17 variations found. Os03g0152300/LOC_Os03g05770 (peroxidase precursor; putative; expressed), ranging from 2,878,827 bp to 2,880,890 bp (including 0 kb upstream and 0 kb downstream of the gene).
| Gene ID | Annotation |
|---|---|
| LOC_Os03g05770 | peroxidase precursor, putative, expressed; RAP ID: Os03g0152300; MSU ID: LOC_Os03g05770 |
| MSU ID | RAP ID | Symbol | Name | Explanation | Recommended Gene Symbol | Recommended Gene Name |
|---|---|---|---|---|---|---|
| LOC_Os03g05770 | Os03g0152300 | prx36 | class III peroxidase 36 | BN000565. | _ | _ |
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 |
|---|---|---|---|---|---|---|---|---|---|
| vg0302878869 (J) | chr03 | 2878869 | CCCT | C | 99.40% | 0.00% | CCCT -> C | NA |
LOC_Os03g05770.1 Alt: C| inframe_deletion MODERATE(snpEff)/inframe_variant(CooVar)
The average chromatin accessibility score: 88.601; most accessible tissue: Zhenshan97 young leaf, score: 92.102 |
| vg0302879144 (J) | chr03 | 2879144 | C | T | 96.50% | 0.00% | C -> T | NA |
LOC_Os03g05760.1 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os03g05780.1 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os03g05770.1 Alt: T| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 81.986; most accessible tissue: Minghui63 panicle, score: 88.595 |
| vg0302879570 (J) | chr03 | 2879570 | C | T | 99.80% | 0.00% | C -> T | NA |
LOC_Os03g05770.1 Alt: T| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar)
The average chromatin accessibility score: 77.349; most accessible tissue: Zhenshan97 young leaf, score: 85.184 |
| vg0302879636 (J) | chr03 | 2879636 | C | T | 99.90% | 0.00% | C -> T | NA |
LOC_Os03g05770.1 Alt: T| synonymous_variant LOW(snpEff)
LOC_Os03g05760.1 Alt: T| downstream_gene_variant MODIFIER(snpEff) LOC_Os03g05780.1 Alt: T| downstream_gene_variant MODIFIER(snpEff) The average chromatin accessibility score: 75.762; most accessible tissue: Zhenshan97 young leaf, score: 87.584 |
| vg0302880239 (J) | chr03 | 2880239 | C | T | 99.80% | 0.00% | C -> T | NA |
LOC_Os03g05770.1 Alt: T| synonymous_variant LOW(snpEff)
LOC_Os03g05760.1 Alt: T| downstream_gene_variant MODIFIER(snpEff) LOC_Os03g05780.1 Alt: T| downstream_gene_variant MODIFIER(snpEff) The average chromatin accessibility score: 74.942; most accessible tissue: Minghui63 panicle, score: 87.951 |
| vg0302880347 (J) | chr03 | 2880347 | C | Unkown | 90.50% | 1.93% | C -> G | NA |
LOC_Os03g05770.1 Alt: G| synonymous_variant LOW(snpEff)
LOC_Os03g05760.1 Alt: G| downstream_gene_variant MODIFIER(snpEff) LOC_Os03g05780.1 Alt: G| downstream_gene_variant MODIFIER(snpEff) The average chromatin accessibility score: 69.431; most accessible tissue: Minghui63 panicle, score: 84.005 |
| vg0302880418 (J) | chr03 | 2880418 | CGAA | CGAAGAA GAAGAAG AA | 56.30% | 0.17% | CGAAGAAGAA GAAGAA -> CGAA,CGAAG AAGAAGAAGA AGAA,CGAAG AAGAA,CGAA GAA,CGAAGA AGAAGAA,C | NA |
LOC_Os03g05770.1 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os03g05760.1 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os03g05780.1 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os03g05770.1 Alt: CGAAGAA| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os03g05760.1 Alt: CGAAGAA| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os03g05780.1 Alt: CGAAGAA| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os03g05770.1 Alt: CGAAGAAGAA| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os03g05760.1 Alt: CGAAGAAGAA| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os03g05780.1 Alt: CGAAGAAGAA| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os03g05770.1 Alt: CGAAGAAGAAGAA| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os03g05780.1 Alt: CGAAGAAGAAGAA| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os03g05770.1 Alt: CGAAGAAGAAGAAGAAGAA| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os03g05780.1 Alt: CGAAGAAGAAGAAGAAGAA| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os03g05770.1 Alt: CGAA| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os03g05760.1 Alt: CGAA| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os03g05780.1 Alt: CGAA| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) N Alt: DEL/silent_mutation(CooVar) The average chromatin accessibility score: 67.678; most accessible tissue: Zhenshan97 panicle, score: 81.135 |
| vg0302880430 (J) | chr03 | 2880430 | A | C | 99.60% | 0.00% | A -> C | NA |
LOC_Os03g05770.1 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)
LOC_Os03g05760.1 Alt: C| downstream_gene_variant MODIFIER(snpEff) LOC_Os03g05780.1 Alt: C| downstream_gene_variant MODIFIER(snpEff) The average chromatin accessibility score: 69.932; most accessible tissue: Callus, score: 83.477 |
| vg0302880474 (J) | chr03 | 2880474 | C | T | 99.70% | 0.00% | C -> T | NA |
LOC_Os03g05770.1 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)
LOC_Os03g05780.1 Alt: T| downstream_gene_variant MODIFIER(snpEff) The average chromatin accessibility score: 63.485; most accessible tissue: Callus, score: 83.477 |
| vg0302880485 (J) | chr03 | 2880485 | T | C | 60.40% | 0.21% | C -> T |
LOC_Os03g05770.1 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os03g05780.1 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) N Alt: DEL/silent_mutation(CooVar) The average chromatin accessibility score: 62.736; most accessible tissue: Callus, score: 83.477 |
|
| vg0302880522 (J) | chr03 | 2880522 | G | T | 99.90% | 0.00% | G -> T | NA |
LOC_Os03g05770.1 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)
LOC_Os03g05780.1 Alt: T| downstream_gene_variant MODIFIER(snpEff) The average chromatin accessibility score: 58.023; most accessible tissue: Callus, score: 83.477 |
| vg0302880531 (J) | chr03 | 2880531 | ACTCT | ACT | 56.20% | 1.48% | ACT -> ACTCT,A | NA |
LOC_Os03g05770.1 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os03g05780.1 Alt: A| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) N Alt: DEL/silent_mutation(CooVar) LOC_Os03g05770.1 Alt: ACTCT| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os03g05780.1 Alt: ACTCT| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 57.763; most accessible tissue: Callus, score: 83.477 |
| vg0302880607 (J) | chr03 | 2880607 | T | A | 99.80% | 0.00% | T -> A | NA |
LOC_Os03g05770.1 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os03g05780.1 Alt: A| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 49.729; most accessible tissue: Callus, score: 70.114 |
| vg0302880671 (J) | chr03 | 2880671 | C | CT | 60.40% | 0.23% | CT -> C,CTT | NA |
LOC_Os03g05770.1 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os03g05780.1 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os03g05770.1 Alt: CTT| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os03g05780.1 Alt: CTT| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) N Alt: DEL/silent_mutation(CooVar) The average chromatin accessibility score: 47.660; most accessible tissue: Callus, score: 70.114 |
| vg0302880721 (J) | chr03 | 2880721 | C | T | 60.50% | 0.30% | T -> C |
LOC_Os03g05770.1 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os03g05780.1 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) N Alt: DEL/silent_mutation(CooVar) The average chromatin accessibility score: 46.568; most accessible tissue: Callus, score: 89.101 |
|
| vg0302880739 (J) | chr03 | 2880739 | T | C | 96.50% | 0.00% | T -> C | NA |
LOC_Os03g05770.1 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os03g05780.1 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 47.022; most accessible tissue: Callus, score: 89.101 |
| STR0302879138 (J) | chr03 | 2879138 | TGCGTGC GTGCGTG T | TGCGTGT GTGCGTG T | 98.60% | 0.00% | TGCGTGCGTG CGTGT -> TGCGTGTGTG CGTGT | NA |
|