RiceVarMap2

Search for Variation information by Variation ID:

Flanking Sequence (100 bp) in Reference Genome:

TTCTTCCTCATAGCCACCATCATGGTAAACCCAAAAGTGAGTGTCACGGGGGCACTGAACTTGTGCAATCTACAAGAATGATTCAGATATTGAGGCAAAT[TCAGTGATAGTGATAGCACAA/TCAGTGACAGTGATAGCACAA]
TTATAGTACCAGCAAAAAAAATCGCCTTATTCGTTTCCTAAAAACCACGCACATAGTCCTTACACTCTTTCTTAATCTGGTGAAATTATAGTCAGACTAC

Reverse complement sequence

GTAGTCTGACTATAATTTCACCAGATTAAGAAAGAGTGTAAGGACTATGTGCGTGGTTTTTAGGAAACGAATAAGGCGATTTTTTTTGCTGGTACTATAA[TTGTGCTATCACTATCACTGA/TTGTGCTATCACTGTCACTGA]
ATTTGCCTCAATATCTGAATCATTCTTGTAGATTGCACAAGTTCAGTGCCCCCGTGACACTCACTTTTGGGTTTACCATGATGGTGGCTATGAGGAAGAA

Allele Frequencies:

Search:

Populations	Population Size	Frequency of TCAGTGATAGTGATAGCACA A(primary allele)	Frequency of TCAGTGACAGTGATAGCACA A(secondary allele)	Frequency of N	Frequency of DEL	Frequency of others Allele
All	774	87.60%	7.50%	5.30%	0.00%	NA
All Indica	492	83.10%	11.70%	5.89%	0.00%	NA
All Japonica	244	96.30%	0.40%	3.28%	0.00%	NA
Aus	7	100.00%	0.00%	0.00%	0.00%	NA
Indica I	492	83.10%	11.70%	5.89%	0.00%	NA
Indica II	215	87.00%	9.70%	3.72%	0.00%	NA
Indica III	21	0.00%	47.60%	4.76%	0.00%	NA
Indica Intermediate	190	74.70%	18.40%	8.42%	0.00%	NA
Temperate Japonica	189	98.40%	0.00%	1.59%	0.00%	NA
Tropical Japonica	36	86.10%	0.00%	13.89%	0.00%	NA
Japonica Intermediate	19	94.70%	5.30%	0.00%	0.00%	NA
VI/Aromatic	9	88.90%	0.00%	11.11%	0.00%	NA
Intermediate	231	77.50%	15.60%	8.23%	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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