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Detailed information for vg1125246520:

Variant ID: vg1125246520 (JBrowse)	Variation Type: SNP
Chromosome: chr11	Position: 25246520
Reference Allele: T	Alternative Allele: C,A
Primary Allele: T	Secondary Allele: C

Inferred Ancestral Allele : T (evidence from allele frequency in Oryza rufipogon: T: 0.99, C: 0.01, others allele: 0.00, population size: 304. )

Flanking Sequence (100 bp) in Reference Genome:

GGATGTTAGTTTAAGCACAAACCAAGGTTTGTAAGGTTCAAGAACATATGCCGACAAATGCTAACCAACTACCAGACATGTTTGTCATCTTGCATTATTT[T/C,A]
TGTTTTATTGGTTTTAATCAACATCCTTATATATAAACCCATTTGAGGCCATCGAGTGCTTGTGTGCTTAGAATTTTGCAGGAGTAGATTTTAACTATTT

Reverse complement sequence

AAATAGTTAAAATCTACTCCTGCAAAATTCTAAGCACACAAGCACTCGATGGCCTCAAATGGGTTTATATATAAGGATGTTGATTAAAACCAATAAAACA[A/G,T]
AAATAATGCAAGATGACAAACATGTCTGGTAGTTGGTTAGCATTTGTCGGCATATGTTCTTGAACCTTACAAACCTTGGTTTGTGCTTAAACTAACATCC

Allele Frequencies:

Allele Effect:

Putative Genotype-Phenotype Associations: