Search for Variation information by Variation ID:
Detailed information for vg0223953092:
| Variant ID: vg0223953092 (JBrowse) | Variation Type: SNP |
| Chromosome: chr02 | Position: 23953092 |
| Reference Allele: C | Alternative Allele: T |
| Primary Allele: C | Secondary Allele: T |
Inferred Ancestral Allele: Not determined.
Flanking Sequence (100 bp) in Reference Genome:
GTGGCGGTCCATGGAAACGACTCCGACATGCTCGCGCTGCTCGAGTTCAAGGATGCCATCGGCGACGATCCGGCGGGCGTCCTGAGCTCCTGGAACAAAA[C/T]
CACCCCTTTCTGCCGGTGGAATGGCGTGAAATGCGGCCGCCGGGAGCATCGCGTCACGGCGCTCGAGCTCGCCGGCCAGAACTTGACCGGTCGACTCGCC
Reverse complement sequence
GGCGAGTCGACCGGTCAAGTTCTGGCCGGCGAGCTCGAGCGCCGTGACGCGATGCTCCCGGCGGCCGCATTTCACGCCATTCCACCGGCAGAAAGGGGTG[G/A]
TTTTGTTCCAGGAGCTCAGGACGCCCGCCGGATCGTCGCCGATGGCATCCTTGAACTCGAGCAGCGCGAGCATGTCGGAGTCGTTTCCATGGACCGCCAC
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 |
|---|---|---|---|---|---|---|---|---|---|
| vg0223953092 | C -> T | LOC_Os02g39660.1 | missense_variant ; p.Thr56Ile; MODERATE | nonsynonymous_codon ; T56I | Average:69.866; most accessible tissue: Zhenshan97 young leaf, score: 86.698 | probably damaging  |
2.127 |
DELETERIOUS | 0.03 |
| vg0223953092 | C -> DEL | LOC_Os02g39660.1 | N | frameshift_variant | Average:69.866; most accessible tissue: Zhenshan97 young leaf, score: 86.698 | N | N | N | N |
Showing 1 to 2 of 2 entries