168 variations found. Os05g0318600/LOC_Os05g25430 (receptor-like protein kinase At3g46290 precursor; putative; expressed), ranging from 14,784,691 bp to 14,789,077 bp (including 0 kb upstream and 0 kb downstream of the gene).
| Gene ID | Annotation |
|---|---|
| LOC_Os05g25430 | receptor-like protein kinase At3g46290 precursor, putative, expressed; RAP ID: Os05g0318600; MSU ID: LOC_Os05g25430 |
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 |
|---|---|---|---|---|---|---|---|---|---|
| STR0514787085 (J) | chr05 | 14787085 | GCA | GCC | 97.90% | 0.00% | GCA -> GCC | NA |
|
| STR0514787503 (J) | chr05 | 14787503 | TAGGGA | T | 98.20% | 0.00% | TAGGGA -> T | NA |
|
| vg0514784751 (J) | chr05 | 14784751 | C | T | 99.60% | 0.00% | C -> T | NA |
LOC_Os05g25430.1 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)
LOC_Os05g25430.2 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff) LOC_Os05g25420.1 Alt: T| downstream_gene_variant MODIFIER(snpEff) The average chromatin accessibility score: 54.787; most accessible tissue: Callus, score: 86.269 |
| vg0514784759 (J) | chr05 | 14784759 | TAGTAC | T | 99.10% | 0.00% | TAGTAC -> T | NA |
LOC_Os05g25430.1 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os05g25430.2 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os05g25420.1 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 55.774; most accessible tissue: Callus, score: 86.269 |
| vg0514784779 (J) | chr05 | 14784779 | A | T | 99.10% | 0.00% | A -> T | NA |
LOC_Os05g25430.1 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os05g25430.2 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os05g25420.1 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 58.256; most accessible tissue: Callus, score: 86.269 |
| vg0514784784 (J) | chr05 | 14784784 | G | A | 99.10% | 0.00% | G -> A | NA |
LOC_Os05g25430.1 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os05g25430.2 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os05g25420.1 Alt: A| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 58.736; most accessible tissue: Callus, score: 86.269 |
| vg0514784788 (J) | chr05 | 14784788 | A | C | 98.90% | 0.00% | A -> C | NA |
LOC_Os05g25430.1 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)
LOC_Os05g25430.2 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff) LOC_Os05g25420.1 Alt: C| downstream_gene_variant MODIFIER(snpEff) The average chromatin accessibility score: 59.174; most accessible tissue: Callus, score: 86.269 |
| vg0514784791 (J) | chr05 | 14784791 | AC | A | 99.10% | 0.00% | AC -> A | NA |
LOC_Os05g25430.1 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os05g25430.2 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os05g25420.1 Alt: A| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 59.466; most accessible tissue: Callus, score: 86.269 |
| vg0514784805 (J) | chr05 | 14784805 | T | C | 51.30% | 0.55% | C -> T |
LOC_Os05g25430.1 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os05g25430.2 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os05g25420.1 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) N Alt: DEL/silent_mutation(CooVar) The average chromatin accessibility score: 61.170; most accessible tissue: Callus, score: 86.269 |
|
| vg0514784815 (J) | chr05 | 14784815 | A | G | 99.10% | 0.00% | A -> G | NA |
LOC_Os05g25430.1 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os05g25430.2 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os05g25420.1 Alt: G| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 62.018; most accessible tissue: Callus, score: 86.269 |
| vg0514784816 (J) | chr05 | 14784816 | T | G | 99.10% | 0.00% | T -> G | NA |
LOC_Os05g25430.1 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff)
LOC_Os05g25430.2 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff) LOC_Os05g25420.1 Alt: G| downstream_gene_variant MODIFIER(snpEff) The average chromatin accessibility score: 62.138; most accessible tissue: Callus, score: 86.269 |
| vg0514784839 (J) | chr05 | 14784839 | G | C | 99.10% | 0.00% | G -> C | NA |
LOC_Os05g25430.1 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os05g25430.2 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os05g25420.1 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 61.250; most accessible tissue: Callus, score: 72.104 |
| vg0514784945 (J) | chr05 | 14784945 | G | T | 99.10% | 0.00% | G -> T | NA |
LOC_Os05g25430.1 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os05g25430.2 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os05g25420.1 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 73.680; most accessible tissue: Callus, score: 89.857 |
| vg0514784961 (J) | chr05 | 14784961 | GAA | G | 99.10% | 0.00% | GAA -> G | NA |
LOC_Os05g25430.1 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os05g25430.2 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os05g25420.1 Alt: G| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 75.200; most accessible tissue: Callus, score: 89.857 |
| vg0514784976 (J) | chr05 | 14784976 | G | C | 99.10% | 0.00% | G -> C | NA |
LOC_Os05g25430.1 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os05g25430.2 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os05g25420.1 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 76.160; most accessible tissue: Callus, score: 89.857 |
| vg0514784977 (J) | chr05 | 14784977 | T | C | 99.10% | 0.00% | T -> C | NA |
LOC_Os05g25430.1 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os05g25430.2 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os05g25420.1 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 76.128; most accessible tissue: Callus, score: 89.857 |
| vg0514785085 (J) | chr05 | 14785085 | T | G | 58.40% | 0.63% | G -> T |
LOC_Os05g25430.1 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os05g25430.2 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os05g25420.1 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) N Alt: DEL/silent_mutation(CooVar) The average chromatin accessibility score: 77.748; most accessible tissue: Zhenshan97 young leaf, score: 84.624 |
|
| vg0514785093 (J) | chr05 | 14785093 | A | G | 99.10% | 0.00% | A -> G | NA |
LOC_Os05g25430.1 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff)
LOC_Os05g25430.2 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff) LOC_Os05g25420.1 Alt: G| downstream_gene_variant MODIFIER(snpEff) The average chromatin accessibility score: 77.464; most accessible tissue: Zhenshan97 young leaf, score: 84.814 |
| vg0514785107 (J) | chr05 | 14785107 | T | C | 99.00% | 0.00% | T -> C | NA |
LOC_Os05g25430.1 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os05g25430.2 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os05g25420.1 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 78.337; most accessible tissue: Zhenshan97 young leaf, score: 85.886 |
| vg0514785116 (J) | chr05 | 14785116 | G | A | 99.10% | 0.00% | G -> A | NA |
LOC_Os05g25430.1 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os05g25430.2 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os05g25420.1 Alt: A| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 79.020; most accessible tissue: Zhenshan97 young leaf, score: 86.383 |
| vg0514785122 (J) | chr05 | 14785122 | T | G | 99.10% | 0.00% | T -> G | NA |
LOC_Os05g25430.1 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os05g25430.2 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os05g25420.1 Alt: G| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 79.391; most accessible tissue: Minghui63 flag leaf, score: 86.911 |
| vg0514785281 (J) | chr05 | 14785281 | G | A | 58.80% | 0.66% | A -> G |
N Alt: DEL/silent_mutation(CooVar)
LOC_Os05g25430.1 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os05g25430.2 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os05g25420.1 Alt: G| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 80.013; most accessible tissue: Callus, score: 89.865 |
|
| vg0514785296 (J) | chr05 | 14785296 | T | C | 99.10% | 0.00% | T -> C | NA |
LOC_Os05g25430.1 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os05g25430.2 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os05g25420.1 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 80.424; most accessible tissue: Callus, score: 89.865 |
| vg0514785302 (J) | chr05 | 14785302 | T | C | 96.80% | 0.00% | T -> C | NA |
LOC_Os05g25430.1 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os05g25430.2 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os05g25420.1 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 80.120; most accessible tissue: Callus, score: 89.865 |
| vg0514785383 (J) | chr05 | 14785383 | T | C | 99.10% | 0.00% | T -> C | NA |
LOC_Os05g25430.1 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os05g25430.2 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os05g25420.1 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 75.915; most accessible tissue: Zhenshan97 panicle, score: 86.058 |
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