RiceVarMap2

Search for Variation information by Variation ID:

Flanking Sequence (100 bp) in Reference Genome:

ACCTCGAACTTGTTCCCGAAGATGTCGTAGAGCAGGTACCGGCCGCCGTGCGTCATCGTCGGCCTGAACTCCGCCACCGGCGCCCCGTCCATCCCTAATC[CCTC/C]
CTCCTCTTCTCTCGCCGCAAGCAGCCGAATTGACAAACCTAATTAACGACCTTATCTGACTCTCTCTCGATTCGCAGAGACAGCAAGGCGATGAGGGAGA

Reverse complement sequence

TCTCCCTCATCGCCTTGCTGTCTCTGCGAATCGAGAGAGAGTCAGATAAGGTCGTTAATTAGGTTTGTCAATTCGGCTGCTTGCGGCGAGAGAAGAGGAG[GAGG/G]
GATTAGGGATGGACGGGGCGCCGGTGGCGGAGTTCAGGCCGACGATGACGCACGGCGGCCGGTACCTGCTCTACGACATCTTCGGGAACAAGTTCGAGGT

Allele Frequencies:

Search:

Populations	Population Size	Frequency of C(primary allele)	Frequency of CCTC(secondary allele)	Frequency of N	Frequency of DEL	Frequency of others Allele
All	774	63.60%	33.60%	4.26%	0.00%	NA
All Indica	492	95.10%	1.30%	3.66%	0.00%	NA
All Japonica	244	3.00%	91.40%	5.74%	0.00%	NA
Aus	7	100.00%	0.00%	0.00%	0.00%	NA
Indica I	492	95.10%	1.30%	3.66%	0.00%	NA
Indica II	215	97.20%	1.90%	0.93%	0.00%	NA
Indica III	21	100.00%	0.00%	0.00%	0.00%	NA
Indica Intermediate	190	92.60%	0.60%	6.84%	0.00%	NA
Temperate Japonica	189	2.20%	92.10%	5.82%	0.00%	NA
Tropical Japonica	36	0.00%	94.40%	5.56%	0.00%	NA
Japonica Intermediate	19	16.70%	78.90%	5.26%	0.00%	NA
VI/Aromatic	9	11.10%	88.90%	0.00%	0.00%	NA
Intermediate	231	81.40%	13.00%	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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