358 variations found. Os11g0232100/LOC_Os11g12530 (receptor-like protein kinase 5 precursor; putative; expressed), ranging from 7,011,434 bp to 7,018,706 bp (including 0 kb upstream and 0 kb downstream of the gene).
| Gene ID | Annotation |
|---|---|
| LOC_Os11g12530 | receptor-like protein kinase 5 precursor, putative, expressed; RAP ID: Os11g0232100; MSU ID: LOC_Os11g12530 |
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 |
|---|---|---|---|---|---|---|---|---|---|
| STR1107011451 (J) | chr11 | 7011451 | TTTTT | TTTT | 55.70% | 0.00% | TTTTTT -> TTTT,TTTTT | NA |
|
| STR1107011999 (J) | chr11 | 7011999 | TCCCTGT CCCTG | TCCCTGT CC | 90.10% | 0.00% | TCCCTGTCCC TG -> TCCCTGTCC | NA |
|
| STR1107012014 (J) | chr11 | 7012014 | GCCG | G | 91.20% | 0.00% | GCCG -> G | NA |
|
| STR1107015314 (J) | chr11 | 7015314 | AATTAAT TAA | AATTAAT TAATT | 73.40% | 0.00% | AATTAATTAA -> AATTAATTAA TT | NA |
|
| STR1107017819 (J) | chr11 | 7017819 | AAA | AAAA | 60.60% | 0.00% | AAA -> AAAA | NA |
|
| STR1107017884 (J) | chr11 | 7017884 | CATGCAT GCAT | CATGCAT GCATGCA T | 94.10% | 0.00% | CATGCATGCA T -> CATGCATGCA TGCAT | NA |
|
| STR1107017898 (J) | chr11 | 7017898 | TT | TTTTTT | 72.00% | 0.00% | TT -> TTTTT,TTTT TT | NA |
|
| vg1107011449 (J) | chr11 | 7011449 | CCT | C | 37.60% | 49.20% | CCT -> C | NA |
N Alt: DEL/silent_mutation(CooVar)
LOC_Os11g12530.1 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os11g12520.1 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 56.963; most accessible tissue: Zhenshan97 root, score: 87.558 |
| vg1107011450 (J) | chr11 | 7011450 | C | CT | 60.00% | 4.82% | CT -> C | NA |
N Alt: DEL/silent_mutation(CooVar)
LOC_Os11g12530.1 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os11g12520.1 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 55.826; most accessible tissue: Minghui63 root, score: 87.364 |
| vg1107011471 (J) | chr11 | 7011471 | G | A | 93.00% | 4.99% | G -> A | NA |
LOC_Os11g12530.1 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os11g12520.1 Alt: A| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) N Alt: DEL/silent_mutation(CooVar) The average chromatin accessibility score: 57.113; most accessible tissue: Minghui63 root, score: 87.892 |
| vg1107011492 (J) | chr11 | 7011492 | C | T | 92.90% | 5.56% | C -> T | NA |
LOC_Os11g12530.1 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os11g12520.1 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) N Alt: DEL/silent_mutation(CooVar) The average chromatin accessibility score: 57.756; most accessible tissue: Minghui63 root, score: 88.381 |
| vg1107011614 (J) | chr11 | 7011614 | A | C | 65.30% | 0.00% | A -> C | NA |
LOC_Os11g12530.1 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os11g12520.1 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 65.619; most accessible tissue: Minghui63 root, score: 90.598 |
| vg1107011658 (J) | chr11 | 7011658 | A | T | 93.00% | 0.00% | A -> T | NA |
LOC_Os11g12530.1 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os11g12520.1 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 67.968; most accessible tissue: Minghui63 root, score: 90.465 |
| vg1107011686 (J) | chr11 | 7011686 | C | T | 93.00% | 0.00% | C -> T | NA |
LOC_Os11g12530.1 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os11g12520.1 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 71.893; most accessible tissue: Minghui63 root, score: 90.815 |
| vg1107011695 (J) | chr11 | 7011695 | A | T | 70.70% | 0.00% | T -> A | NA |
LOC_Os11g12530.1 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os11g12520.1 Alt: A| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 73.128; most accessible tissue: Minghui63 root, score: 90.899 |
| vg1107011713 (J) | chr11 | 7011713 | T | C | 92.80% | 0.00% | T -> C | NA |
LOC_Os11g12530.1 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os11g12520.1 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 73.095; most accessible tissue: Minghui63 root, score: 91.021 |
| vg1107011743 (J) | chr11 | 7011743 | T | G | 72.20% | 0.00% | T -> G | NA |
LOC_Os11g12530.1 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os11g12520.1 Alt: G| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 73.812; most accessible tissue: Minghui63 root, score: 90.899 |
| vg1107011799 (J) | chr11 | 7011799 | G | A | 92.90% | 0.00% | G -> A | NA |
LOC_Os11g12530.1 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os11g12520.1 Alt: A| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 78.796; most accessible tissue: Zhenshan97 root, score: 91.959 |
| vg1107011801 (J) | chr11 | 7011801 | GA | G | 92.90% | 0.00% | GA -> G | NA |
LOC_Os11g12530.1 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os11g12520.1 Alt: G| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 78.829; most accessible tissue: Zhenshan97 root, score: 91.959 |
| vg1107011805 (J) | chr11 | 7011805 | G | A | 96.60% | 0.00% | G -> A | NA |
LOC_Os11g12530.1 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os11g12520.1 Alt: A| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 79.345; most accessible tissue: Zhenshan97 root, score: 92.181 |
| vg1107011808 (J) | chr11 | 7011808 | G | T | 92.90% | 0.00% | G -> T | NA |
LOC_Os11g12530.1 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os11g12520.1 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 79.782; most accessible tissue: Zhenshan97 root, score: 92.253 |
| vg1107011810 (J) | chr11 | 7011810 | G | A | 70.80% | 0.00% | A -> G | NA |
LOC_Os11g12530.1 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os11g12520.1 Alt: G| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 79.880; most accessible tissue: Zhenshan97 root, score: 92.253 |
| vg1107011844 (J) | chr11 | 7011844 | G | T | 96.10% | 0.00% | T -> G | NA |
LOC_Os11g12530.1 Alt: G| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar)
The average chromatin accessibility score: 78.974; most accessible tissue: Zhenshan97 root, score: 92.426 |
| vg1107011872 (J) | chr11 | 7011872 | G | C | 92.80% | 0.00% | G -> C | NA |
LOC_Os11g12530.1 Alt: C| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar)
The average chromatin accessibility score: 79.307; most accessible tissue: Zhenshan97 root, score: 92.253 |
| vg1107011989 (J) | chr11 | 7011989 | G | T | 97.70% | 0.00% | G -> T | NA |
LOC_Os11g12530.1 Alt: T| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar)
The average chromatin accessibility score: 81.088; most accessible tissue: Zhenshan97 root, score: 91.301 |
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