83 variations found. Os04g0434800/LOC_Os04g35520 (OsAPx7 - Stromal Ascorbate Peroxidase encoding gene 5;8; expressed), ranging from 21,622,952 bp to 21,627,315 bp (including 0 kb upstream and 0 kb downstream of the gene).
| Gene ID | Annotation |
|---|---|
| LOC_Os04g35520 | OsAPx7 - Stromal Ascorbate Peroxidase encoding gene 5,8, expressed; RAP ID: Os04g0434800; MSU ID: LOC_Os04g35520 |
| MSU ID | RAP ID | Symbol | Name | Explanation | Recommended Gene Symbol | Recommended Gene Name |
|---|---|---|---|---|---|---|
| LOC_Os04g35520 | Os04g0434800 | OsAPx7, OsAPx07, OSAPX7, APx7, sAPX | ascorbate peroxidase 7, stromal Ascorbate Peroxidase | AB1148551. AI978435. BAC79362. Q7XJ02. | APX7 | ASCORBATE PEROXIDASE 7 |
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 |
|---|---|---|---|---|---|---|---|---|---|
| vg0421622958 (J) | chr04 | 21622958 | A | ATACTAG | 99.40% | 0.00% | A -> ATACTAG | NA |
LOC_Os04g35520.1 Alt: ATACTAG| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os04g35520.2 Alt: ATACTAG| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.3 Alt: ATACTAG| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.4 Alt: ATACTAG| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 97.377; most accessible tissue: Zhenshan97 panicle, score: 99.088 |
| vg0421623005 (J) | chr04 | 21623005 | G | A | 61.30% | 0.15% | G -> A | NA |
N Alt: DEL/silent_mutation(CooVar)
LOC_Os04g35520.1 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.2 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.3 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.4 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 94.359; most accessible tissue: Zhenshan97 panicle, score: 97.556 |
| vg0421623039 (J) | chr04 | 21623039 | CCT | C | 99.80% | 0.00% | CCT -> C | NA |
LOC_Os04g35520.1 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)
LOC_Os04g35520.2 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff) LOC_Os04g35520.3 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff) LOC_Os04g35520.4 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff) The average chromatin accessibility score: 93.933; most accessible tissue: Callus, score: 97.440 |
| vg0421623072 (J) | chr04 | 21623072 | C | A | 99.80% | 0.00% | C -> A | NA |
LOC_Os04g35520.1 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)
LOC_Os04g35520.2 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff) LOC_Os04g35520.3 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff) LOC_Os04g35520.4 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff) The average chromatin accessibility score: 90.840; most accessible tissue: Callus, score: 97.440 |
| vg0421623160 (J) | chr04 | 21623160 | T | C | 98.90% | 0.00% | T -> C | NA |
LOC_Os04g35520.1 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os04g35520.2 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.3 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.4 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 82.449; most accessible tissue: Minghui63 flower, score: 91.346 |
| vg0421623208 (J) | chr04 | 21623208 | T | C | 99.70% | 0.00% | T -> C | NA |
LOC_Os04g35520.2 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os04g35520.1 Alt: C| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.3 Alt: C| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.4 Alt: C| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 85.620; most accessible tissue: Minghui63 flower, score: 92.349 |
| vg0421623232 (J) | chr04 | 21623232 | A | G | 99.70% | 0.00% | A -> G | NA |
LOC_Os04g35520.2 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff)
LOC_Os04g35520.1 Alt: G| intron_variant MODIFIER(snpEff) LOC_Os04g35520.3 Alt: G| intron_variant MODIFIER(snpEff) LOC_Os04g35520.4 Alt: G| intron_variant MODIFIER(snpEff) The average chromatin accessibility score: 85.989; most accessible tissue: Minghui63 flower, score: 92.871 |
| vg0421623259 (J) | chr04 | 21623259 | A | C | 99.70% | 0.00% | A -> C | NA |
LOC_Os04g35520.2 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)
LOC_Os04g35520.1 Alt: C| intron_variant MODIFIER(snpEff) LOC_Os04g35520.3 Alt: C| intron_variant MODIFIER(snpEff) LOC_Os04g35520.4 Alt: C| intron_variant MODIFIER(snpEff) The average chromatin accessibility score: 86.301; most accessible tissue: Minghui63 flower, score: 92.987 |
| vg0421623300 (J) | chr04 | 21623300 | T | TG | 64.90% | 30.30% | T -> TG | NA |
N Alt: DEL/silent_mutation(CooVar)
LOC_Os04g35520.2 Alt: TG| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.3 Alt: TG| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.1 Alt: TG| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.4 Alt: TG| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 86.087; most accessible tissue: Minghui63 flower, score: 92.571 |
| vg0421623304 (J) | chr04 | 21623304 | GTAGTA | GGTA | 62.10% | 0.32% | GTAGTA -> GGTA,G | NA |
N Alt: DEL/silent_mutation(CooVar)
LOC_Os04g35520.2 Alt: GGTA| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.3 Alt: GGTA| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.1 Alt: GGTA| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.4 Alt: GGTA| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.2 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.3 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.1 Alt: G| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.4 Alt: G| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 86.215; most accessible tissue: Minghui63 flower, score: 92.632 |
| vg0421623403 (J) | chr04 | 21623403 | C | A | 99.90% | 0.00% | C -> A | NA |
LOC_Os04g35520.1 Alt: A| intron_variant MODIFIER(snpEff)
LOC_Os04g35520.2 Alt: A| intron_variant MODIFIER(snpEff) LOC_Os04g35520.3 Alt: A| intron_variant MODIFIER(snpEff) LOC_Os04g35520.4 Alt: A| intron_variant MODIFIER(snpEff) The average chromatin accessibility score: 85.461; most accessible tissue: Minghui63 flower, score: 92.571 |
| vg0421623404 (J) | chr04 | 21623404 | A | T | 99.90% | 0.00% | A -> T | NA |
LOC_Os04g35520.1 Alt: T| intron_variant MODIFIER(snpEff)
LOC_Os04g35520.2 Alt: T| intron_variant MODIFIER(snpEff) LOC_Os04g35520.3 Alt: T| intron_variant MODIFIER(snpEff) LOC_Os04g35520.4 Alt: T| intron_variant MODIFIER(snpEff) The average chromatin accessibility score: 85.461; most accessible tissue: Minghui63 flower, score: 92.571 |
| vg0421623737 (J) | chr04 | 21623737 | A | G | 98.90% | 0.00% | A -> G | NA |
LOC_Os04g35520.1 Alt: G| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os04g35520.2 Alt: G| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.3 Alt: G| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.4 Alt: G| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 70.941; most accessible tissue: Callus, score: 85.708 |
| vg0421623763 (J) | chr04 | 21623763 | G | A | 61.40% | 0.38% | G -> A | NA |
N Alt: DEL/silent_mutation(CooVar)
LOC_Os04g35520.1 Alt: A| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.2 Alt: A| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.3 Alt: A| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.4 Alt: A| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 67.416; most accessible tissue: Callus, score: 85.708 |
| vg0421623774 (J) | chr04 | 21623774 | G | T | 63.70% | 0.34% | G -> T |
N Alt: DEL/silent_mutation(CooVar)
LOC_Os04g35520.1 Alt: T| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.2 Alt: T| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.3 Alt: T| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.4 Alt: T| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 67.731; most accessible tissue: Callus, score: 85.708 |
|
| vg0421623775 (J) | chr04 | 21623775 | T | A | 99.80% | 0.00% | T -> A,G | NA |
LOC_Os04g35520.1 Alt: G| intron_variant MODIFIER(snpEff)
LOC_Os04g35520.2 Alt: G| intron_variant MODIFIER(snpEff) LOC_Os04g35520.3 Alt: G| intron_variant MODIFIER(snpEff) LOC_Os04g35520.4 Alt: G| intron_variant MODIFIER(snpEff) LOC_Os04g35520.1 Alt: A| intron_variant MODIFIER(snpEff) LOC_Os04g35520.2 Alt: A| intron_variant MODIFIER(snpEff) LOC_Os04g35520.3 Alt: A| intron_variant MODIFIER(snpEff) LOC_Os04g35520.4 Alt: A| intron_variant MODIFIER(snpEff) The average chromatin accessibility score: 67.731; most accessible tissue: Callus, score: 85.708 |
| vg0421623778 (J) | chr04 | 21623778 | G | A | 99.70% | 0.00% | G -> A | NA |
LOC_Os04g35520.1 Alt: A| intron_variant MODIFIER(snpEff)
LOC_Os04g35520.2 Alt: A| intron_variant MODIFIER(snpEff) LOC_Os04g35520.3 Alt: A| intron_variant MODIFIER(snpEff) LOC_Os04g35520.4 Alt: A| intron_variant MODIFIER(snpEff) The average chromatin accessibility score: 67.893; most accessible tissue: Callus, score: 85.708 |
| vg0421623781 (J) | chr04 | 21623781 | A | G | 60.70% | 0.42% | A -> G | NA |
N Alt: DEL/silent_mutation(CooVar)
LOC_Os04g35520.1 Alt: G| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.2 Alt: G| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.3 Alt: G| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.4 Alt: G| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 67.365; most accessible tissue: Callus, score: 85.708 |
| vg0421623799 (J) | chr04 | 21623799 | G | C | 99.30% | 0.00% | G -> C | NA |
LOC_Os04g35520.1 Alt: C| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os04g35520.2 Alt: C| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.3 Alt: C| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.4 Alt: C| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 62.800; most accessible tissue: Callus, score: 85.708 |
| vg0421623845 (J) | chr04 | 21623845 | A | C | 97.50% | 0.00% | A -> C | NA |
LOC_Os04g35520.1 Alt: C| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar)/benign(PolyPhen-2)
LOC_Os04g35520.2 Alt: C| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar)/benign(PolyPhen-2) LOC_Os04g35520.3 Alt: C| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar)/benign(PolyPhen-2) LOC_Os04g35520.4 Alt: C| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar)/benign(PolyPhen-2) The average chromatin accessibility score: 59.857; most accessible tissue: Minghui63 flower, score: 74.733 |
| vg0421623860 (J) | chr04 | 21623860 | T | C | 64.00% | 0.15% | T -> C |
LOC_Os04g35520.1 Alt: C| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar)
LOC_Os04g35520.2 Alt: C| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar) LOC_Os04g35520.3 Alt: C| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar) LOC_Os04g35520.4 Alt: C| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar) LOC_Os04g35520.2 Alt: DEL/frameshift_variant(CooVar) LOC_Os04g35520.1 Alt: DEL/frameshift_variant(CooVar) LOC_Os04g35520.4 Alt: DEL/frameshift_variant(CooVar) LOC_Os04g35520.3 Alt: DEL/frameshift_variant(CooVar) The average chromatin accessibility score: 60.165; most accessible tissue: Minghui63 flower, score: 73.972 |
|
| vg0421623889 (J) | chr04 | 21623889 | T | G | 98.90% | 0.00% | T -> G | NA |
LOC_Os04g35520.1 Alt: G| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar)
LOC_Os04g35520.2 Alt: G| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar) LOC_Os04g35520.3 Alt: G| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar) LOC_Os04g35520.4 Alt: G| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar) The average chromatin accessibility score: 60.128; most accessible tissue: Minghui63 flower, score: 72.615 |
| vg0421623894 (J) | chr04 | 21623894 | T | C | 99.40% | 0.00% | T -> C,G | NA |
LOC_Os04g35520.1 Alt: C| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar)/benign(PolyPhen-2)
LOC_Os04g35520.2 Alt: C| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar)/benign(PolyPhen-2) LOC_Os04g35520.3 Alt: C| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar)/benign(PolyPhen-2) LOC_Os04g35520.4 Alt: C| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar)/benign(PolyPhen-2) LOC_Os04g35520.1 Alt: G| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar)/benign(PolyPhen-2) LOC_Os04g35520.2 Alt: G| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar)/benign(PolyPhen-2) LOC_Os04g35520.3 Alt: G| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar)/benign(PolyPhen-2) LOC_Os04g35520.4 Alt: G| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar)/benign(PolyPhen-2) The average chromatin accessibility score: 60.015; most accessible tissue: Minghui63 flower, score: 72.615 |
| vg0421624081 (J) | chr04 | 21624081 | A | G | 99.50% | 0.00% | A -> G | NA |
LOC_Os04g35520.1 Alt: G| intron_variant MODIFIER(snpEff)
LOC_Os04g35520.2 Alt: G| intron_variant MODIFIER(snpEff) LOC_Os04g35520.3 Alt: G| intron_variant MODIFIER(snpEff) LOC_Os04g35520.4 Alt: G| intron_variant MODIFIER(snpEff) The average chromatin accessibility score: 55.401; most accessible tissue: Zhenshan97 young leaf, score: 72.340 |
| vg0421624248 (J) | chr04 | 21624248 | G | A | 98.90% | 0.00% | G -> A | NA |
LOC_Os04g35520.1 Alt: A| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os04g35520.2 Alt: A| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.3 Alt: A| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os04g35520.4 Alt: A| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 56.991; most accessible tissue: Callus, score: 70.014 |
Address: Room B111, National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural university, Wuhan, 430070, China
Comments or Questions? Please contact us. Our website: http://xielab.ncpgr.cn/