Search for Variation information by Variation ID:
Detailed information for vg0431565387:
| Variant ID: vg0431565387 (JBrowse) | Variation Type: SNP |
| Chromosome: chr04 | Position: 31565387 |
| Reference Allele: G | Alternative Allele: C |
| Primary Allele: G | Secondary Allele: C |
Inferred Ancestral Allele: Not determined.
Flanking Sequence (100 bp) in Reference Genome:
TCTAAGAGAGCTAGTTATTTCTAACTGTCCTGATCTGGAGTTCGGTGGAGAAGAGGGAGCCCTCCGAGGATACACCTCTCTTAAGTCCATTAAAGTTCAG[G/C]
GTTGCCCCAAACTGATACCGTTGTTGGTGAGTGGTAAGATGGAGGTTGGATTGCTGCCACCGTCTCTAGAATGCTTATGTATTGATATGGGTCCTGAGCT
Reverse complement sequence
AGCTCAGGACCCATATCAATACATAAGCATTCTAGAGACGGTGGCAGCAATCCAACCTCCATCTTACCACTCACCAACAACGGTATCAGTTTGGGGCAAC[C/G]
CTGAACTTTAATGGACTTAAGAGAGGTGTATCCTCGGAGGGCTCCCTCTTCTCCACCGAACTCCAGATCAGGACAGTTAGAAATAACTAGCTCTCTTAGA
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 |
|---|---|---|---|---|---|---|---|---|---|
| vg0431565387 | G -> C | LOC_Os04g53000.1 | missense_variant ; p.Gly82Arg; MODERATE | nonsynonymous_codon ; G82R | Average:54.866; most accessible tissue: Callus, score: 73.976 | possibly damaging  |
1.805 |
TOLERATED | 0.60 |
| vg0431565387 | G -> DEL | LOC_Os04g53000.1 | N | frameshift_variant | Average:54.866; most accessible tissue: Callus, score: 73.976 | N | N | N | N |
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