RiceVarMap2

Search for Variation information by Variation ID:

Flanking Sequence (100 bp) in Reference Genome:

TAGCTGTGTAATCTTCTCTGAATTCCGTGGCTTCCATGGCTCGGTGGCATTTTAGACGTCGGCCATGGCTGCTGCGAGTAGCAGTAACTAGTCAGTACTC[AGTAGTAGTAAGGT/AGTAGTAATAAGGT]
CGTTGGTATTACGTCGTCGTGCAAGTGTCGTTGGTGTACTCAGTGATCTGATCTCCTGGTTGAGCTGCCGGTTGTTTTTTTCACGGCGCGGCCGGTCGAG

Reverse complement sequence

CTCGACCGGCCGCGCCGTGAAAAAAACAACCGGCAGCTCAACCAGGAGATCAGATCACTGAGTACACCAACGACACTTGCACGACGACGTAATACCAACG[ACCTTACTACTACT/ACCTTATTACTACT]
GAGTACTGACTAGTTACTGCTACTCGCAGCAGCCATGGCCGACGTCTAAAATGCCACCGAGCCATGGAAGCCACGGAATTCAGAGAAGATTACACAGCTA

Allele Frequencies:

Search:

Populations	Population Size	Frequency of AGTAGTAGTAAGGT(primary allele)	Frequency of AGTAGTAATAAGGT(secondary allele)	Frequency of N	Frequency of DEL	Frequency of others Allele
All	774	48.30%	47.60%	7.75%	0.00%	NA
All Indica	492	25.60%	68.10%	8.54%	0.00%	NA
All Japonica	244	92.60%	1.30%	6.15%	0.00%	NA
Aus	7	85.70%	0.00%	14.29%	0.00%	NA
Indica I	492	25.60%	68.10%	8.54%	0.00%	NA
Indica II	215	35.50%	60.00%	6.98%	0.00%	NA
Indica III	21	27.80%	61.90%	14.29%	0.00%	NA
Indica Intermediate	190	24.90%	66.80%	11.05%	0.00%	NA
Temperate Japonica	189	92.60%	1.10%	6.35%	0.00%	NA
Tropical Japonica	36	97.20%	0.00%	2.78%	0.00%	NA
Japonica Intermediate	19	84.20%	5.90%	10.53%	0.00%	NA
VI/Aromatic	9	100.00%	0.00%	0.00%	0.00%	NA
Intermediate	231	36.90%	56.30%	10.82%	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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