RiceVarMap2

Search for Variation information by Variation ID:

Flanking Sequence (100 bp) in Reference Genome:

ACTGAAGCTCGTATGCACAGTTGATCAAACACTCACCATTATCTCTCGGAGCAAAGAATCTTGACAGCCTAAAAAAGACTCTGTACAGCAAGAAGGGGGG[AAA/AA]
AATTATGTTTCTGAACTTATCCTACGAGGCAAGTTGTGATTGGTTTTCACGAAGCCATCATGGCAGGGGGCACCACGGTGGCAACGGGGCAACCGCCGCC

Reverse complement sequence

GGCGGCGGTTGCCCCGTTGCCACCGTGGTGCCCCCTGCCATGATGGCTTCGTGAAAACCAATCACAACTTGCCTCGTAGGATAAGTTCAGAAACATAATT[TTT/TT]
CCCCCCTTCTTGCTGTACAGAGTCTTTTTTAGGCTGTCAAGATTCTTTGCTCCGAGAGATAATGGTGAGTGTTTGATCAACTGTGCATACGAGCTTCAGT

Allele Frequencies:

Search:

Populations	Population Size	Frequency of AA(primary allele)	Frequency of AAA(secondary allele)	Frequency of N	Frequency of DEL	Frequency of others Allele
All	774	64.50%	32.70%	4.26%	0.00%	NA
All Indica	492	89.40%	7.40%	3.46%	0.00%	NA
All Japonica	244	16.50%	79.10%	5.33%	0.00%	NA
Aus	7	85.70%	14.30%	0.00%	0.00%	NA
Indica I	492	89.40%	7.40%	3.46%	0.00%	NA
Indica II	215	97.70%	0.00%	2.33%	0.00%	NA
Indica III	21	95.20%	0.00%	4.76%	0.00%	NA
Indica Intermediate	190	86.30%	10.40%	3.68%	0.00%	NA
Temperate Japonica	189	5.60%	89.90%	4.76%	0.00%	NA
Tropical Japonica	36	69.40%	24.20%	8.33%	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	74.90%	21.40%	4.76%	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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