RiceVarMap2

Search for Variation information by Variation ID:

Flanking Sequence (100 bp) in Reference Genome:

TTGATGACACTTTCCTGTACTTGCTTTTCAGTTCTGTTAAAGGCATTTCTCTGCAATAGAAACATGGAGTGTAACCAAAAAAAAAATTAAATAGCATTTT[TT/TG]
ATATAAACATATCGTACCTGCTAGGCTACTAGACATGGTGATTAAACATGAAGCTGTATGCAGTATAAATTTTTCTTACAATAGGTTACACCAGAAAAAA

Reverse complement sequence

TTTTTTCTGGTGTAACCTATTGTAAGAAAAATTTATACTGCATACAGCTTCATGTTTAATCACCATGTCTAGTAGCCTAGCAGGTACGATATGTTTATAT[AA/CA]
AAAATGCTATTTAATTTTTTTTTTGGTTACACTCCATGTTTCTATTGCAGAGAAATGCCTTTAACAGAACTGAAAAGCAAGTACAGGAAAGTGTCATCAA

Allele Frequencies:

Search:

Populations	Population Size	Frequency of TT(primary allele)	Frequency of TG(secondary allele)	Frequency of N	Frequency of DEL	Frequency of others Allele
All	774	89.50%	2.70%	8.01%	0.00%	NA
All Indica	492	86.20%	4.30%	9.96%	0.00%	NA
All Japonica	244	95.50%	0.00%	4.51%	0.00%	NA
Aus	7	100.00%	0.00%	0.00%	0.00%	NA
Indica I	492	86.20%	4.30%	9.96%	0.00%	NA
Indica II	215	92.10%	3.40%	4.65%	0.00%	NA
Indica III	21	76.20%	20.00%	4.76%	0.00%	NA
Indica Intermediate	190	81.10%	6.10%	13.68%	0.00%	NA
Temperate Japonica	189	94.70%	0.00%	5.29%	0.00%	NA
Tropical Japonica	36	97.20%	0.00%	2.78%	0.00%	NA
Japonica Intermediate	19	100.00%	0.00%	0.00%	0.00%	NA
VI/Aromatic	9	88.90%	0.00%	11.11%	0.00%	NA
Intermediate	231	84.00%	4.90%	11.69%	0.00%	NA

Showing 1 to 13 of 13 entries

Contact

Address: Room B111, National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural university, Wuhan, 430070, China

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Search for Variation information by Variation ID:

Flanking Sequence (100 bp) in Reference Genome:

Reverse complement sequence

Allele Frequencies:

RiceVarMap v2.0

Tools

Blast

Design Primer by Variation ID

Design Primer by Region

Haplotype Network Analysis

Varitation Coordinate Convert

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