11 variations found. Os01g0862800/LOC_Os01g64310 (no apical meristem protein; putative; expressed), ranging from 37,334,219 bp to 37,336,229 bp (including 0 kb upstream and 0 kb downstream of the gene).
| Gene ID | Annotation |
|---|---|
| LOC_Os01g64310 | no apical meristem protein, putative, expressed; RAP ID: Os01g0862800; MSU ID: LOC_Os01g64310 |
| MSU ID | RAP ID | Symbol | Name | Explanation | Recommended Gene Symbol | Recommended Gene Name |
|---|---|---|---|---|---|---|
| LOC_Os01g64310 | Os01g0862800 | ONAC059, ONAC59 | NAC domain-containing protein 059, NAC domain-containing protein 59 | NAC59 | NAC DOMAIN-CONTAINING PROTEIN 59 |
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 |
|---|---|---|---|---|---|---|---|---|---|
| vg0137334422 (J) | chr01 | 37334422 | G | A | 99.80% | 0.00% | G -> A | NA |
LOC_Os01g64310.1 Alt: A| 5_prime_UTR_variant MODIFIER(snpEff)
LOC_Os01g64310.2 Alt: A| 5_prime_UTR_variant MODIFIER(snpEff) LOC_Os01g64320.1 Alt: A| downstream_gene_variant MODIFIER(snpEff) The average chromatin accessibility score: 92.693; most accessible tissue: Minghui63 young leaf, score: 99.023 |
| vg0137335013 (J) | chr01 | 37335013 | T | C | 53.90% | 0.00% | C -> T |
mr1538 (All); LR P-value: 3.27E-66;
mr1541 (All); LR P-value: 2.53E-20; mr1804 (All); LR P-value: 3.90E-07; mr1164_2 (All); LR P-value: 8.06E-21; mr1172_2 (All); LR P-value: 1.46E-08; mr1198_2 (All); LR P-value: 6.57E-09; mr1454_2 (All); LR P-value: 3.18E-14; mr1509_2 (All); LR P-value: 1.87E-47; mr1571_2 (All); LR P-value: 3.04E-32; mr1885_2 (All); LR P-value: 4.47E-08; mr1922_2 (All); LR P-value: 1.96E-20 |
LOC_Os01g64310.1 Alt: T| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar)
LOC_Os01g64310.2 Alt: T| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar) The average chromatin accessibility score: 90.125; most accessible tissue: Minghui63 young leaf, score: 96.517 |
| vg0137335062 (J) | chr01 | 37335062 | A | AGCGCCG | 89.80% | 0.00% | A -> AGCGCCG | NA |
LOC_Os01g64310.1 Alt: AGCGCCG| disruptive_inframe_insertion MODERATE(snpEff)/inframe_variant(CooVar)
LOC_Os01g64310.2 Alt: AGCGCCG| disruptive_inframe_insertion MODERATE(snpEff)/inframe_variant(CooVar) The average chromatin accessibility score: 89.221; most accessible tissue: Minghui63 young leaf, score: 96.220 |
| vg0137335120 (J) | chr01 | 37335120 | C | T | 64.50% | 0.00% | T -> C | NA |
LOC_Os01g64320.1 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os01g64310.1 Alt: C| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g64310.2 Alt: C| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 86.584; most accessible tissue: Minghui63 young leaf, score: 95.434 |
| vg0137335160 (J) | chr01 | 37335160 | A | G | 64.20% | 0.13% | G -> A | NA |
LOC_Os01g64320.1 Alt: A| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os01g64310.1 Alt: A| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g64310.2 Alt: A| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) N Alt: DEL/silent_mutation(CooVar) The average chromatin accessibility score: 85.866; most accessible tissue: Minghui63 young leaf, score: 95.066 |
| vg0137335258 (J) | chr01 | 37335258 | C | T | 64.40% | 0.00% | T -> C | NA |
LOC_Os01g64310.2 Alt: C| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar)
The average chromatin accessibility score: 87.151; most accessible tissue: Minghui63 young leaf, score: 94.751 |
| vg0137335658 (J) | chr01 | 37335658 | C | A | 64.50% | 0.00% | A -> C | NA |
LOC_Os01g64310.1 Alt: C| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar)
The average chromatin accessibility score: 86.488; most accessible tissue: Minghui63 young leaf, score: 96.925 |
| vg0137335852 (J) | chr01 | 37335852 | G | T | 98.70% | 0.00% | G -> T | NA |
LOC_Os01g64310.1 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os01g64310.2 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g64320.1 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 85.246; most accessible tissue: Minghui63 young leaf, score: 96.706 |
| vg0137335979 (J) | chr01 | 37335979 | G | GAA | 53.90% | 0.00% | GAA -> G,GA,GAAA | NA |
LOC_Os01g64310.1 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os01g64310.2 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g64320.1 Alt: G| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g64310.1 Alt: GAAA| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g64310.2 Alt: GAAA| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g64320.1 Alt: GAAA| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g64310.1 Alt: GA| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g64310.2 Alt: GA| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g64320.1 Alt: GA| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 82.600; most accessible tissue: Minghui63 young leaf, score: 96.338 |
| vg0137336000 (J) | chr01 | 37336000 | T | C | 64.50% | 0.00% | C -> T | NA |
LOC_Os01g64310.1 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os01g64310.2 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g64320.1 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 80.926; most accessible tissue: Minghui63 young leaf, score: 96.220 |
| STR0137335063 (J) | chr01 | 37335063 | G | GCGCCGG | 95.10% | 0.00% | G -> GCGCCGG | NA |
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