75 variations found. Os01g0837900/LOC_Os01g62080 (serine%2Fthreonine-protein kinase AFC1; putative; expressed), ranging from 35,923,799 bp to 35,929,979 bp (including 0 kb upstream and 0 kb downstream of the gene).
| Gene ID | Annotation |
|---|---|
| LOC_Os01g62080 | serine/threonine-protein kinase AFC1, putative, expressed; RAP ID: Os01g0837900; MSU ID: LOC_Os01g62080 |
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 |
|---|---|---|---|---|---|---|---|---|---|
| STR0135924470 (J) | chr01 | 35924470 | AAAAAAA AA | AAAAAAA A | 64.30% | 0.00% | AAAAAAAA -> AAAAAAAAA | NA |
|
| STR0135929442 (J) | chr01 | 35929442 | TTT | TTTT | 62.50% | 0.00% | TT -> TTT,TTTT | NA |
|
| STR0135929880 (J) | chr01 | 35929880 | AAA | AAAA | 91.60% | 0.00% | AAA -> AA,AAAA | NA |
|
| vg0135923811 (J) | chr01 | 35923811 | A | T | 97.30% | 0.00% | A -> T | NA |
LOC_Os01g62080.2 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os01g62070.1 Alt: T| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.2 Alt: T| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.3 Alt: T| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62080.1 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 96.545; most accessible tissue: Minghui63 flag leaf, score: 99.226 |
| vg0135923852 (J) | chr01 | 35923852 | G | A | 98.20% | 0.00% | G -> A,T | NA |
LOC_Os01g62080.2 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os01g62070.1 Alt: T| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.2 Alt: T| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.3 Alt: T| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62080.1 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62080.2 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.1 Alt: A| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.2 Alt: A| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.3 Alt: A| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62080.1 Alt: A| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 95.276; most accessible tissue: Minghui63 flag leaf, score: 98.950 |
| vg0135923861 (J) | chr01 | 35923861 | A | T | 66.50% | 0.23% | T -> A | NA |
LOC_Os01g62080.2 Alt: A| splice_region_variant LOW(snpEff)/silent_mutation(CooVar)
LOC_Os01g62080.2 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.1 Alt: A| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.2 Alt: A| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.3 Alt: A| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62080.1 Alt: A| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) N Alt: DEL/silent_mutation(CooVar) The average chromatin accessibility score: 94.894; most accessible tissue: Minghui63 flag leaf, score: 98.787 |
| vg0135923862 (J) | chr01 | 35923862 | T | C | 66.50% | 0.23% | C -> T | NA |
LOC_Os01g62080.2 Alt: T| splice_region_variant LOW(snpEff)/silent_mutation(CooVar)
LOC_Os01g62080.2 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.1 Alt: T| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.2 Alt: T| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.3 Alt: T| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62080.1 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) N Alt: DEL/silent_mutation(CooVar) The average chromatin accessibility score: 94.897; most accessible tissue: Minghui63 flag leaf, score: 98.795 |
| vg0135923973 (J) | chr01 | 35923973 | GA | G | 97.40% | 0.00% | GA -> G | NA |
LOC_Os01g62080.1 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os01g62070.1 Alt: G| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.2 Alt: G| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.3 Alt: G| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62080.2 Alt: G| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 94.524; most accessible tissue: Minghui63 flag leaf, score: 98.322 |
| vg0135924006 (J) | chr01 | 35924006 | C | A | 98.20% | 0.00% | C -> A | NA |
LOC_Os01g62080.1 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os01g62070.1 Alt: A| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.2 Alt: A| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.3 Alt: A| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62080.2 Alt: A| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 94.170; most accessible tissue: Minghui63 flag leaf, score: 98.234 |
| vg0135924109 (J) | chr01 | 35924109 | G | T | 66.70% | 0.00% | T -> G | NA |
LOC_Os01g62080.1 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os01g62080.2 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.1 Alt: G| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.2 Alt: G| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.3 Alt: G| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 90.910; most accessible tissue: Minghui63 flag leaf, score: 97.197 |
| vg0135924190 (J) | chr01 | 35924190 | C | T | 98.20% | 0.00% | C -> T,G | NA |
LOC_Os01g62080.1 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os01g62080.2 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.1 Alt: G| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.2 Alt: G| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.3 Alt: G| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62080.1 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62080.2 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.1 Alt: T| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.2 Alt: T| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.3 Alt: T| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 89.994; most accessible tissue: Minghui63 flag leaf, score: 96.778 |
| vg0135924209 (J) | chr01 | 35924209 | T | C | 66.60% | 0.00% | C -> T | NA |
LOC_Os01g62080.1 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os01g62080.2 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.1 Alt: T| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.2 Alt: T| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.3 Alt: T| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 89.871; most accessible tissue: Minghui63 flag leaf, score: 96.749 |
| vg0135924437 (J) | chr01 | 35924437 | A | T | 66.60% | 0.19% | T -> A | NA |
LOC_Os01g62080.1 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os01g62080.2 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.1 Alt: A| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.2 Alt: A| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.3 Alt: A| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) N Alt: DEL/silent_mutation(CooVar) The average chromatin accessibility score: 72.809; most accessible tissue: Minghui63 flag leaf, score: 90.753 |
| vg0135924468 (J) | chr01 | 35924468 | T | TA | 55.00% | 15.00% | T -> TA | NA |
LOC_Os01g62080.1 Alt: TA| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os01g62080.2 Alt: TA| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.1 Alt: TA| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.2 Alt: TA| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.3 Alt: TA| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) N Alt: DEL/silent_mutation(CooVar) The average chromatin accessibility score: 69.180; most accessible tissue: Minghui63 flag leaf, score: 89.905 |
| vg0135924469 (J) | chr01 | 35924469 | TA | T | 66.30% | 0.00% | T -> TA,TAA,A | NA |
LOC_Os01g62080.1 Alt: TA| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os01g62080.2 Alt: TA| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.1 Alt: TA| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.2 Alt: TA| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.3 Alt: TA| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62080.1 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62080.2 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.1 Alt: A| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.2 Alt: A| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.3 Alt: A| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62080.1 Alt: TAA| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62080.2 Alt: TAA| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.1 Alt: TAA| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.2 Alt: TAA| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.3 Alt: TAA| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 69.180; most accessible tissue: Minghui63 flag leaf, score: 89.905 |
| vg0135924593 (J) | chr01 | 35924593 | CTT | CTTT | 98.00% | 0.00% | CTT -> CTTT,CT,C, CTTTT | NA |
LOC_Os01g62080.1 Alt: CTTTT| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os01g62080.2 Alt: CTTTT| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.1 Alt: CTTTT| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.2 Alt: CTTTT| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.3 Alt: CTTTT| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62080.1 Alt: CTTT| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62080.2 Alt: CTTT| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.1 Alt: CTTT| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.2 Alt: CTTT| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.3 Alt: CTTT| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62080.1 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62080.2 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.1 Alt: C| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.2 Alt: C| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.3 Alt: C| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62080.1 Alt: CT| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62080.2 Alt: CT| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.1 Alt: CT| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.2 Alt: CT| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.3 Alt: CT| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 61.415; most accessible tissue: Minghui63 flag leaf, score: 87.461 |
| vg0135924641 (J) | chr01 | 35924641 | G | A | 59.70% | 0.15% | A -> G |
LOC_Os01g62080.1 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os01g62080.2 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.1 Alt: G| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.2 Alt: G| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.3 Alt: G| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) N Alt: DEL/silent_mutation(CooVar) The average chromatin accessibility score: 58.369; most accessible tissue: Minghui63 flag leaf, score: 85.670 |
|
| vg0135924687 (J) | chr01 | 35924687 | T | TA | 98.20% | 0.00% | T -> TA | NA |
LOC_Os01g62080.1 Alt: TA| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os01g62080.2 Alt: TA| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.1 Alt: TA| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.2 Alt: TA| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.3 Alt: TA| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 63.844; most accessible tissue: Callus, score: 88.477 |
| vg0135924779 (J) | chr01 | 35924779 | A | C | 66.60% | 0.00% | C -> A | NA |
LOC_Os01g62080.1 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os01g62080.2 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.1 Alt: A| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.2 Alt: A| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.3 Alt: A| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 66.571; most accessible tissue: Callus, score: 88.477 |
| vg0135925002 (J) | chr01 | 35925002 | G | C | 63.80% | 0.15% | C -> G |
mr1089 (All); LR P-value: 1.45E-41;
mr1125 (All); LR P-value: 1.80E-49; mr1163 (All); LR P-value: 5.57E-21; mr1251 (All); LR P-value: 2.64E-26; mr1253 (All); LR P-value: 4.49E-19; mr1411 (All); LR P-value: 2.25E-25; mr1435 (All); LR P-value: 6.69E-38; mr1541 (All); LR P-value: 3.37E-20; mr1599 (All); LR P-value: 7.46E-52; mr1793 (All); LR P-value: 5.14E-28; mr1828 (All); LR P-value: 1.65E-34; mr1125_2 (All); LR P-value: 9.90E-64; mr1223_2 (All); LR P-value: 2.64E-36; mr1251_2 (All); LR P-value: 2.06E-36; mr1350_2 (All); LR P-value: 3.18E-24; mr1435_2 (All); LR P-value: 1.30E-36; mr1480_2 (All); LR P-value: 6.74E-50; mr1506_2 (All); LR P-value: 2.76E-09; mr1968_2 (All); LR P-value: 1.75E-21; mr1986_2 (All); LR P-value: 3.47E-12 |
LOC_Os01g62080.1 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os01g62080.2 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.1 Alt: G| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.2 Alt: G| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.3 Alt: G| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) N Alt: DEL/silent_mutation(CooVar) The average chromatin accessibility score: 67.072; most accessible tissue: Callus, score: 85.301 |
| vg0135925135 (J) | chr01 | 35925135 | T | C | 66.60% | 0.00% | C -> T | NA |
LOC_Os01g62080.1 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os01g62080.2 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.1 Alt: T| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.2 Alt: T| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.3 Alt: T| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 65.517; most accessible tissue: Minghui63 flag leaf, score: 81.811 |
| vg0135925483 (J) | chr01 | 35925483 | G | A | 99.70% | 0.00% | G -> A | NA |
LOC_Os01g62080.1 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)
LOC_Os01g62080.2 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff) LOC_Os01g62070.1 Alt: A| upstream_gene_variant MODIFIER(snpEff) LOC_Os01g62070.2 Alt: A| upstream_gene_variant MODIFIER(snpEff) LOC_Os01g62070.3 Alt: A| upstream_gene_variant MODIFIER(snpEff) The average chromatin accessibility score: 66.631; most accessible tissue: Callus, score: 85.156 |
| vg0135925517 (J) | chr01 | 35925517 | C | A | 59.60% | 0.00% | A -> C | NA |
LOC_Os01g62080.1 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os01g62080.2 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.1 Alt: C| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.2 Alt: C| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g62070.3 Alt: C| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 64.045; most accessible tissue: Minghui63 flag leaf, score: 85.500 |
| vg0135925622 (J) | chr01 | 35925622 | CT | C | 99.90% | 0.00% | CT -> C | NA |
LOC_Os01g62080.1 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)
LOC_Os01g62080.2 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff) LOC_Os01g62070.1 Alt: C| upstream_gene_variant MODIFIER(snpEff) LOC_Os01g62070.2 Alt: C| upstream_gene_variant MODIFIER(snpEff) LOC_Os01g62070.3 Alt: C| upstream_gene_variant MODIFIER(snpEff) The average chromatin accessibility score: 65.547; most accessible tissue: Minghui63 flag leaf, score: 84.791 |
| vg0135925765 (J) | chr01 | 35925765 | A | G | 66.50% | 0.19% | G -> A,T | NA |
LOC_Os01g62080.1 Alt: T| missense_variant MODERATE(snpEff)
LOC_Os01g62080.2 Alt: T| missense_variant MODERATE(snpEff) LOC_Os01g62070.1 Alt: T| upstream_gene_variant MODIFIER(snpEff) LOC_Os01g62070.2 Alt: T| upstream_gene_variant MODIFIER(snpEff) LOC_Os01g62070.3 Alt: T| upstream_gene_variant MODIFIER(snpEff) LOC_Os01g62080.1 Alt: A| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar)/benign(PolyPhen-2) LOC_Os01g62080.2 Alt: A| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar)/benign(PolyPhen-2) LOC_Os01g62080.1 Alt: DEL/frameshift_variant(CooVar) LOC_Os01g62080.2 Alt: DEL/frameshift_variant(CooVar) The average chromatin accessibility score: 72.415; most accessible tissue: Minghui63 flag leaf, score: 84.973 |
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