RiceVarMap2

Search for Variation information by Variation ID:

Flanking Sequence (100 bp) in Reference Genome:

CCTTTCCGTAGGAGTATTTCGCAGCGACGAAGGGCTCTGGTTGCGGTGCTGCACCGTTGTTGTCATCCGCTGGCGATGATGCCACTGCTGCTCCTACCGT[TACTGGTA/TACTGGAA]
CTGGAGTTGGTTCAGCTTCCTTCTTCTCCTCGACTGGTGGAGGTGGTGGTGCTGCTGCTGGCGCTGGTGCTGGTTCAGGATCCTTCTCTTCGACGGCTGG

Reverse complement sequence

CCAGCCGTCGAAGAGAAGGATCCTGAACCAGCACCAGCGCCAGCAGCAGCACCACCACCTCCACCAGTCGAGGAGAAGAAGGAAGCTGAACCAACTCCAG[TACCAGTA/TTCCAGTA]
ACGGTAGGAGCAGCAGTGGCATCATCGCCAGCGGATGACAACAACGGTGCAGCACCGCAACCAGAGCCCTTCGTCGCTGCGAAATACTCCTACGGAAAGG

Allele Frequencies:

Search:

Populations	Population Size	Frequency of TACTGGAA(primary allele)	Frequency of TACTGGTA(secondary allele)	Frequency of N	Frequency of DEL	Frequency of others Allele
All	774	62.00%	34.50%	5.30%	0.00%	NA
All Indica	492	92.50%	3.80%	3.86%	0.00%	NA
All Japonica	244	4.80%	88.50%	6.97%	0.00%	NA
Aus	7	71.40%	28.60%	0.00%	0.00%	NA
Indica I	492	92.50%	3.80%	3.86%	0.00%	NA
Indica II	215	94.00%	3.30%	2.79%	0.00%	NA
Indica III	21	90.50%	5.00%	4.76%	0.00%	NA
Indica Intermediate	190	88.90%	6.10%	5.26%	0.00%	NA
Temperate Japonica	189	3.40%	89.90%	6.88%	0.00%	NA
Tropical Japonica	36	0.00%	88.90%	11.11%	0.00%	NA
Japonica Intermediate	19	26.30%	73.70%	0.00%	0.00%	NA
VI/Aromatic	9	0.00%	100.00%	0.00%	0.00%	NA
Intermediate	231	79.20%	15.30%	6.49%	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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