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Detailed information for vg0332251427:
| Variant ID: vg0332251427 (JBrowse) | Variation Type: SNP |
| Chromosome: chr03 | Position: 32251427 |
| Reference Allele: A | Alternative Allele: G |
| Primary Allele: G | Secondary Allele: A |
Inferred Ancestral Allele : G (evidence from allele frequency in Oryza rufipogon: G: 0.97, A: 0.02, others allele: 0.00, population size: 313. )
Flanking Sequence (100 bp) in Reference Genome:
ACATCCACCATTGCCAGATCACCATGCACTCAAACTCATTCAAATAGCGCACTGTTTGTCTGTGGACTTTCCATTTTTCAGGGATCAAATTAGGTTGGCA[A/G]
TAACATTGGCCTTGTATGACAATTATCTGAAGCTCCCTTCCAATTGGAAGCGCGCAGATGCTAACTCAGACATACTGAACTACAACGGGCCAAAGAATGT
Reverse complement sequence
ACATTCTTTGGCCCGTTGTAGTTCAGTATGTCTGAGTTAGCATCTGCGCGCTTCCAATTGGAAGGGAGCTTCAGATAATTGTCATACAAGGCCAATGTTA[T/C]
TGCCAACCTAATTTGATCCCTGAAAAATGGAAAGTCCACAGACAAACAGTGCGCTATTTGAATGAGTTTGAGTGCATGGTGATCTGGCAATGGTGGATGT
Allele Frequencies:
Allele Effect:
| Var ID | Var | Locus | snpEff Annotation | CooVar Annotation | Chromatin Accessibility Score | PolyPhen-2 Effect | PolyPhen-2 Score | SIFT Effect | SIFT Score |
|---|---|---|---|---|---|---|---|---|---|
| vg0332251427 | A -> DEL | LOC_Os03g56620.1 | N | frameshift_variant | Average:77.893; most accessible tissue: Callus, score: 92.069 | N | N | N | N |
| vg0332251427 | A -> G | LOC_Os03g56620.1 | missense_variant ; p.Ile310Val; MODERATE | nonsynonymous_codon ; I310V | Average:77.893; most accessible tissue: Callus, score: 92.069 | benign  |
-0.171 |
TOLERATED | 0.66 |
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