RiceVarMap2

Search for Variation information by Variation ID:

Flanking Sequence (100 bp) in Reference Genome:

GAAAATCTGGCATGTTCTAATAAAAGAACTTAAGAGCTTAAGTGTCTTTCGTATTGTTTATGATTGTTTAGGCACAATTGGTTGCCAGGAGATCAAAATG[AAA/AA,AAAA]
AAAAAAGATGGTAGTCCTCACCTCAGGTGGATCGAACTTTGCACCAAGGTCGCTCAGTTTAGCATGAGCTTCAGCGTAGTCTTTAAAGAATGCCTCCTGA

Reverse complement sequence

TCAGGAGGCATTCTTTAAAGACTACGCTGAAGCTCATGCTAAACTGAGCGACCTTGGTGCAAAGTTCGATCCACCTGAGGTGAGGACTACCATCTTTTTT[TTT/TT,TTTT]
CATTTTGATCTCCTGGCAACCAATTGTGCCTAAACAATCATAAACAATACGAAAGACACTTAAGCTCTTAAGTTCTTTTATTAGAACATGCCAGATTTTC

Allele Frequencies:

Search:

Populations	Population Size	Frequency of AA(primary allele)	Frequency of AAAA(secondary allele)	Frequency of N	Frequency of DEL	Frequency of others Allele
All	774	63.40%	0.10%	4.13%	0.00%	NA
All Indica	492	94.70%	0.00%	3.25%	0.00%	NA; AAA: 2.10%
All Japonica	244	4.70%	0.00%	4.92%	0.00%	NA; AA: 90.60%
Aus	7	57.10%	20.00%	28.57%	0.00%	NA
Indica I	492	94.70%	0.00%	3.25%	0.00%	NA; AAA: 2.10%
Indica II	215	94.90%	0.00%	2.79%	0.00%	NA; AAA: 2.40%
Indica III	21	95.20%	0.00%	0.00%	0.00%	NA; AAA: 4.80%
Indica Intermediate	190	94.20%	0.00%	3.16%	0.00%	NA; AAA: 2.70%
Temperate Japonica	189	3.40%	0.00%	5.82%	0.00%	NA; AA: 91.00%
Tropical Japonica	36	0.00%	0.00%	2.78%	0.00%	NA; AAA: 0.00%; AAA: 97.20%
Japonica Intermediate	19	26.30%	0.00%	0.00%	0.00%	NA; AA: 73.70%
VI/Aromatic	9	0.00%	0.00%	0.00%	0.00%	NA; AAA: 0.00%; AAA: 100.00%
Intermediate	231	84.00%	0.00%	3.46%	0.00%	NA; AAA: 13.00%

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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