RiceVarMap2

Search for Variation information by Variation ID:

Flanking Sequence (100 bp) in Reference Genome:

GATGCTTGAACTGCTAAAATCAGATATTTGTAATACTAAATGGAAAACCACTGTGCTAATTAGGTATGTGCTTGTGTTCGGAAATTAACTTGGTCATTCC[TT/TTT]
TTTTTTTCAATAGATTGAGCATACCCGTAGTGGATTGGAACCTTTTGTTGTTGCTGCAATTCCTACAATGAAGTACAGCTACGAGGCCTTCCAATCAAAA

Reverse complement sequence

TTTTGATTGGAAGGCCTCGTAGCTGTACTTCATTGTAGGAATTGCAGCAACAACAAAAGGTTCCAATCCACTACGGGTATGCTCAATCTATTGAAAAAAA[AA/AAA]
GGAATGACCAAGTTAATTTCCGAACACAAGCACATACCTAATTAGCACAGTGGTTTTCCATTTAGTATTACAAATATCTGATTTTAGCAGTTCAAGCATC

Allele Frequencies:

Search:

Populations	Population Size	Frequency of TT(primary allele)	Frequency of TTT(secondary allele)	Frequency of N	Frequency of DEL	Frequency of others Allele
All	774	97.30%	0.10%	2.58%	0.00%	NA
All Indica	492	96.50%	0.20%	3.25%	0.00%	NA
All Japonica	244	98.80%	0.00%	1.23%	0.00%	NA
Aus	7	85.70%	0.00%	14.29%	0.00%	NA
Indica I	492	96.50%	0.20%	3.25%	0.00%	NA
Indica II	215	96.30%	0.50%	3.26%	0.00%	NA
Indica III	21	95.20%	4.80%	0.00%	0.00%	NA
Indica Intermediate	190	97.40%	0.00%	2.63%	0.00%	NA
Temperate Japonica	189	98.90%	0.00%	1.06%	0.00%	NA
Tropical Japonica	36	97.20%	0.00%	2.78%	0.00%	NA
Japonica Intermediate	19	100.00%	0.00%	0.00%	0.00%	NA
VI/Aromatic	9	100.00%	0.00%	0.00%	0.00%	NA
Intermediate	231	97.80%	0.00%	2.16%	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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