Search for Variation information by Variation ID:
Detailed information for vg0136548325:
| Variant ID: vg0136548325 (JBrowse) | Variation Type: SNP |
| Chromosome: chr01 | Position: 36548325 |
| Reference Allele: G | Alternative Allele: A,T |
| Primary Allele: G | Secondary Allele: A |
Inferred Ancestral Allele: Not determined.
Flanking Sequence (100 bp) in Reference Genome:
ATTTAAACAACAATTTATATCTTTTGAATTTTTAGGATGTGACAAACCTACCCCCCTTAAACAGAATCTCGTCCTCGAGATTCGGAAGCACTGGCGATCA[G/A,T]
ATGCGGATGAGCTGACTTCAATTCATCTTCTCGTTCCCAAGTTGATTCTTCTTCCGAGTGATTACTCCATTGGACTTTGCAAAAACGGATAACTCGATTT
Reverse complement sequence
AAATCGAGTTATCCGTTTTTGCAAAGTCCAATGGAGTAATCACTCGGAAGAAGAATCAACTTGGGAACGAGAAGATGAATTGAAGTCAGCTCATCCGCAT[C/T,A]
TGATCGCCAGTGCTTCCGAATCTCGAGGACGAGATTCTGTTTAAGGGGGGTAGGTTTGTCACATCCTAAAAATTCAAAAGATATAAATTGTTGTTTAAAT
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 |
|---|---|---|---|---|---|---|---|---|---|
| vg0136548325 | G -> T | LOC_Os01g63080.1 | missense_variant ; p.Leu1654Met; MODERATE | nonsynonymous_codon ; L1654M | Average:7.173; most accessible tissue: Callus, score: 23.183 | probably damaging  |
2.427 |
DELETERIOUS | 0.00 |
| vg0136548325 | G -> A | LOC_Os01g63080.1 | synonymous_variant ; p.Leu1654Leu; LOW | synonymous_codon | Average:7.173; most accessible tissue: Callus, score: 23.183 | N | N | N | N |
| vg0136548325 | G -> DEL | LOC_Os01g63080.1 | N | frameshift_variant | Average:7.173; most accessible tissue: Callus, score: 23.183 | N | N | N | N |
Showing 1 to 3 of 3 entries