGGGACAAACAGTCCAGCTTT: 4.66%; T: 0.91%; CAACTTCTTCCAAAATAAAAAGGGGCCTGTTTGGGGACAAACAGTCCAGCTTT: 0.72%; CAACTTCTTCCAAAATAAGAAGGGACCTGTTTGGGGACAAACAGTCCAGCTTT: 0.19%; CAACTTCTTCCAAAATAAGAAGGGGCCTGTTTGGGGACAAATAGTCCAGCTTT: 0.13%
All Indica  2759 40.20% 55.50% 0.54% 0.51% CAACTTCTTCCAAAATAAAAAGGGGCCTGTTTGGGGACAAACAGTCCAGCTTT: 1.23%; T: 1.16%; CAACTTCTTCCAAAATAAGAAGGGGCCTATTTGGGGACAAACAGTCCAGCTTT: 0.54%; CAACTTCTTCCAAAATAAGAAGGGACCTGTTTGGGGACAAACAGTCCAGCTTT: 0.33%; CAACTTCTTCCAAAATAAGAAGGGGCCTGTTTGGGGACAAATAGTCCAGCTTT: 0.04%
All Japonica  1512 99.40% 0.10% 0.07% 0.00% CAACTTCTTCCAAAATAAGAAGGGGCCTATTTGGGGACAAACAGTCCAGCTTT: 0.40%; CAACTTCTTCCAAAATAAGAAGGGGCCTGTTTGGGGACAAATAGTCCAGCTTT: 0.07%
Aus  269 7.40% 26.00% 0.00% 11.90% CAACTTCTTCCAAAATAAGAAGGGGCCTATTTGGGGACAAACAGTCCAGCTTT: 50.56%; T: 2.97%; CAACTTCTTCCAAAATAAGAAGGGGCCTGTTTGGGGACAAATAGTCCAGCTTT: 1.12%
Indica I  595 33.90% 57.50% 1.85% 0.50% CAACTTCTTCCAAAATAAAAAGGGGCCTGTTTGGGGACAAACAGTCCAGCTTT: 5.04%; T: 1.18%
Indica II  465 95.90% 3.70% 0.00% 0.00% T: 0.22%; CAACTTCTTCCAAAATAAGAAGGGGCCTATTTGGGGACAAACAGTCCAGCTTT: 0.22%
Indica III  913 10.60% 85.80% 0.00% 0.55% T: 1.64%; CAACTTCTTCCAAAATAAGAAGGGGCCTATTTGGGGACAAACAGTCCAGCTTT: 0.66%; CAACTTCTTCCAAAATAAGAAGGGACCTGTTTGGGGACAAACAGTCCAGCTTT: 0.66%; CAACTTCTTCCAAAATAAAAAGGGGCCTGTTTGGGGACAAACAGTCCAGCTTT: 0.11%
Indica Intermediate  786 46.30% 49.40% 0.51% 0.76% T: 1.15%; CAACTTCTTCCAAAATAAGAAGGGGCCTATTTGGGGACAAACAGTCCAGCTTT: 1.02%; CAACTTCTTCCAAAATAAGAAGGGACCTGTTTGGGGACAAACAGTCCAGCTTT: 0.38%; CAACTTCTTCCAAAATAAAAAGGGGCCTGTTTGGGGACAAACAGTCCAGCTTT: 0.38%; CAACTTCTTCCAAAATAAGAAGGGGCCTGTTTGGGGACAAATAGTCCAGCTTT: 0.13%
Temperate Japonica  767 99.70% 0.10% 0.00% 0.00% CAACTTCTTCCAAAATAAGAAGGGGCCTATTTGGGGACAAACAGTCCAGCTTT: 0.13%
Tropical Japonica  504 99.60% 0.00% 0.20% 0.00% CAACTTCTTCCAAAATAAGAAGGGGCCTATTTGGGGACAAACAGTCCAGCTTT: 0.20%
Japonica Intermediate  241 97.90% 0.00% 0.00% 0.00% CAACTTCTTCCAAAATAAGAAGGGGCCTATTTGGGGACAAACAGTCCAGCTTT: 1.66%; CAACTTCTTCCAAAATAAGAAGGGGCCTGTTTGGGGACAAATAGTCCAGCTTT: 0.41%
VI/Aromatic  96 29.20% 3.10% 1.04% 1.04% CAACTTCTTCCAAAATAAGAAGGGGCCTATTTGGGGACAAACAGTCCAGCTTT: 62.50%; T: 2.08%; CAACTTCTTCCAAAATAAGAAGGGGCCTGTTTGGGGACAAATAGTCCAGCTTT: 1.04%
Intermediate  90 73.30% 18.90% 1.11% 2.22% CAACTTCTTCCAAAATAAGAAGGGGCCTATTTGGGGACAAACAGTCCAGCTTT: 3.33%; T: 1.11%

Allele Effect:

Var ID Var Locus snpEff Annotation CooVar Annotation Chromatin Accessibility Score PolyPhen-2 Effect PolyPhen-2 Score SIFT Effect SIFT Score
vg0138625526 C -> T LOC_Os01g66500.1 upstream_gene_variant ; 1690.0bp to feature; MODIFIER silent_mutation Average:90.286; most accessible tissue: Callus, score: 99.377 N N N N
vg0138625526 C -> T LOC_Os01g66510.1 upstream_gene_variant ; 2220.0bp to feature; MODIFIER silent_mutation Average:90.286; most accessible tissue: Callus, score: 99.377 N N N N
vg0138625526 C -> T LOC_Os01g66500-LOC_Os01g66510 intergenic_region ; MODIFIER silent_mutation Average:90.286; most accessible tissue: Callus, score: 99.377 N N N N
vg0138625526 C -> DEL N N silent_mutation Average:90.286; most accessible tissue: Callus, score: 99.377 N N N N
vg0138625526 C -> CAACTTCTTCCAAAATAAGAAGGGGCCTGT TTGGGGACAAACAGTCCAGCTTT LOC_Os01g66500.1 upstream_gene_variant ; 1691.0bp to feature; MODIFIER silent_mutation Average:90.286; most accessible tissue: Callus, score: 99.377 N N N N
vg0138625526 C -> CAACTTCTTCCAAAATAAGAAGGGGCCTGT TTGGGGACAAACAGTCCAGCTTT LOC_Os01g66510.1 upstream_gene_variant ; 2219.0bp to feature; MODIFIER silent_mutation Average:90.286; most accessible tissue: Callus, score: 99.377 N N N N
vg0138625526 C -> CAACTTCTTCCAAAATAAGAAGGGGCCTGT TTGGGGACAAACAGTCCAGCTTT LOC_Os01g66500-LOC_Os01g66510 intergenic_region ; MODIFIER silent_mutation Average:90.286; most accessible tissue: Callus, score: 99.377 N N N N
vg0138625526 C -> CAACTTCTTCCAAAATAAAAAGGGGCCTGT TTGGGGACAAACAGTCCAGCTTT LOC_Os01g66500.1 upstream_gene_variant ; 1691.0bp to feature; MODIFIER silent_mutation Average:90.286; most accessible tissue: Callus, score: 99.377 N N N N
vg0138625526 C -> CAACTTCTTCCAAAATAAAAAGGGGCCTGT TTGGGGACAAACAGTCCAGCTTT LOC_Os01g66510.1 upstream_gene_variant ; 2219.0bp to feature; MODIFIER silent_mutation Average:90.286; most accessible tissue: Callus, score: 99.377 N N N N
vg0138625526 C -> CAACTTCTTCCAAAATAAAAAGGGGCCTGT TTGGGGACAAACAGTCCAGCTTT LOC_Os01g66500-LOC_Os01g66510 intergenic_region ; MODIFIER silent_mutation Average:90.286; most accessible tissue: Callus, score: 99.377 N N N N
vg0138625526 C -> CAACTTCTTCCAAAATAAGAAGGGGCCTAT TTGGGGACAAACAGTCCAGCTTT LOC_Os01g66500.1 upstream_gene_variant ; 1691.0bp to feature; MODIFIER silent_mutation Average:90.286; most accessible tissue: Callus, score: 99.377 N N N N
vg0138625526 C -> CAACTTCTTCCAAAATAAGAAGGGGCCTAT TTGGGGACAAACAGTCCAGCTTT LOC_Os01g66510.1 upstream_gene_variant ; 2219.0bp to feature; MODIFIER silent_mutation Average:90.286; most accessible tissue: Callus, score: 99.377 N N N N
vg0138625526 C -> CAACTTCTTCCAAAATAAGAAGGGGCCTAT TTGGGGACAAACAGTCCAGCTTT LOC_Os01g66500-LOC_Os01g66510 intergenic_region ; MODIFIER silent_mutation Average:90.286; most accessible tissue: Callus, score: 99.377 N N N N
vg0138625526 C -> CAACTTCTTCCAAAATAAGAAGGGACCTGT TTGGGGACAAACAGTCCAGCTTT LOC_Os01g66500.1 upstream_gene_variant ; 1691.0bp to feature; MODIFIER silent_mutation Average:90.286; most accessible tissue: Callus, score: 99.377 N N N N
vg0138625526 C -> CAACTTCTTCCAAAATAAGAAGGGACCTGT TTGGGGACAAACAGTCCAGCTTT LOC_Os01g66510.1 upstream_gene_variant ; 2219.0bp to feature; MODIFIER silent_mutation Average:90.286; most accessible tissue: Callus, score: 99.377 N N N N
vg0138625526 C -> CAACTTCTTCCAAAATAAGAAGGGACCTGT TTGGGGACAAACAGTCCAGCTTT LOC_Os01g66500-LOC_Os01g66510 intergenic_region ; MODIFIER silent_mutation Average:90.286; most accessible tissue: Callus, score: 99.377 N N N N
vg0138625526 C -> CAACTTCTTCCAAAATAAGAAGGGGCCTGT TTGGGGACAAATAGTCCAGCTTT LOC_Os01g66500.1 upstream_gene_variant ; 1691.0bp to feature; MODIFIER silent_mutation Average:90.286; most accessible tissue: Callus, score: 99.377 N N N N
vg0138625526 C -> CAACTTCTTCCAAAATAAGAAGGGGCCTGT TTGGGGACAAATAGTCCAGCTTT LOC_Os01g66510.1 upstream_gene_variant ; 2219.0bp to feature; MODIFIER silent_mutation Average:90.286; most accessible tissue: Callus, score: 99.377 N N N N
vg0138625526 C -> CAACTTCTTCCAAAATAAGAAGGGGCCTGT TTGGGGACAAATAGTCCAGCTTT LOC_Os01g66500-LOC_Os01g66510 intergenic_region ; MODIFIER silent_mutation Average:90.286; most accessible tissue: Callus, score: 99.377 N N N N

Effects Predicted by Deep Convolutional Neural Networks

For each variant, we constructed two sequences that contain the variation site and the sequence around it, differing only in the variation site. We then used Basenji to predict the chromatin accessibility of each tissue for the two sequences, respectively, and scored the effect of the variant by comparing the changes in chromatin accessibility corresponding to the two genotypes in the 1 kb region around the variation site. The effect score was defined as the logarithmic ratio of the predicted chromatin accessibility of the alternative genotype to the value of the reference genotype.

Var ID Ref Alt Root (RT) Young Leaf (YL) Flag Leaf (FL) Young Panicle (YP) Lemma & Palea (LP) Stamen & Pistil (SP)
vg0138625526 C CAACT* -0.27 -0.32 -0.2 -0.45 -0.19 -0.13
vg0138625526 C T -0.03 -0.02 -0.02 -0.01 -0.02 -0.02

Putative Genotype-Phenotype Associations:

Var ID LMM P-value LR P-value Trait Subpopulation Is leadSNP Publication
vg0138625526 NA 5.78E-20 Plant_height All Not Breeding signatures of rice improvement revealed by a genomic variation map from a large germplasm collection, Proc Natl Acad Sci USA, 112(39): E5411-E5419, PMID:26358652
vg0138625526 NA 7.01E-20 Plant_height Ind_All Not Breeding signatures of rice improvement revealed by a genomic variation map from a large germplasm collection, Proc Natl Acad Sci USA, 112(39): E5411-E5419, PMID:26358652
vg0138625526 NA 1.73E-06 mr1003 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 2.36E-07 mr1013 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 2.96E-07 mr1021 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 2.52E-08 mr1031 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 3.16E-06 mr1034 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 1.44E-06 mr1050 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 2.44E-07 mr1051 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 7.02E-07 mr1056 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 3.66E-08 mr1059 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 2.22E-07 mr1066 All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 1.39E-09 mr1143 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 1.18E-09 mr1163 Ind_All YES Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 1.65E-09 mr1167 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 4.22E-08 mr1192 All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 6.01E-08 mr1192 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 3.43E-07 mr1324 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 6.57E-06 mr1325 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 4.13E-06 mr1335 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 1.07E-07 mr1477 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 2.64E-06 mr1479 All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 3.62E-06 mr1479 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 5.37E-07 mr1532 All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 4.52E-15 mr1535 All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 5.00E-10 mr1535 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 4.91E-06 mr1552 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 2.50E-08 mr1574 All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 8.34E-06 mr1621 All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 7.62E-07 mr1621 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 2.59E-06 mr1677 All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 2.64E-07 mr1690 All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 3.02E-06 4.46E-07 mr1755 All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 1.80E-06 mr1755 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 4.52E-07 mr1835 All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 6.53E-08 mr1942 All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 9.77E-06 mr1942 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 1.60E-06 mr1950 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 3.51E-06 mr1975 All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 2.27E-16 mr1995 All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 1.02E-10 mr1995 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 1.55E-06 mr1060_2 All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 8.74E-06 mr1060_2 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 1.03E-06 mr1265_2 All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 2.84E-07 mr1268_2 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 1.83E-07 mr1296_2 All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 6.02E-06 mr1296_2 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 1.22E-13 mr1327_2 All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 1.28E-14 mr1327_2 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 1.23E-11 mr1352_2 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 1.29E-07 mr1360_2 All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 2.48E-07 mr1360_2 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 5.68E-10 mr1378_2 All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 2.44E-06 mr1378_2 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 2.34E-07 mr1454_2 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 7.58E-07 mr1550_2 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 3.04E-11 mr1627_2 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 7.12E-07 mr1653_2 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 2.44E-06 mr1882_2 All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 4.00E-07 mr1895_2 All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 3.03E-06 mr1899_2 All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 7.56E-06 mr1899_2 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 3.57E-06 mr1971_2 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 2.48E-08 mr1977_2 All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251
vg0138625526 NA 5.77E-06 mr1977_2 Ind_All Not Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism, Nat Genet, 46(7):714-21, PMID:24908251