35 variations found. Os07g0568600/LOC_Os07g38120 (CAMK_CAMK_like.34 - CAMK includes calcium%2Fcalmodulin depedent protein kinases; expressed), ranging from 22,858,594 bp to 22,862,582 bp (including 0 kb upstream and 0 kb downstream of the gene).
| Gene ID | Annotation |
|---|---|
| LOC_Os07g38120 | CAMK_CAMK_like.34 - CAMK includes calcium/calmodulin depedent protein kinases, expressed; RAP ID: Os07g0568600; MSU ID: LOC_Os07g38120 |
| MSU ID | RAP ID | Symbol | Name | Explanation | Recommended Gene Symbol | Recommended Gene Name |
|---|---|---|---|---|---|---|
| LOC_Os07g38120 | Os07g0568600 | OsCDPK20, OsCPK20 | calcium-dependent protein kinase | AP003866. | CDPK20 | CALCIUM-DEPENDENT PROTEIN KINASE 20 |
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 |
|---|---|---|---|---|---|---|---|---|---|
| STR0722859254 (J) | chr07 | 22859254 | GAAGAAG AAGAA | GAAGAAG AA | 76.40% | 0.00% | GAAGAAGAA -> GAAGAAGAAG AA | NA |
|
| STR0722859674 (J) | chr07 | 22859674 | TTTT | TTTTT | 88.50% | 0.00% | TTTT -> TTTTT | NA |
|
| STR0722861739 (J) | chr07 | 22861739 | GCGGCGG CG | GCGGCGG CA | 88.00% | 0.00% | GCGGCGGCG -> GCGGCGGCA | NA |
|
| vg0722858906 (J) | chr07 | 22858906 | G | A | 95.20% | 0.00% | G -> A |
LOC_Os07g38120.1 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
LOC_Os07g38110.1 Alt: A| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) LOC_Os07g38110.2 Alt: A| upstream_gene_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 88.960; most accessible tissue: Zhenshan97 young leaf, score: 95.805 |
|
| vg0722858966 (J) | chr07 | 22858966 | G | A | 94.70% | 0.00% | G -> A | NA |
LOC_Os07g38120.1 Alt: A| 3_prime_UTR_variant MODIFIER(snpEff)/silent_mutation(CooVar)
The average chromatin accessibility score: 89.677; most accessible tissue: Zhenshan97 young leaf, score: 95.596 |
| vg0722859183 (J) | chr07 | 22859183 | C | T | 94.20% | 0.00% | C -> T |
LOC_Os07g38120.1 Alt: T| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar)
The average chromatin accessibility score: 89.054; most accessible tissue: Zhenshan97 young leaf, score: 94.848 |
|
| vg0722859253 (J) | chr07 | 22859253 | TGAA | T | 76.00% | 0.06% | T -> TGAA | NA |
LOC_Os07g38120.1 Alt: TGAA| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar)
N Alt: DEL/silent_mutation(CooVar) The average chromatin accessibility score: 88.049; most accessible tissue: Zhenshan97 flag leaf, score: 93.502 |
| vg0722859673 (J) | chr07 | 22859673 | A | AT | 94.80% | 0.00% | A -> AT | NA |
The average chromatin accessibility score: 78.335; most accessible tissue: Minghui63 flag leaf, score: 91.134
|
| vg0722859887 (J) | chr07 | 22859887 | C | T | 72.40% | 0.11% | T -> C |
Awn_length (Ind_All); LR P-value: 2.35E-06;
mr1322 (All); LR P-value: 2.64E-09; mr1668_2 (All); LR P-value: 2.34E-07 |
LOC_Os07g38120.1 Alt: DEL/frameshift_variant(CooVar)
LOC_Os07g38120.1 Alt: C| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar) The average chromatin accessibility score: 79.835; most accessible tissue: Zhenshan97 young leaf, score: 93.371 |
| vg0722860091 (J) | chr07 | 22860091 | C | T | 94.80% | 0.00% | C -> T | NA |
LOC_Os07g38120.1 Alt: T| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar)
The average chromatin accessibility score: 74.309; most accessible tissue: Zhenshan97 young leaf, score: 90.901 |
| vg0722860158 (J) | chr07 | 22860158 | A | G | 98.50% | 0.00% | A -> G | NA |
LOC_Os07g38120.1 Alt: G| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar)
The average chromatin accessibility score: 70.608; most accessible tissue: Zhenshan97 young leaf, score: 88.127 |
| vg0722860296 (J) | chr07 | 22860296 | C | A | 94.80% | 0.00% | C -> A | NA |
LOC_Os07g38120.1 Alt: A| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar)
The average chromatin accessibility score: 68.743; most accessible tissue: Zhenshan97 young leaf, score: 87.993 |
| vg0722860742 (J) | chr07 | 22860742 | T | C | 50.50% | 0.00% | T -> C | NA |
LOC_Os07g38120.1 Alt: C| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar)
The average chromatin accessibility score: 75.245; most accessible tissue: Zhenshan97 young leaf, score: 89.978 |
| vg0722860890 (J) | chr07 | 22860890 | G | A | 72.30% | 0.30% | A -> G,T |
Awn_length (Ind_All); LR P-value: 5.90E-06;
mr1322 (All); LR P-value: 2.20E-09; mr1668_2 (All); LR P-value: 2.33E-07 |
LOC_Os07g38120.1 Alt: DEL/frameshift_variant(CooVar)
LOC_Os07g38120.1 Alt: G| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar) LOC_Os07g38120.1 Alt: T| synonymous_variant LOW(snpEff) The average chromatin accessibility score: 75.784; most accessible tissue: Zhenshan97 young leaf, score: 91.151 |
| vg0722860935 (J) | chr07 | 22860935 | A | G | 72.40% | 0.02% | G -> A |
Awn_length (Ind_All); LR P-value: 2.38E-06;
mr1322 (All); LR P-value: 2.15E-09; mr1668_2 (All); LR P-value: 5.03E-07 |
LOC_Os07g38120.1 Alt: DEL/frameshift_variant(CooVar)
LOC_Os07g38120.1 Alt: A| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar) The average chromatin accessibility score: 76.654; most accessible tissue: Zhenshan97 young leaf, score: 90.363 |
| vg0722860971 (J) | chr07 | 22860971 | T | A | 99.80% | 0.00% | T -> A | NA |
LOC_Os07g38120.1 Alt: A| splice_region_variant&intron_variant LOW(snpEff)
The average chromatin accessibility score: 78.314; most accessible tissue: Zhenshan97 young leaf, score: 91.466 |
| vg0722860999 (J) | chr07 | 22860999 | G | A | 94.80% | 0.00% | G -> A | NA |
LOC_Os07g38120.1 Alt: A| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar)
The average chromatin accessibility score: 78.211; most accessible tissue: Zhenshan97 young leaf, score: 91.542 |
| vg0722861041 (J) | chr07 | 22861041 | T | C | 72.30% | 0.36% | C -> T |
Awn_length (Ind_All); LR P-value: 2.41E-06;
mr1322 (All); LR P-value: 2.13E-09; mr1690 (All); LR P-value: 6.71E-07; mr1668_2 (All); LR P-value: 4.02E-07 |
N Alt: DEL/silent_mutation(CooVar)
LOC_Os07g38120.1 Alt: T| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar) The average chromatin accessibility score: 78.025; most accessible tissue: Zhenshan97 young leaf, score: 91.232 |
| vg0722861457 (J) | chr07 | 22861457 | C | A | 94.80% | 0.00% | C -> A | NA |
LOC_Os07g38120.1 Alt: A| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar)
The average chromatin accessibility score: 71.069; most accessible tissue: Minghui63 flag leaf, score: 90.986 |
| vg0722861459 (J) | chr07 | 22861459 | T | A | 94.80% | 0.00% | T -> A | NA |
LOC_Os07g38120.1 Alt: A| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar)
The average chromatin accessibility score: 70.912; most accessible tissue: Minghui63 flag leaf, score: 90.986 |
| vg0722861559 (J) | chr07 | 22861559 | T | A | 91.50% | 0.00% | T -> A |
LOC_Os07g38120.1 Alt: A| intron_variant MODIFIER(snpEff)/silent_mutation(CooVar)
The average chromatin accessibility score: 77.680; most accessible tissue: Minghui63 flag leaf, score: 93.091 |
|
| vg0722861717 (J) | chr07 | 22861717 | G | A | 98.90% | 0.00% | G -> A | NA |
LOC_Os07g38120.1 Alt: A| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar)
The average chromatin accessibility score: 88.266; most accessible tissue: Zhenshan97 young leaf, score: 96.588 |
| vg0722861747 (J) | chr07 | 22861747 | G | A | 94.90% | 0.00% | G -> A | NA |
LOC_Os07g38120.1 Alt: A| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar)
The average chromatin accessibility score: 88.775; most accessible tissue: Zhenshan97 young leaf, score: 96.868 |
| vg0722861951 (J) | chr07 | 22861951 | A | G | 55.80% | 0.06% | G -> A |
LOC_Os07g38120.1 Alt: DEL/frameshift_variant(CooVar)
LOC_Os07g38120.1 Alt: A| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar) The average chromatin accessibility score: 94.332; most accessible tissue: Zhenshan97 flag leaf, score: 98.720 |
|
| vg0722862068 (J) | chr07 | 22862068 | C | T | 98.90% | 0.00% | C -> T | NA |
LOC_Os07g38120.1 Alt: T| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar)
The average chromatin accessibility score: 94.640; most accessible tissue: Zhenshan97 flag leaf, score: 98.788 |
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