34 variations found. Os02g0329600/LOC_Os02g22374 (expressed protein), ranging from 13,361,033 bp to 13,364,228 bp (including 0 kb upstream and 0 kb downstream of the gene).
| Gene ID | Annotation |
|---|---|
| LOC_Os02g22374 | expressed protein; RAP ID: Os02g0329600; MSU ID: LOC_Os02g22374 |
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 |
|---|---|---|---|---|---|---|---|---|---|
| vg0213361121 (J) | chr02 | 13361121 | AC | A | 99.30% | 0.28% | AC -> A | NA |
LOC_Os02g22374.1 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os02g22374.3 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.4 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.1 Alt: A| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.3 Alt: A| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.2 Alt: A| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.2 Alt: A| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) N Alt: DEL/silent_mutation(CooVar) The average chromatin accessibility score: 72.506; most accessible tissue: Zhenshan97 flower, score: 91.021 |
| vg0213361205 (J) | chr02 | 13361205 | T | A | 62.40% | 0.06% | A -> T |
LOC_Os02g22374.1 Alt: T| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar)
LOC_Os02g22374.4 Alt: T| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar) LOC_Os02g22374.1 Alt: DEL/frameshift_variant(CooVar) LOC_Os02g22374.4 Alt: DEL/frameshift_variant(CooVar) The average chromatin accessibility score: 70.316; most accessible tissue: Zhenshan97 flower, score: 90.586 |
|
| vg0213361343 (J) | chr02 | 13361343 | G | A | 62.30% | 0.00% | A -> G |
LOC_Os02g22370.1 Alt: G| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os02g22370.3 Alt: G| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.2 Alt: G| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.2 Alt: G| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.1 Alt: G| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.3 Alt: G| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.4 Alt: G| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 66.297; most accessible tissue: Zhenshan97 flower, score: 89.728 |
|
| vg0213361435 (J) | chr02 | 13361435 | CTA | C | 99.60% | 0.00% | CTA -> C | NA |
LOC_Os02g22370.1 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os02g22370.3 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.2 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.2 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.1 Alt: C| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.3 Alt: C| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.4 Alt: C| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 66.178; most accessible tissue: Zhenshan97 flower, score: 87.963 |
| vg0213361517 (J) | chr02 | 13361517 | T | A | 61.70% | 0.19% | A -> T | NA |
LOC_Os02g22374.1 Alt: T| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar)
LOC_Os02g22374.4 Alt: T| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar) LOC_Os02g22374.1 Alt: DEL/frameshift_variant(CooVar) LOC_Os02g22374.4 Alt: DEL/frameshift_variant(CooVar) The average chromatin accessibility score: 55.231; most accessible tissue: Zhenshan97 flower, score: 81.724 |
| vg0213361533 (J) | chr02 | 13361533 | C | A | 62.10% | 0.00% | A -> C |
LOC_Os02g22374.1 Alt: C| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar)
LOC_Os02g22374.4 Alt: C| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar) The average chromatin accessibility score: 56.165; most accessible tissue: Zhenshan97 flower, score: 81.593 |
|
| vg0213361551 (J) | chr02 | 13361551 | C | CA | 99.80% | 0.00% | C -> CA | NA |
LOC_Os02g22374.1 Alt: CA| frameshift_variant HIGH(snpEff)
LOC_Os02g22374.4 Alt: CA| frameshift_variant HIGH(snpEff) LOC_Os02g22374.3 Alt: CA| 3_prime_UTR_variant MODIFIER(snpEff) LOC_Os02g22370.1 Alt: CA| downstream_gene_variant MODIFIER(snpEff) LOC_Os02g22370.3 Alt: CA| downstream_gene_variant MODIFIER(snpEff) LOC_Os02g22370.2 Alt: CA| downstream_gene_variant MODIFIER(snpEff) The average chromatin accessibility score: 55.808; most accessible tissue: Zhenshan97 flower, score: 81.187 |
| vg0213361570 (J) | chr02 | 13361570 | C | T | 97.50% | 0.00% | C -> T | NA |
LOC_Os02g22374.1 Alt: T| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar)
LOC_Os02g22374.4 Alt: T| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar) The average chromatin accessibility score: 56.076; most accessible tissue: Zhenshan97 flower, score: 81.593 |
| vg0213362227 (J) | chr02 | 13362227 | T | C | 99.90% | 0.00% | T -> C | NA |
LOC_Os02g22374.4 Alt: C| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os02g22370.1 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.3 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.2 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.2 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.1 Alt: C| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.3 Alt: C| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 41.598; most accessible tissue: Zhenshan97 flower, score: 60.301 |
| vg0213362228 (J) | chr02 | 13362228 | G | A | 99.90% | 0.00% | G -> A | NA |
LOC_Os02g22374.4 Alt: A| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os02g22370.1 Alt: A| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.3 Alt: A| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.2 Alt: A| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.2 Alt: A| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.1 Alt: A| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.3 Alt: A| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 41.598; most accessible tissue: Zhenshan97 flower, score: 60.301 |
| vg0213362377 (J) | chr02 | 13362377 | G | T | 99.90% | 0.00% | G -> T | NA |
LOC_Os02g22374.4 Alt: T| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os02g22370.1 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.3 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.2 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.2 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.1 Alt: T| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.3 Alt: T| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 44.980; most accessible tissue: Zhenshan97 flower, score: 62.374 |
| vg0213362443 (J) | chr02 | 13362443 | G | GCC | 39.50% | 3.34% | G -> GCCC,GCCCC ,GC,GCC,GC CCCC,C | NA |
LOC_Os02g22374.4 Alt: GCCCC| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os02g22370.1 Alt: GCCCC| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.3 Alt: GCCCC| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.2 Alt: GCCCC| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.2 Alt: GCCCC| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.1 Alt: GCCCC| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.3 Alt: GCCCC| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) N Alt: DEL/silent_mutation(CooVar) LOC_Os02g22374.4 Alt: GCCCCC| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.1 Alt: GCCCCC| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.3 Alt: GCCCCC| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.2 Alt: GCCCCC| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.2 Alt: GCCCCC| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.1 Alt: GCCCCC| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.3 Alt: GCCCCC| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.4 Alt: C| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.1 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.3 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.2 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.2 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.1 Alt: C| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.3 Alt: C| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.4 Alt: GC| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.1 Alt: GC| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.3 Alt: GC| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.2 Alt: GC| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.2 Alt: GC| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.1 Alt: GC| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.3 Alt: GC| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.4 Alt: GCC| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.1 Alt: GCC| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.3 Alt: GCC| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.2 Alt: GCC| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.2 Alt: GCC| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.1 Alt: GCC| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.3 Alt: GCC| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.4 Alt: GCCC| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.1 Alt: GCCC| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.3 Alt: GCCC| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.2 Alt: GCCC| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.2 Alt: GCCC| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.1 Alt: GCCC| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.3 Alt: GCCC| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 47.371; most accessible tissue: Zhenshan97 flower, score: 66.020 |
| vg0213362445 (J) | chr02 | 13362445 | CT | C | 97.50% | 0.89% | CT -> C | NA |
N Alt: DEL/silent_mutation(CooVar)
LOC_Os02g22374.4 Alt: C| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.1 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.3 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.2 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.2 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.1 Alt: C| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.3 Alt: C| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 47.293; most accessible tissue: Zhenshan97 flower, score: 65.164 |
| vg0213362446 (J) | chr02 | 13362446 | T | C | 30.80% | 7.89% | T -> C,TC,TCC | NA |
LOC_Os02g22374.4 Alt: TCC| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os02g22370.1 Alt: TCC| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.3 Alt: TCC| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.2 Alt: TCC| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.2 Alt: TCC| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.1 Alt: TCC| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.3 Alt: TCC| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.4 Alt: TC| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.1 Alt: TC| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.3 Alt: TC| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.2 Alt: TC| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.2 Alt: TC| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.1 Alt: TC| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.3 Alt: TC| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) N Alt: DEL/silent_mutation(CooVar) LOC_Os02g22374.4 Alt: C| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.1 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.3 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.2 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.2 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.1 Alt: C| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.3 Alt: C| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 47.332; most accessible tissue: Zhenshan97 flower, score: 65.164 |
| vg0213362453 (J) | chr02 | 13362453 | C | CA | 99.90% | 0.00% | C -> CA | NA |
LOC_Os02g22374.4 Alt: CA| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os02g22370.1 Alt: CA| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.3 Alt: CA| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.2 Alt: CA| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.2 Alt: CA| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.1 Alt: CA| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.3 Alt: CA| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 47.493; most accessible tissue: Zhenshan97 flower, score: 65.164 |
| vg0213362589 (J) | chr02 | 13362589 | T | TC | 99.70% | 0.00% | T -> TC | NA |
LOC_Os02g22374.4 Alt: TC| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os02g22370.1 Alt: TC| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.3 Alt: TC| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.2 Alt: TC| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.2 Alt: TC| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.1 Alt: TC| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.3 Alt: TC| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 46.765; most accessible tissue: Minghui63 flag leaf, score: 66.004 |
| vg0213362743 (J) | chr02 | 13362743 | G | A | 65.40% | 0.00% | A -> G | NA |
LOC_Os02g22374.1 Alt: G| splice_region_variant LOW(snpEff)/silent_mutation(CooVar)
LOC_Os02g22374.3 Alt: G| splice_region_variant LOW(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.1 Alt: G| 5_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.3 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.4 Alt: G| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.1 Alt: G| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.3 Alt: G| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.2 Alt: G| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.2 Alt: G| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 43.671; most accessible tissue: Zhenshan97 flower, score: 68.001 |
| vg0213362804 (J) | chr02 | 13362804 | G | A | 99.80% | 0.00% | G -> A | NA |
LOC_Os02g22374.1 Alt: A| 5_prime_UTR_variant MODIFIER(snpEff)
LOC_Os02g22374.3 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff) LOC_Os02g22380.1 Alt: A| upstream_gene_variant MODIFIER(snpEff) LOC_Os02g22374.4 Alt: A| upstream_gene_variant MODIFIER(snpEff) LOC_Os02g22370.1 Alt: A| downstream_gene_variant MODIFIER(snpEff) LOC_Os02g22370.3 Alt: A| downstream_gene_variant MODIFIER(snpEff) LOC_Os02g22370.2 Alt: A| downstream_gene_variant MODIFIER(snpEff) LOC_Os02g22374.2 Alt: A| downstream_gene_variant MODIFIER(snpEff) The average chromatin accessibility score: 43.420; most accessible tissue: Zhenshan97 flower, score: 67.236 |
| vg0213362833 (J) | chr02 | 13362833 | G | A | 65.40% | 0.00% | A -> G | NA |
LOC_Os02g22374.1 Alt: G| 5_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os02g22374.3 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22380.1 Alt: G| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.4 Alt: G| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.1 Alt: G| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.3 Alt: G| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.2 Alt: G| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.2 Alt: G| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 42.847; most accessible tissue: Zhenshan97 flower, score: 65.596 |
| vg0213362869 (J) | chr02 | 13362869 | G | T | 97.60% | 0.00% | G -> T | NA |
LOC_Os02g22374.1 Alt: T| 5_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os02g22374.3 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22380.1 Alt: T| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.4 Alt: T| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.1 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.3 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.2 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.2 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 43.446; most accessible tissue: Zhenshan97 flower, score: 65.164 |
| vg0213362930 (J) | chr02 | 13362930 | A | T | 98.40% | 0.00% | A -> T | NA |
LOC_Os02g22380.1 Alt: T| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os02g22374.4 Alt: T| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.1 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.3 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.2 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.2 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.1 Alt: T| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.3 Alt: T| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 47.219; most accessible tissue: Zhenshan97 flower, score: 66.841 |
| vg0213362965 (J) | chr02 | 13362965 | C | A | 96.70% | 0.21% | C -> A | NA |
LOC_Os02g22380.1 Alt: A| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os02g22374.4 Alt: A| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.1 Alt: A| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.3 Alt: A| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.2 Alt: A| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.2 Alt: A| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.1 Alt: A| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.3 Alt: A| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) N Alt: DEL/silent_mutation(CooVar) The average chromatin accessibility score: 51.174; most accessible tissue: Zhenshan97 flower, score: 71.071 |
| vg0213363003 (J) | chr02 | 13363003 | AT | A | 99.60% | 0.00% | AT -> A | NA |
LOC_Os02g22374.3 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os02g22374.2 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22380.1 Alt: A| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.4 Alt: A| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.1 Alt: A| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.3 Alt: A| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.2 Alt: A| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.1 Alt: A| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 50.447; most accessible tissue: Zhenshan97 flower, score: 67.623 |
| vg0213363416 (J) | chr02 | 13363416 | C | T | 99.90% | 0.00% | C -> T | NA |
LOC_Os02g22380.1 Alt: T| upstream_gene_variant MODIFIER(snpEff)
LOC_Os02g22374.4 Alt: T| upstream_gene_variant MODIFIER(snpEff) LOC_Os02g22370.1 Alt: T| downstream_gene_variant MODIFIER(snpEff) LOC_Os02g22370.2 Alt: T| downstream_gene_variant MODIFIER(snpEff) LOC_Os02g22374.1 Alt: T| intron_variant MODIFIER(snpEff) LOC_Os02g22374.3 Alt: T| intron_variant MODIFIER(snpEff) LOC_Os02g22374.2 Alt: T| intron_variant MODIFIER(snpEff) The average chromatin accessibility score: 70.887; most accessible tissue: Minghui63 flag leaf, score: 85.327 |
| vg0213363458 (J) | chr02 | 13363458 | A | C | 64.60% | 19.32% | A -> C | NA |
N Alt: DEL/silent_mutation(CooVar)
LOC_Os02g22380.1 Alt: C| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.4 Alt: C| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.1 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22370.2 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.1 Alt: C| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.3 Alt: C| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os02g22374.2 Alt: C| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 71.668; most accessible tissue: Zhenshan97 flower, score: 84.783 |
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