RiceVarMap2

Search for Variation information by Variation ID:

Flanking Sequence (100 bp) in Reference Genome:

GAATAGCAGGAATAGAAAACTGGAAGTTTGCACAAAATTCTATTAATTGAGTTTTGGAGTTCTGATCTGGTGCAGGTGGAATCCAGAAGCACTAAGAGGG[AA/AAA]
AAAAAGAATTGACCAAAAAAAAGTCAATCAAAGCATTGTTTGGATTCCAGCAAGTTATCATAGGAAAAAAGAAAACTCTGGTTGATGCCTTATCCTGCTG

Reverse complement sequence

CAGCAGGATAAGGCATCAACCAGAGTTTTCTTTTTTCCTATGATAACTTGCTGGAATCCAAACAATGCTTTGATTGACTTTTTTTTGGTCAATTCTTTTT[TT/TTT]
CCCTCTTAGTGCTTCTGGATTCCACCTGCACCAGATCAGAACTCCAAAACTCAATTAATAGAATTTTGTGCAAACTTCCAGTTTTCTATTCCTGCTATTC

Allele Frequencies:

Search:

Populations	Population Size	Frequency of AAA(primary allele)	Frequency of AA(secondary allele)	Frequency of N	Frequency of DEL	Frequency of others Allele
All	774	73.30%	23.80%	3.88%	0.00%	NA
All Indica	492	97.60%	0.40%	2.03%	0.00%	NA
All Japonica	244	25.10%	69.70%	6.97%	0.00%	NA
Aus	7	85.70%	0.00%	14.29%	0.00%	NA
Indica I	492	97.60%	0.40%	2.03%	0.00%	NA
Indica II	215	98.10%	0.50%	1.40%	0.00%	NA
Indica III	21	100.00%	0.00%	0.00%	0.00%	NA
Indica Intermediate	190	97.90%	0.50%	1.58%	0.00%	NA
Temperate Japonica	189	20.90%	74.10%	6.35%	0.00%	NA
Tropical Japonica	36	47.20%	46.90%	11.11%	0.00%	NA
Japonica Intermediate	19	16.70%	78.90%	5.26%	0.00%	NA
VI/Aromatic	9	100.00%	0.00%	0.00%	0.00%	NA
Intermediate	231	88.30%	9.30%	2.60%	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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