RiceVarMap2

Search for Variation information by Variation ID:

Flanking Sequence (100 bp) in Reference Genome:

CTCAAATCCGACCAAAATAAGTCCAAAACCATAGTTTCAGATAAGAATTTGAGGATTTAAAGTTCATTTTGCAAGTATGAACAGTGATCACTTACATTGG[GCTGCT/GCTGCC]
GCTGCAGAGCATGGGGATGTTAACCCTCTCGTCGGCGCTCCCGGCGTTCCACGGCGACGGCGGCGGCTGCAGCTACACCTCCAAGTCGCTGTCCTGCGCT

Reverse complement sequence

AGCGCAGGACAGCGACTTGGAGGTGTAGCTGCAGCCGCCGCCGTCGCCGTGGAACGCCGGGAGCGCCGACGAGAGGGTTAACATCCCCATGCTCTGCAGC[AGCAGC/GGCAGC]
CCAATGTAAGTGATCACTGTTCATACTTGCAAAATGAACTTTAAATCCTCAAATTCTTATCTGAAACTATGGTTTTGGACTTATTTTGGTCGGATTTGAG

Allele Frequencies:

Search:

Populations	Population Size	Frequency of GCTGCC(primary allele)	Frequency of GCTGCT(secondary allele)	Frequency of N	Frequency of DEL	Frequency of others Allele
All	774	47.00%	49.60%	6.72%	0.00%	NA
All Indica	492	70.90%	23.80%	6.91%	0.00%	NA
All Japonica	244	3.50%	91.00%	5.74%	0.00%	NA
Aus	7	42.90%	0.00%	14.29%	0.00%	NA
Indica I	492	70.90%	23.80%	6.91%	0.00%	NA
Indica II	215	83.30%	11.80%	5.58%	0.00%	NA
Indica III	21	52.40%	47.60%	0.00%	0.00%	NA
Indica Intermediate	190	65.80%	29.80%	6.32%	0.00%	NA
Temperate Japonica	189	3.40%	91.00%	5.82%	0.00%	NA
Tropical Japonica	36	3.00%	88.90%	8.33%	0.00%	NA
Japonica Intermediate	19	5.30%	94.70%	0.00%	0.00%	NA
VI/Aromatic	9	11.10%	88.90%	0.00%	0.00%	NA
Intermediate	231	55.80%	40.30%	6.49%	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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