Search for Variation information by Variation ID:
Detailed information for vg0223953113:
| Variant ID: vg0223953113 (JBrowse) | Variation Type: SNP |
| Chromosome: chr02 | Position: 23953113 |
| Reference Allele: A | Alternative Allele: G |
| Primary Allele: A | Secondary Allele: G |
Inferred Ancestral Allele: Not determined.
Flanking Sequence (100 bp) in Reference Genome:
TCCGACATGCTCGCGCTGCTCGAGTTCAAGGATGCCATCGGCGACGATCCGGCGGGCGTCCTGAGCTCCTGGAACAAAACCACCCCTTTCTGCCGGTGGA[A/G]
TGGCGTGAAATGCGGCCGCCGGGAGCATCGCGTCACGGCGCTCGAGCTCGCCGGCCAGAACTTGACCGGTCGACTCGCCGCCGCTTCTCTCGGGAATCTG
Reverse complement sequence
CAGATTCCCGAGAGAAGCGGCGGCGAGTCGACCGGTCAAGTTCTGGCCGGCGAGCTCGAGCGCCGTGACGCGATGCTCCCGGCGGCCGCATTTCACGCCA[T/C]
TCCACCGGCAGAAAGGGGTGGTTTTGTTCCAGGAGCTCAGGACGCCCGCCGGATCGTCGCCGATGGCATCCTTGAACTCGAGCAGCGCGAGCATGTCGGA
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 |
|---|---|---|---|---|---|---|---|---|---|
| vg0223953113 | A -> G | LOC_Os02g39660.1 | missense_variant ; p.Asn63Ser; MODERATE | nonsynonymous_codon | Average:69.183; most accessible tissue: Zhenshan97 young leaf, score: 86.383 | benign  |
-1.193 |
TOLERATED | 0.86 |
| vg0223953113 | A -> DEL | LOC_Os02g39660.1 | N | frameshift_variant | Average:69.183; most accessible tissue: Zhenshan97 young leaf, score: 86.383 | N | N | N | N |
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