20 variations found. Os01g0136000/LOC_Os01g04360 (hsp20%2Falpha crystallin family protein; putative; expressed), ranging from 1,944,246 bp to 1,945,035 bp (including 0 kb upstream and 0 kb downstream of the gene).
| Gene ID | Annotation |
|---|---|
| LOC_Os01g04360 | hsp20/alpha crystallin family protein, putative, expressed; RAP ID: Os01g0136000; MSU ID: LOC_Os01g04360 |
| MSU ID | RAP ID | Symbol | Name | Explanation | Recommended Gene Symbol | Recommended Gene Name |
|---|---|---|---|---|---|---|
| LOC_Os01g04360 | Os01g0136000 | Oshsp16.9C, OsHsp16.9C, HSP16.9C, OsHSP16.9C-CI, Oshsp 16.9C | 16.9 kDa class I heat shock protein 3, 16.9 kDa heat shock protein 3 | small heat shock protein. Q943E7. U81385. | HSP16.9C | 16.9 KDA CLASS I HEAT SHOCK PROTEIN 3 |
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 |
|---|---|---|---|---|---|---|---|---|---|
| vg0101944258 (J) | chr01 | 1944258 | C | G | 96.60% | 2.07% | C -> G | NA |
LOC_Os01g04360.1 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os01g04350.1 Alt: G| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g04370.1 Alt: G| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) N Alt: DEL/silent_mutation(CooVar) The average chromatin accessibility score: 85.796; most accessible tissue: Minghui63 panicle, score: 97.626 |
| vg0101944272 (J) | chr01 | 1944272 | T | C | 74.80% | 2.16% | C -> T | NA |
LOC_Os01g04360.1 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os01g04350.1 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g04370.1 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) N Alt: DEL/silent_mutation(CooVar) The average chromatin accessibility score: 85.964; most accessible tissue: Minghui63 panicle, score: 97.671 |
| vg0101944297 (J) | chr01 | 1944297 | TCA | T | 89.80% | 0.21% | TCA -> T | NA |
LOC_Os01g04360.1 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os01g04350.1 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g04370.1 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) N Alt: DEL/silent_mutation(CooVar) The average chromatin accessibility score: 86.926; most accessible tissue: Minghui63 panicle, score: 97.877 |
| vg0101944300 (J) | chr01 | 1944300 | G | T | 89.80% | 0.21% | G -> T | NA |
LOC_Os01g04360.1 Alt: T| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os01g04350.1 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g04370.1 Alt: T| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) N Alt: DEL/silent_mutation(CooVar) The average chromatin accessibility score: 86.889; most accessible tissue: Minghui63 panicle, score: 97.877 |
| vg0101944326 (J) | chr01 | 1944326 | G | A | 91.90% | 0.00% | G -> A |
LOC_Os01g04360.1 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os01g04350.1 Alt: A| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g04370.1 Alt: A| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 87.867; most accessible tissue: Minghui63 panicle, score: 98.087 |
|
| vg0101944340 (J) | chr01 | 1944340 | C | A | 83.20% | 0.00% | C -> A |
LOC_Os01g04360.1 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os01g04350.1 Alt: A| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g04370.1 Alt: A| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 88.633; most accessible tissue: Minghui63 panicle, score: 98.182 |
|
| vg0101944412 (J) | chr01 | 1944412 | G | A | 58.70% | 0.23% | A -> G |
LOC_Os01g04360.1 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os01g04350.1 Alt: G| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g04370.1 Alt: G| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) N Alt: DEL/silent_mutation(CooVar) The average chromatin accessibility score: 89.951; most accessible tissue: Minghui63 panicle, score: 98.055 |
|
| vg0101944434 (J) | chr01 | 1944434 | G | A | 91.90% | 0.00% | G -> A |
LOC_Os01g04360.1 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os01g04350.1 Alt: A| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g04370.1 Alt: A| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 90.543; most accessible tissue: Minghui63 panicle, score: 98.071 |
|
| vg0101944447 (J) | chr01 | 1944447 | CA | C | 96.60% | 0.00% | CA -> C | NA |
LOC_Os01g04360.1 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os01g04350.1 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g04370.1 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 90.511; most accessible tissue: Minghui63 panicle, score: 98.103 |
| vg0101944452 (J) | chr01 | 1944452 | C | G | 89.80% | 0.21% | C -> G | NA |
LOC_Os01g04360.1 Alt: G| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os01g04350.1 Alt: G| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g04370.1 Alt: G| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) N Alt: DEL/silent_mutation(CooVar) The average chromatin accessibility score: 90.490; most accessible tissue: Minghui63 panicle, score: 98.071 |
| vg0101944468 (J) | chr01 | 1944468 | CCTT | C | 89.80% | 0.21% | CCTT -> C | NA |
N Alt: DEL/silent_mutation(CooVar)
LOC_Os01g04360.1 Alt: C| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g04350.1 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os01g04370.1 Alt: C| downstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 90.351; most accessible tissue: Minghui63 panicle, score: 98.055 |
| vg0101944490 (J) | chr01 | 1944490 | T | C | 90.00% | 0.21% | T -> C | NA |
LOC_Os01g04360.1 Alt: DEL/frameshift_variant(CooVar)
LOC_Os01g04360.1 Alt: C| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar)/benign(PolyPhen-2) The average chromatin accessibility score: 90.702; most accessible tissue: Minghui63 panicle, score: 98.135 |
| vg0101944509 (J) | chr01 | 1944509 | A | C | 58.70% | 0.21% | C -> A |
LOC_Os01g04360.1 Alt: A| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar)/benign(PolyPhen-2)
LOC_Os01g04360.1 Alt: DEL/frameshift_variant(CooVar) The average chromatin accessibility score: 90.919; most accessible tissue: Minghui63 panicle, score: 97.987 |
|
| vg0101944598 (J) | chr01 | 1944598 | G | T | 58.70% | 0.23% | T -> G |
LOC_Os01g04360.1 Alt: G| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar)
LOC_Os01g04360.1 Alt: DEL/frameshift_variant(CooVar) The average chromatin accessibility score: 85.782; most accessible tissue: Minghui63 panicle, score: 97.431 |
|
| vg0101944680 (J) | chr01 | 1944680 | C | G | 99.50% | 0.00% | C -> G | NA |
LOC_Os01g04360.1 Alt: G| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar)
The average chromatin accessibility score: 88.271; most accessible tissue: Minghui63 panicle, score: 97.102 |
| vg0101944737 (J) | chr01 | 1944737 | C | G | 77.20% | 0.00% | G -> C | NA |
LOC_Os01g04360.1 Alt: C| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar)
The average chromatin accessibility score: 86.696; most accessible tissue: Minghui63 panicle, score: 96.340 |
| vg0101944850 (J) | chr01 | 1944850 | G | A | 99.90% | 0.00% | G -> A | NA |
LOC_Os01g04360.1 Alt: A| missense_variant MODERATE(snpEff)
LOC_Os01g04350.1 Alt: A| downstream_gene_variant MODIFIER(snpEff) LOC_Os01g04370.1 Alt: A| downstream_gene_variant MODIFIER(snpEff) The average chromatin accessibility score: 84.326; most accessible tissue: Minghui63 panicle, score: 96.661 |
| vg0101944853 (J) | chr01 | 1944853 | G | A | 77.20% | 0.00% | A -> G | NA |
LOC_Os01g04360.1 Alt: G| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar)/benign(PolyPhen-2)
The average chromatin accessibility score: 84.282; most accessible tissue: Minghui63 panicle, score: 96.698 |
| vg0101944881 (J) | chr01 | 1944881 | G | A | 77.20% | 0.00% | A -> G | NA |
LOC_Os01g04360.1 Alt: G| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar)
The average chromatin accessibility score: 84.299; most accessible tissue: Minghui63 panicle, score: 96.623 |
| STR0101944463 (J) | chr01 | 1944463 | TCTCTC | TCT | 92.20% | 0.00% | TCTCTC -> TCT | NA |
|