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Search Results:

23 variations found. LOC_Os12g23820 (expressed protein), ranging from 13,540,946 bp to 13,541,678 bp (including 0 kb upstream and 0 kb downstream of the gene).

Variation Map (with Chromatin Accessibility Map/ Non-coding Varation Scores Map) in Searched Region:

The 'big effect' variations are marked out:

ColorExplainDetails
red High impact variants defined by snpEff 'STOP_LOST', 'START_LOST', 'STOP_GAINED', 'FRAME_SHIFT' et. al., the details can be found at http://snpef f.sourceforge.net/SnpEff_manual.html#eff.
purple 'Damaging' or 'probably damaging' non-synonymous SNPs defined by PolyPhen-2 This is a qualitative result of nonsynonymous SNP annotation, where 'damaging' or 'probably damaging' means that the variant is more likely to affect protein function. Details can be found here.

Detailed Variation Information:

Var ID Chrom Position Primary Allele Secondary Allele Primary Allele Frequency DEL Frequency Var GWAS Results Effect
vg1213541017 (J) chr12 13541017 T TCCGG 79.90% 0.00% T -> TCCGG NA
The average chromatin accessibility score: 66.062; most accessible tissue: Zhenshan97 young leaf, score: 82.077
vg1213541057 (J) chr12 13541057 C T 85.20% 0.00% T -> C
mr1023 (All); LR P-value: 4.74E-60;
mr1023 (Jap_All); LR P-value: 4.75E-15;
mr1079 (All); LR P-value: 6.14E-46;
mr1079 (Jap_All); LR P-value: 7.22E-13;
mr1142 (Jap_All); LR P-value: 4.33E-14;
mr1178 (Jap_All); LR P-value: 6.35E-10;
mr1182 (All); LR P-value: 5.52E-12;
mr1489 (All); LR P-value: 4.45E-68;
mr1489 (Jap_All); LR P-value: 3.72E-14;
mr1491 (Jap_All); LR P-value: 3.63E-14;
mr1606 (All); LR P-value: 8.60E-08;
mr1606 (Jap_All); LR P-value: 2.32E-06;
mr1650 (All); LR P-value: 2.01E-11;
mr1657 (Jap_All); LR P-value: 6.39E-06;
mr1778 (Jap_All); LR P-value: 3.17E-13;
mr1013_2 (All); LR P-value: 1.22E-16;
mr1023_2 (All); LR P-value: 4.31E-72;
mr1023_2 (Jap_All); LR P-value: 3.13E-16;
mr1031_2 (All); LR P-value: 3.04E-16;
mr1079_2 (All); LR P-value: 3.56E-54;
mr1182_2 (All); LR P-value: 1.70E-12;
mr1189_2 (Jap_All); LR P-value: 4.69E-08;
mr1338_2 (Jap_All); LR P-value: 2.18E-08;
mr1471_2 (All); LR P-value: 3.32E-09;
mr1489_2 (All); LR P-value: 5.16E-77;
mr1489_2 (Jap_All); LR P-value: 5.95E-15;
mr1606_2 (All); LR P-value: 5.08E-08;
mr1607_2 (All); LR P-value: 3.93E-08;
mr1722_2 (All); LR P-value: 1.09E-12;
mr1778_2 (Jap_All); LR P-value: 1.78E-13;
mr1853_2 (All); LR P-value: 5.25E-12;
mr1879_2 (All); LR P-value: 1.35E-13;
mr1942_2 (All); LR P-value: 2.54E-10
LOC_Os12g23820.1 Alt: C| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar)
The average chromatin accessibility score: 65.461; most accessible tissue: Zhenshan97 young leaf, score: 83.831
vg1213541090 (J) chr12 13541090 A C 85.90% 0.02% A -> C NA
LOC_Os12g23820.1 Alt: C| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar)
LOC_Os12g23820.1 Alt: DEL/frameshift_variant(CooVar)
The average chromatin accessibility score: 66.749; most accessible tissue: Zhenshan97 young leaf, score: 86.542
vg1213541189 (J) chr12 13541189 G A 70.80% 0.30% A -> G
mr1002 (All); LR P-value: 4.44E-07;
mr1023 (Jap_All); LR P-value: 8.50E-15;
mr1057 (All); LR P-value: 5.39E-06;
mr1142 (Jap_All); LR P-value: 4.15E-14;
mr1178 (Jap_All); LR P-value: 3.26E-10;
mr1182 (All); LR P-value: 2.32E-12;
mr1207 (All); LR P-value: 1.38E-06;
mr1282 (All); LR P-value: 4.56E-10;
mr1308 (All); LR P-value: 3.34E-17;
mr1401 (Jap_All); LR P-value: 9.10E-07;
mr1563 (Jap_All); LR P-value: 1.01E-08;
mr1584 (Jap_All); LR P-value: 8.54E-07;
mr1606 (All); LR P-value: 5.88E-07;
mr1606 (Jap_All); LR P-value: 9.74E-07;
mr1607 (All); LR P-value: 9.18E-11;
mr1657 (Jap_All); LR P-value: 2.41E-06;
mr1730 (All); LR P-value: 7.84E-10;
mr1778 (Jap_All); LR P-value: 2.81E-13;
mr1866 (All); LR P-value: 1.15E-08;
mr1942 (All); LR P-value: 1.31E-10;
mr1159_2 (All); LR P-value: 2.42E-07;
mr1189_2 (Jap_All); LR P-value: 1.17E-08;
mr1338_2 (Jap_All); LR P-value: 1.50E-08;
mr1368_2 (Jap_All); LR P-value: 1.29E-10;
mr1607_2 (All); LR P-value: 3.47E-08;
mr1778_2 (Jap_All); LR P-value: 6.97E-14;
mr1815_2 (All); LR P-value: 1.41E-06;
mr1860_2 (Jap_All); LR P-value: 2.42E-06;
mr1910_2 (All); LR P-value: 5.78E-06;
mr1942_2 (All); LR P-value: 9.57E-15
LOC_Os12g23820.1 Alt: DEL/frameshift_variant(CooVar)
LOC_Os12g23820.1 Alt: G| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar)
The average chromatin accessibility score: 69.971; most accessible tissue: Zhenshan97 young leaf, score: 89.226
vg1213541210 (J) chr12 13541210 G C 85.90% 0.17% G -> C,T NA
LOC_Os12g23820.1 Alt: C| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar)
LOC_Os12g23820.1 Alt: DEL/frameshift_variant(CooVar)
LOC_Os12g23820.1 Alt: T| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar)
The average chromatin accessibility score: 69.533; most accessible tissue: Zhenshan97 young leaf, score: 89.666
vg1213541247 (J) chr12 13541247 CAGG C 89.40% 0.00% CAGG -> C NA
LOC_Os12g23820.1 Alt: C| inframe_deletion MODERATE(snpEff)/inframe_variant(CooVar)
The average chromatin accessibility score: 71.457; most accessible tissue: Zhenshan97 young leaf, score: 88.878
vg1213541284 (J) chr12 13541284 G A 85.20% 0.00% A -> G
mr1023 (All); LR P-value: 1.81E-61;
mr1023 (Jap_All); LR P-value: 4.75E-15;
mr1079 (All); LR P-value: 4.74E-47;
mr1079 (Jap_All); LR P-value: 7.22E-13;
mr1142 (Jap_All); LR P-value: 4.33E-14;
mr1178 (Jap_All); LR P-value: 6.35E-10;
mr1182 (All); LR P-value: 2.96E-11;
mr1489 (All); LR P-value: 2.79E-69;
mr1489 (Jap_All); LR P-value: 3.72E-14;
mr1491 (All); LR P-value: 2.21E-61;
mr1491 (Jap_All); LR P-value: 3.63E-14;
mr1606 (All); LR P-value: 8.65E-08;
mr1606 (Jap_All); LR P-value: 2.32E-06;
mr1657 (Jap_All); LR P-value: 6.39E-06;
mr1778 (Jap_All); LR P-value: 3.17E-13;
mr1013_2 (All); LR P-value: 1.41E-16;
mr1023_2 (All); LR P-value: 3.40E-73;
mr1023_2 (Jap_All); LR P-value: 3.13E-16;
mr1031_2 (All); LR P-value: 5.66E-16;
mr1079_2 (All); LR P-value: 2.56E-55;
mr1189_2 (Jap_All); LR P-value: 4.69E-08;
mr1338_2 (Jap_All); LR P-value: 2.18E-08;
mr1471_2 (All); LR P-value: 3.39E-09;
mr1489_2 (All); LR P-value: 1.32E-78;
mr1489_2 (Jap_All); LR P-value: 5.95E-15;
mr1606_2 (All); LR P-value: 1.06E-07;
mr1722_2 (All); LR P-value: 1.03E-12;
mr1778_2 (Jap_All); LR P-value: 1.78E-13;
mr1879_2 (All); LR P-value: 2.56E-13;
mr1942_2 (All); LR P-value: 6.84E-10
LOC_Os12g23820.1 Alt: G| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar)/possibly damaging(PolyPhen-2)
The average chromatin accessibility score: 73.129; most accessible tissue: Zhenshan97 young leaf, score: 89.226
vg1213541333 (J) chr12 13541333 T C 70.80% 0.23% C -> T
mr1002 (All); LR P-value: 3.61E-07;
mr1023 (Jap_All); LR P-value: 8.50E-15;
mr1142 (Jap_All); LR P-value: 4.15E-14;
mr1178 (Jap_All); LR P-value: 3.26E-10;
mr1182 (All); LR P-value: 1.54E-12;
mr1207 (All); LR P-value: 9.97E-07;
mr1282 (All); LR P-value: 2.89E-10;
mr1308 (All); LR P-value: 2.35E-17;
mr1401 (Jap_All); LR P-value: 9.10E-07;
mr1563 (Jap_All); LR P-value: 1.01E-08;
mr1584 (Jap_All); LR P-value: 8.54E-07;
mr1606 (All); LR P-value: 5.81E-07;
mr1606 (Jap_All); LR P-value: 9.74E-07;
mr1607 (All); LR P-value: 1.23E-10;
mr1657 (Jap_All); LR P-value: 2.41E-06;
mr1730 (All); LR P-value: 5.95E-10;
mr1778 (Jap_All); LR P-value: 2.81E-13;
mr1866 (All); LR P-value: 1.02E-08;
mr1942 (All); LR P-value: 1.23E-10;
mr1159_2 (All); LR P-value: 1.37E-07;
mr1189_2 (Jap_All); LR P-value: 1.17E-08;
mr1338_2 (Jap_All); LR P-value: 1.50E-08;
mr1368_2 (Jap_All); LR P-value: 1.29E-10;
mr1607_2 (All); LR P-value: 5.06E-08;
mr1778_2 (Jap_All); LR P-value: 6.97E-14;
mr1815_2 (All); LR P-value: 8.39E-07;
mr1860_2 (Jap_All); LR P-value: 2.42E-06;
mr1910_2 (All); LR P-value: 5.04E-06;
mr1942_2 (All); LR P-value: 2.32E-14
LOC_Os12g23820.1 Alt: DEL/frameshift_variant(CooVar)
LOC_Os12g23820.1 Alt: T| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar)
The average chromatin accessibility score: 73.450; most accessible tissue: Minghui63 young leaf, score: 89.871
vg1213541338 (J) chr12 13541338 C T 99.80% 0.00% C -> T NA
LOC_Os12g23820.1 Alt: T| missense_variant MODERATE(snpEff)
LOC_Os12g23810.1 Alt: T| upstream_gene_variant MODIFIER(snpEff)
The average chromatin accessibility score: 72.996; most accessible tissue: Minghui63 young leaf, score: 89.663
vg1213541342 (J) chr12 13541342 C T 97.30% 0.00% C -> T NA
LOC_Os12g23820.1 Alt: T| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar)
The average chromatin accessibility score: 72.947; most accessible tissue: Zhenshan97 young leaf, score: 89.559
vg1213541353 (J) chr12 13541353 CCCGTGA GG C 70.60% 0.28% C -> CCCGTGAGG, CCCGTGTGG NA
LOC_Os12g23820.1 Alt: DEL/frameshift_variant(CooVar)
LOC_Os12g23820.1 Alt: CCCGTGAGG| frameshift_variant HIGH(snpEff)/frameshift_variant(CooVar)
LOC_Os12g23820.1 Alt: CCCGTGTGG| frameshift_variant HIGH(snpEff)/frameshift_variant(CooVar)
The average chromatin accessibility score: 73.258; most accessible tissue: Zhenshan97 young leaf, score: 89.875
vg1213541384 (J) chr12 13541384 G T 99.90% 0.00% G -> T NA
LOC_Os12g23820.1 Alt: T| missense_variant MODERATE(snpEff)
LOC_Os12g23810.1 Alt: T| upstream_gene_variant MODIFIER(snpEff)
The average chromatin accessibility score: 73.839; most accessible tissue: Zhenshan97 young leaf, score: 90.363
vg1213541397 (J) chr12 13541397 G A 99.00% 0.00% G -> A NA
LOC_Os12g23820.1 Alt: A| missense_variant MODERATE(snpEff)
LOC_Os12g23810.1 Alt: A| upstream_gene_variant MODIFIER(snpEff)
The average chromatin accessibility score: 73.510; most accessible tissue: Zhenshan97 young leaf, score: 90.175
vg1213541410 (J) chr12 13541410 G A 70.80% 0.00% A -> G
mr1023 (Jap_All); LR P-value: 8.50E-15;
mr1142 (Jap_All); LR P-value: 4.15E-14;
mr1178 (Jap_All); LR P-value: 3.26E-10;
mr1182 (All); LR P-value: 4.88E-12;
mr1207 (All); LR P-value: 2.17E-06;
mr1282 (All); LR P-value: 7.41E-10;
mr1308 (All); LR P-value: 1.66E-17;
mr1401 (Jap_All); LR P-value: 9.10E-07;
mr1563 (Jap_All); LR P-value: 1.01E-08;
mr1584 (Jap_All); LR P-value: 8.54E-07;
mr1606 (All); LR P-value: 1.06E-06;
mr1606 (Jap_All); LR P-value: 9.74E-07;
mr1607 (All); LR P-value: 2.35E-10;
mr1657 (Jap_All); LR P-value: 2.41E-06;
mr1730 (All); LR P-value: 6.20E-10;
mr1778 (Jap_All); LR P-value: 2.81E-13;
mr1866 (All); LR P-value: 1.14E-08;
mr1942 (All); LR P-value: 3.23E-10;
mr1159_2 (All); LR P-value: 9.44E-08;
mr1189_2 (Jap_All); LR P-value: 1.17E-08;
mr1338_2 (Jap_All); LR P-value: 1.50E-08;
mr1368_2 (Jap_All); LR P-value: 1.29E-10;
mr1607_2 (All); LR P-value: 8.26E-08;
mr1778_2 (Jap_All); LR P-value: 6.97E-14;
mr1815_2 (All); LR P-value: 9.48E-07;
mr1860_2 (Jap_All); LR P-value: 2.42E-06;
mr1910_2 (All); LR P-value: 4.15E-06;
mr1942_2 (All); LR P-value: 2.06E-14
LOC_Os12g23820.1 Alt: G| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar)
The average chromatin accessibility score: 73.901; most accessible tissue: Zhenshan97 young leaf, score: 90.270
vg1213541492 (J) chr12 13541492 GTCAGTG GC G 70.60% 0.00% G -> GTCAGTGGC NA
The average chromatin accessibility score: 75.180; most accessible tissue: Minghui63 young leaf, score: 88.874
vg1213541511 (J) chr12 13541511 A T 67.40% 0.17% A -> T
Spikelet_length (Ind_All); LR P-value: 5.28E-07;
mr1050 (Ind_All); LR P-value: 3.05E-06;
mr1308 (Ind_All); LR P-value: 5.35E-07;
mr1531 (All); LR P-value: 1.65E-13;
mr1707 (All); LR P-value: 9.59E-08;
mr1728 (All); LR P-value: 7.07E-07;
mr1860 (All); LR P-value: 5.09E-09;
mr1050_2 (All); LR P-value: 5.14E-10;
mr1050_2 (Ind_All); LR P-value: 3.07E-07;
mr1136_2 (Ind_All); LR P-value: 3.95E-06;
mr1272_2 (All); LR P-value: 4.51E-07;
mr1308_2 (Ind_All); LR P-value: 3.45E-06;
mr1361_2 (Ind_All); LR P-value: 6.32E-07;
mr1707_2 (All); LR P-value: 2.22E-08;
mr1728_2 (All); LR P-value: 3.27E-11;
mr1860_2 (All); LR P-value: 1.05E-09
LOC_Os12g23820.1 Alt: DEL/frameshift_variant(CooVar)
LOC_Os12g23820.1 Alt: T| stop_gained HIGH(snpEff)/stop_gained(CooVar)
The average chromatin accessibility score: 75.523; most accessible tissue: Minghui63 young leaf, score: 88.992
vg1213541513 (J) chr12 13541513 G A 99.90% 0.00% G -> A NA
LOC_Os12g23820.1 Alt: A| synonymous_variant LOW(snpEff)
LOC_Os12g23810.1 Alt: A| upstream_gene_variant MODIFIER(snpEff)
The average chromatin accessibility score: 75.594; most accessible tissue: Minghui63 young leaf, score: 89.109
vg1213541533 (J) chr12 13541533 G A 71.00% 0.02% A -> G
mr1002 (All); LR P-value: 4.44E-07;
mr1023 (Jap_All); LR P-value: 8.50E-15;
mr1057 (All); LR P-value: 5.39E-06;
mr1142 (Jap_All); LR P-value: 4.15E-14;
mr1178 (Jap_All); LR P-value: 3.26E-10;
mr1182 (All); LR P-value: 2.32E-12;
mr1207 (All); LR P-value: 1.38E-06;
mr1282 (All); LR P-value: 4.56E-10;
mr1308 (All); LR P-value: 3.34E-17;
mr1401 (Jap_All); LR P-value: 9.10E-07;
mr1563 (Jap_All); LR P-value: 1.01E-08;
mr1584 (Jap_All); LR P-value: 8.54E-07;
mr1606 (All); LR P-value: 5.88E-07;
mr1606 (Jap_All); LR P-value: 9.74E-07;
mr1607 (All); LR P-value: 9.18E-11;
mr1657 (Jap_All); LR P-value: 2.41E-06;
mr1730 (All); LR P-value: 7.84E-10;
mr1778 (Jap_All); LR P-value: 2.81E-13;
mr1866 (All); LR P-value: 1.15E-08;
mr1942 (All); LR P-value: 1.31E-10;
mr1159_2 (All); LR P-value: 2.42E-07;
mr1189_2 (Jap_All); LR P-value: 1.17E-08;
mr1338_2 (Jap_All); LR P-value: 1.50E-08;
mr1368_2 (Jap_All); LR P-value: 1.29E-10;
mr1607_2 (All); LR P-value: 3.47E-08;
mr1778_2 (Jap_All); LR P-value: 6.97E-14;
mr1815_2 (All); LR P-value: 1.41E-06;
mr1860_2 (Jap_All); LR P-value: 2.42E-06;
mr1910_2 (All); LR P-value: 5.78E-06;
mr1942_2 (All); LR P-value: 9.57E-15
LOC_Os12g23820.1 Alt: DEL/frameshift_variant(CooVar)
LOC_Os12g23820.1 Alt: G| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar)
The average chromatin accessibility score: 75.054; most accessible tissue: Minghui63 young leaf, score: 88.502
vg1213541557 (J) chr12 13541557 C T 67.40% 0.17% C -> T
Spikelet_length (Ind_All); LR P-value: 5.28E-07;
mr1050 (Ind_All); LR P-value: 3.05E-06;
mr1308 (Ind_All); LR P-value: 5.35E-07;
mr1531 (All); LR P-value: 1.65E-13;
mr1707 (All); LR P-value: 9.59E-08;
mr1728 (All); LR P-value: 7.07E-07;
mr1860 (All); LR P-value: 5.09E-09;
mr1050_2 (All); LR P-value: 5.14E-10;
mr1050_2 (Ind_All); LR P-value: 3.07E-07;
mr1136_2 (Ind_All); LR P-value: 3.95E-06;
mr1272_2 (All); LR P-value: 4.51E-07;
mr1308_2 (Ind_All); LR P-value: 3.45E-06;
mr1361_2 (Ind_All); LR P-value: 6.32E-07;
mr1707_2 (All); LR P-value: 2.22E-08;
mr1728_2 (All); LR P-value: 3.27E-11;
mr1860_2 (All); LR P-value: 1.05E-09
LOC_Os12g23820.1 Alt: DEL/frameshift_variant(CooVar)
LOC_Os12g23820.1 Alt: T| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar)
The average chromatin accessibility score: 72.749; most accessible tissue: Minghui63 young leaf, score: 86.891
vg1213541573 (J) chr12 13541573 A G 70.90% 0.28% G -> A
mr1002 (All); LR P-value: 3.03E-07;
mr1023 (Jap_All); LR P-value: 8.50E-15;
mr1057 (All); LR P-value: 2.57E-06;
mr1142 (Jap_All); LR P-value: 4.15E-14;
mr1178 (Jap_All); LR P-value: 3.26E-10;
mr1182 (All); LR P-value: 2.63E-12;
mr1207 (All); LR P-value: 8.24E-07;
mr1401 (Jap_All); LR P-value: 9.10E-07;
mr1563 (Jap_All); LR P-value: 1.01E-08;
mr1584 (Jap_All); LR P-value: 8.54E-07;
mr1606 (All); LR P-value: 4.24E-07;
mr1606 (Jap_All); LR P-value: 9.74E-07;
mr1607 (All); LR P-value: 6.14E-11;
mr1657 (Jap_All); LR P-value: 2.41E-06;
mr1730 (All); LR P-value: 9.34E-10;
mr1778 (Jap_All); LR P-value: 2.81E-13;
mr1866 (All); LR P-value: 6.91E-09;
mr1942 (All); LR P-value: 1.42E-10;
mr1159_2 (All); LR P-value: 3.50E-07;
mr1189_2 (Jap_All); LR P-value: 1.17E-08;
mr1338_2 (Jap_All); LR P-value: 1.50E-08;
mr1368_2 (Jap_All); LR P-value: 1.29E-10;
mr1607_2 (All); LR P-value: 8.97E-09;
mr1778_2 (Jap_All); LR P-value: 6.97E-14;
mr1815_2 (All); LR P-value: 1.69E-06;
mr1860_2 (Jap_All); LR P-value: 2.42E-06;
mr1942_2 (All); LR P-value: 1.34E-14
LOC_Os12g23820.1 Alt: DEL/frameshift_variant(CooVar)
LOC_Os12g23820.1 Alt: A| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar)
The average chromatin accessibility score: 71.886; most accessible tissue: Minghui63 young leaf, score: 85.236
vg1213541626 (J) chr12 13541626 G A 99.50% 0.00% G -> A NA
LOC_Os12g23820.1 Alt: A| missense_variant MODERATE(snpEff)
LOC_Os12g23810.1 Alt: A| upstream_gene_variant MODIFIER(snpEff)
The average chromatin accessibility score: 68.790; most accessible tissue: Minghui63 young leaf, score: 83.666
vg1213541633 (J) chr12 13541633 G T 99.80% 0.00% G -> T NA
LOC_Os12g23820.1 Alt: T| missense_variant MODERATE(snpEff)
LOC_Os12g23810.1 Alt: T| upstream_gene_variant MODIFIER(snpEff)
The average chromatin accessibility score: 67.818; most accessible tissue: Minghui63 young leaf, score: 82.642
vg1213541660 (J) chr12 13541660 C T 85.20% 0.00% T -> C
mr1023 (All); LR P-value: 1.88E-60;
mr1023 (Jap_All); LR P-value: 4.75E-15;
mr1079 (Jap_All); LR P-value: 7.22E-13;
mr1142 (Jap_All); LR P-value: 4.33E-14;
mr1178 (Jap_All); LR P-value: 6.35E-10;
mr1489 (All); LR P-value: 3.06E-69;
mr1489 (Jap_All); LR P-value: 3.72E-14;
mr1491 (Jap_All); LR P-value: 3.63E-14;
mr1606 (All); LR P-value: 5.86E-08;
mr1606 (Jap_All); LR P-value: 2.32E-06;
mr1657 (Jap_All); LR P-value: 6.39E-06;
mr1778 (Jap_All); LR P-value: 3.17E-13;
mr1013_2 (All); LR P-value: 3.65E-16;
mr1023_2 (All); LR P-value: 3.41E-72;
mr1023_2 (Jap_All); LR P-value: 3.13E-16;
mr1031_2 (All); LR P-value: 5.07E-15;
mr1079_2 (All); LR P-value: 7.63E-54;
mr1189_2 (Jap_All); LR P-value: 4.69E-08;
mr1338_2 (Jap_All); LR P-value: 2.18E-08;
mr1471_2 (All); LR P-value: 8.89E-09;
mr1489_2 (All); LR P-value: 1.29E-78;
mr1489_2 (Jap_All); LR P-value: 5.95E-15;
mr1606_2 (All); LR P-value: 9.68E-08;
mr1722_2 (All); LR P-value: 1.51E-12;
mr1778_2 (Jap_All); LR P-value: 1.78E-13;
mr1879_2 (All); LR P-value: 5.05E-13
LOC_Os12g23820.1 Alt: C| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar)
The average chromatin accessibility score: 61.156; most accessible tissue: Minghui63 young leaf, score: 78.821