RiceVarMap2

Search for Variation information by Variation ID:

Flanking Sequence (100 bp) in Reference Genome:

GTTTTCCATATACAGAAAAAACATTGGACAAAACATATTAGTGGCAACAGTTACCCATTGCAGATGGACGCTTTCATGCCCATGGAACTAAAGATCTTGG[AAAA/AAA,AAAAA]
AAAAATGCTAACCTGGCTTTCATGTCCATGGCAACAAGTTCAAGAGCGCCCACACCACCTTTCTCGAGAGATCCTATGTTTTTTTTCCATAAAATGTGAG

Reverse complement sequence

CTCACATTTTATGGAAAAAAAACATAGGATCTCTCGAGAAAGGTGGTGTGGGCGCTCTTGAACTTGTTGCCATGGACATGAAAGCCAGGTTAGCATTTTT[TTTT/TTT,TTTTT]
CCAAGATCTTTAGTTCCATGGGCATGAAAGCGTCCATCTGCAATGGGTAACTGTTGCCACTAATATGTTTTGTCCAATGTTTTTTCTGTATATGGAAAAC

Allele Frequencies:

Search:

Populations	Population Size	Frequency of AAAA(primary allele)	Frequency of AAAAA(secondary allele)	Frequency of N	Frequency of DEL	Frequency of others Allele
All	774	89.70%	2.00%	3.88%	0.00%	NA
All Indica	492	88.80%	3.20%	4.07%	0.00%	NA
All Japonica	244	91.40%	0.00%	2.87%	0.00%	NA; AAA: 5.90%
Aus	7	100.00%	0.00%	0.00%	0.00%	NA
Indica I	492	88.80%	3.20%	4.07%	0.00%	NA
Indica II	215	92.60%	0.50%	3.72%	0.00%	NA
Indica III	21	81.00%	0.00%	0.00%	0.00%	NA; AAA: 19.00%
Indica Intermediate	190	84.70%	5.50%	4.21%	0.00%	NA
Temperate Japonica	189	94.20%	0.00%	3.17%	0.00%	NA; AAA: 2.70%
Tropical Japonica	36	97.20%	0.00%	2.78%	0.00%	NA
Japonica Intermediate	19	52.60%	0.00%	0.00%	0.00%	NA; AAA: 47.40%
VI/Aromatic	9	77.80%	0.00%	22.22%	0.00%	NA
Intermediate	231	82.70%	4.50%	3.90%	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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