11 variations found. Os08g0456200/LOC_Os08g35510 (cytochrome P450; putative; expressed), ranging from 22,369,376 bp to 22,370,939 bp (including 0 kb upstream and 0 kb downstream of the gene).
| Gene ID | Annotation |
|---|---|
| LOC_Os08g35510 | cytochrome P450, putative; RAP ID: Os08g0456200; MSU ID: LOC_Os08g35510 |
The expression data is from the CREP database. And the expression value is log2-transformed. Move the mouse over the cells of the heat map to get detailed tissue information and expression values.
| Color | Explain | Details |
|---|---|---|
| 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. |
| Var ID | Chrom | Position | Primary Allele | Secondary Allele | Primary Allele Frequency | DEL Frequency | Var | GWAS Results | Effect |
|---|---|---|---|---|---|---|---|---|---|
| vg0822369392 (J) | chr08 | 22369392 | A | T | 65.00% | 0.34% | T -> A |
mr1027 (All); LR P-value: 7.08E-66;
mr1194 (All); LR P-value: 7.86E-45; mr1243 (All); LR P-value: 2.92E-31; mr1309 (All); LR P-value: 1.22E-26; mr1591 (All); LR P-value: 4.68E-46; mr1594 (All); LR P-value: 8.45E-57; mr1599 (All); LR P-value: 2.02E-53; mr1627 (All); LR P-value: 1.27E-20; mr1793 (All); LR P-value: 4.49E-28; mr1828 (All); LR P-value: 5.54E-35; mr1932 (All); LR P-value: 5.24E-34; mr1968 (All); LR P-value: 4.78E-16; mr1194_2 (All); LR P-value: 1.97E-52; mr1480_2 (All); LR P-value: 1.43E-51; mr1578_2 (All); LR P-value: 3.83E-15; mr1913_2 (All); LR P-value: 2.65E-31; mr1968_2 (All); LR P-value: 1.68E-21 |
LOC_Os08g35510.1 Alt: A| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar)
LOC_Os08g35510.1 Alt: DEL/frameshift_variant(CooVar) The average chromatin accessibility score: 93.960; most accessible tissue: Zhenshan97 panicle, score: 97.303 |
| vg0822369530 (J) | chr08 | 22369530 | G | T | 99.70% | 0.00% | G -> A,T | NA |
LOC_Os08g35510.1 Alt: T| synonymous_variant LOW(snpEff)
LOC_Os08g35500.1 Alt: T| upstream_gene_variant MODIFIER(snpEff) LOC_Os08g35510.1 Alt: A| synonymous_variant LOW(snpEff) LOC_Os08g35500.1 Alt: A| upstream_gene_variant MODIFIER(snpEff) The average chromatin accessibility score: 92.352; most accessible tissue: Zhenshan97 panicle, score: 95.204 |
| vg0822369672 (J) | chr08 | 22369672 | G | C | 99.40% | 0.00% | G -> C | NA |
LOC_Os08g35510.1 Alt: C| missense_variant MODERATE(snpEff)
LOC_Os08g35500.1 Alt: C| upstream_gene_variant MODIFIER(snpEff) The average chromatin accessibility score: 87.503; most accessible tissue: Zhenshan97 panicle, score: 91.536 |
| vg0822369713 (J) | chr08 | 22369713 | G | A | 99.70% | 0.00% | G -> A | NA |
LOC_Os08g35510.1 Alt: A| synonymous_variant LOW(snpEff)
LOC_Os08g35500.1 Alt: A| upstream_gene_variant MODIFIER(snpEff) The average chromatin accessibility score: 88.293; most accessible tissue: Minghui63 root, score: 90.280 |
| vg0822369839 (J) | chr08 | 22369839 | G | T | 65.20% | 0.28% | T -> G |
mr1194 (All); LR P-value: 4.11E-46;
mr1238 (All); LR P-value: 3.00E-26; mr1309 (All); LR P-value: 4.93E-28; mr1591 (All); LR P-value: 6.22E-46; mr1594 (All); LR P-value: 9.82E-58; mr1599 (All); LR P-value: 6.18E-51; mr1627 (All); LR P-value: 4.53E-20; mr1838 (All); LR P-value: 3.39E-20; mr1841 (All); LR P-value: 4.48E-24; mr1932 (All); LR P-value: 1.50E-35; mr1194_2 (All); LR P-value: 1.41E-53; mr1238_2 (All); LR P-value: 2.90E-28; mr1276_2 (All); LR P-value: 4.53E-19; mr1480_2 (All); LR P-value: 5.24E-50; mr1484_2 (All); LR P-value: 2.06E-25; mr1578_2 (All); LR P-value: 2.00E-15; mr1715_2 (All); LR P-value: 6.11E-16; mr1841_2 (All); LR P-value: 3.18E-32; mr1968_2 (All); LR P-value: 1.18E-21 |
LOC_Os08g35510.1 Alt: G| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar)
LOC_Os08g35510.1 Alt: DEL/frameshift_variant(CooVar) The average chromatin accessibility score: 83.673; most accessible tissue: Zhenshan97 panicle, score: 88.888 |
| vg0822369883 (J) | chr08 | 22369883 | C | A | 65.30% | 0.08% | A -> C |
mr1027 (All); LR P-value: 8.45E-66;
mr1194 (All); LR P-value: 1.62E-46; mr1309 (All); LR P-value: 6.05E-27; mr1591 (All); LR P-value: 1.05E-46; mr1594 (All); LR P-value: 6.42E-58; mr1599 (All); LR P-value: 4.53E-52; mr1627 (All); LR P-value: 1.50E-20; mr1692 (All); LR P-value: 7.11E-49; mr1841 (All); LR P-value: 4.13E-23; mr1932 (All); LR P-value: 1.24E-34; mr1968 (All); LR P-value: 2.87E-16; mr1194_2 (All); LR P-value: 1.07E-54; mr1480_2 (All); LR P-value: 9.01E-52; mr1578_2 (All); LR P-value: 3.46E-15; mr1627_2 (All); LR P-value: 3.98E-20; mr1715_2 (All); LR P-value: 5.57E-16; mr1913_2 (All); LR P-value: 6.82E-31; mr1968_2 (All); LR P-value: 3.64E-22 |
LOC_Os08g35510.1 Alt: C| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar)/probably damaging(PolyPhen-2)
LOC_Os08g35510.1 Alt: DEL/frameshift_variant(CooVar) The average chromatin accessibility score: 85.359; most accessible tissue: Zhenshan97 young leaf, score: 90.270 |
| vg0822370139 (J) | chr08 | 22370139 | C | A | 99.90% | 0.00% | C -> A | NA |
LOC_Os08g35510.1 Alt: A| missense_variant MODERATE(snpEff)
LOC_Os08g35500.1 Alt: A| upstream_gene_variant MODIFIER(snpEff) The average chromatin accessibility score: 86.897; most accessible tissue: Zhenshan97 young leaf, score: 93.550 |
| vg0822370256 (J) | chr08 | 22370256 | C | G | 65.10% | 0.19% | G -> C |
mr1027 (All); LR P-value: 7.08E-66;
mr1194 (All); LR P-value: 7.86E-45; mr1243 (All); LR P-value: 2.92E-31; mr1309 (All); LR P-value: 1.22E-26; mr1591 (All); LR P-value: 4.68E-46; mr1594 (All); LR P-value: 8.45E-57; mr1599 (All); LR P-value: 2.02E-53; mr1627 (All); LR P-value: 1.27E-20; mr1793 (All); LR P-value: 4.49E-28; mr1828 (All); LR P-value: 5.54E-35; mr1932 (All); LR P-value: 5.24E-34; mr1968 (All); LR P-value: 4.78E-16; mr1194_2 (All); LR P-value: 1.97E-52; mr1480_2 (All); LR P-value: 1.43E-51; mr1578_2 (All); LR P-value: 3.83E-15; mr1913_2 (All); LR P-value: 2.65E-31; mr1968_2 (All); LR P-value: 1.68E-21 |
LOC_Os08g35510.1 Alt: C| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar)
LOC_Os08g35510.1 Alt: DEL/frameshift_variant(CooVar) The average chromatin accessibility score: 89.168; most accessible tissue: Minghui63 flag leaf, score: 93.280 |
| vg0822370420 (J) | chr08 | 22370420 | A | G | 65.10% | 0.19% | G -> A |
mr1027 (All); LR P-value: 7.08E-66;
mr1194 (All); LR P-value: 7.86E-45; mr1243 (All); LR P-value: 2.92E-31; mr1309 (All); LR P-value: 1.22E-26; mr1591 (All); LR P-value: 4.68E-46; mr1594 (All); LR P-value: 8.45E-57; mr1599 (All); LR P-value: 2.02E-53; mr1627 (All); LR P-value: 1.27E-20; mr1793 (All); LR P-value: 4.49E-28; mr1828 (All); LR P-value: 5.54E-35; mr1932 (All); LR P-value: 5.24E-34; mr1968 (All); LR P-value: 4.78E-16; mr1194_2 (All); LR P-value: 1.97E-52; mr1480_2 (All); LR P-value: 1.43E-51; mr1578_2 (All); LR P-value: 3.83E-15; mr1913_2 (All); LR P-value: 2.65E-31; mr1968_2 (All); LR P-value: 1.68E-21 |
LOC_Os08g35510.1 Alt: A| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar)
LOC_Os08g35510.1 Alt: DEL/frameshift_variant(CooVar) The average chromatin accessibility score: 81.323; most accessible tissue: Minghui63 panicle, score: 87.605 |
| vg0822370621 (J) | chr08 | 22370621 | C | T | 65.10% | 0.08% | T -> C |
mr1027 (All); LR P-value: 2.28E-65;
mr1194 (All); LR P-value: 8.32E-44; mr1243 (All); LR P-value: 1.26E-31; mr1591 (All); LR P-value: 6.34E-46; mr1594 (All); LR P-value: 1.19E-56; mr1599 (All); LR P-value: 1.97E-53; mr1627 (All); LR P-value: 6.12E-20; mr1689 (All); LR P-value: 7.94E-21; mr1793 (All); LR P-value: 3.61E-28; mr1828 (All); LR P-value: 1.22E-34; mr1890 (All); LR P-value: 2.51E-38; mr1932 (All); LR P-value: 9.95E-34; mr1968 (All); LR P-value: 5.77E-16; mr1194_2 (All); LR P-value: 8.05E-52; mr1480_2 (All); LR P-value: 4.20E-51; mr1578_2 (All); LR P-value: 1.72E-15; mr1913_2 (All); LR P-value: 1.01E-31; mr1968_2 (All); LR P-value: 2.60E-21 |
LOC_Os08g35510.1 Alt: C| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar)/benign(PolyPhen-2)
LOC_Os08g35510.1 Alt: DEL/frameshift_variant(CooVar) The average chromatin accessibility score: 79.405; most accessible tissue: Minghui63 panicle, score: 87.238 |
| vg0822370672 (J) | chr08 | 22370672 | C | T | 87.70% | 0.00% | C -> T |
LOC_Os08g35510.1 Alt: T| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar)/benign(PolyPhen-2)
The average chromatin accessibility score: 79.456; most accessible tissue: Zhenshan97 young leaf, score: 85.364 |