RiceVarMap2

Search for Variation information by Variation ID:

Flanking Sequence (100 bp) in Reference Genome:

TTGCAACAGCAGTAACCAAAAGTTACATTACATTACACCCTCAACTGGCCTTGCCGAGTGAAAAAAAAACAACCGGCGAAGTAACCAGGAGATCATAATA[ACTACT/ACTACG]
AAGTACAGAAAATTAATACAGCAATAATAAGCTAAGAACACTTATCTTAAACCCTTCTTAATGACTTAATCCTACTACGATGACGACGACGACCTCCTTA

Reverse complement sequence

TAAGGAGGTCGTCGTCGTCATCGTAGTAGGATTAAGTCATTAAGAAGGGTTTAAGATAAGTGTTCTTAGCTTATTATTGCTGTATTAATTTTCTGTACTT[AGTAGT/CGTAGT]
TATTATGATCTCCTGGTTACTTCGCCGGTTGTTTTTTTTTCACTCGGCAAGGCCAGTTGAGGGTGTAATGTAATGTAACTTTTGGTTACTGCTGTTGCAA

Allele Frequencies:

Search:

Populations	Population Size	Frequency of ACTACT(primary allele)	Frequency of ACTACG(secondary allele)	Frequency of N	Frequency of DEL	Frequency of others Allele
All	774	70.40%	21.20%	10.59%	0.00%	NA
All Indica	492	59.30%	31.90%	12.80%	0.00%	NA
All Japonica	244	91.80%	1.80%	6.56%	0.00%	NA
Aus	7	71.40%	0.00%	28.57%	0.00%	NA
Indica I	492	59.30%	31.90%	12.80%	0.00%	NA
Indica II	215	46.80%	46.50%	12.56%	0.00%	NA
Indica III	21	71.40%	11.80%	19.05%	0.00%	NA
Indica Intermediate	190	67.90%	20.90%	14.21%	0.00%	NA
Temperate Japonica	189	94.20%	0.00%	5.82%	0.00%	NA
Tropical Japonica	36	77.80%	12.50%	11.11%	0.00%	NA
Japonica Intermediate	19	94.70%	0.00%	5.26%	0.00%	NA
VI/Aromatic	9	88.90%	0.00%	11.11%	0.00%	NA
Intermediate	231	70.60%	19.70%	12.12%	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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