RiceVarMap2

Search for Variation information by Variation ID:

Flanking Sequence (100 bp) in Reference Genome:

CAGACCCTAAGGAGAGCATACAGCTAAAGAAATTGAACTTGCATAACTAGAAAGGGAAAAAAAACTCAAACACAAAGTGTGCATAACAAGACATACAATA[TT/T]
TTTTTGGCAAATTCATAGCTGCATACAAGGGTGAATGGTTAGTTTACAAATTATGCATGTATCCCACTCATTCAGTGGCCATGTAAACATAAACTGGTAC

Reverse complement sequence

GTACCAGTTTATGTTTACATGGCCACTGAATGAGTGGGATACATGCATAATTTGTAAACTAACCATTCACCCTTGTATGCAGCTATGAATTTGCCAAAAA[AA/A]
TATTGTATGTCTTGTTATGCACACTTTGTGTTTGAGTTTTTTTTCCCTTTCTAGTTATGCAAGTTCAATTTCTTTAGCTGTATGCTCTCCTTAGGGTCTG

Allele Frequencies:

Search:

Populations	Population Size	Frequency of TT(primary allele)	Frequency of T(secondary allele)	Frequency of N	Frequency of DEL	Frequency of others Allele
All	774	49.10%	48.10%	5.43%	0.00%	NA
All Indica	492	53.00%	44.30%	4.67%	0.00%	NA
All Japonica	244	44.10%	52.00%	6.97%	0.00%	NA
Aus	7	16.70%	71.40%	14.29%	0.00%	NA
Indica I	492	53.00%	44.30%	4.67%	0.00%	NA
Indica II	215	71.60%	24.90%	4.65%	0.00%	NA
Indica III	21	85.70%	5.30%	9.52%	0.00%	NA
Indica Intermediate	190	49.50%	48.40%	4.21%	0.00%	NA
Temperate Japonica	189	51.30%	45.20%	6.35%	0.00%	NA
Tropical Japonica	36	0.00%	88.90%	11.11%	0.00%	NA
Japonica Intermediate	19	16.70%	78.90%	5.26%	0.00%	NA
VI/Aromatic	9	33.30%	66.70%	0.00%	0.00%	NA
Intermediate	231	48.50%	49.30%	4.33%	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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