RiceVarMap2

Search for Variation information by Variation ID:

Flanking Sequence (100 bp) in Reference Genome:

AGAATGTAAAAGCACTGGCCAGAAAACGAAAAGAAGGCTACTCCCTCCGCCCCTAAAATATACTCCCTCCGTTTCATAATGTAAGATTTTCTAGCATTAC[TCATATTC/TCATATTT]
ATATAAATATTAATGAATCTAGACATACGAATATGTCTACATTTATTAACATCTATATGAATATGAGCAATGCTAAAAAGTCTTACATTGTGAAACGGAG

Reverse complement sequence

CTCCGTTTCACAATGTAAGACTTTTTAGCATTGCTCATATTCATATAGATGTTAATAAATGTAGACATATTCGTATGTCTAGATTCATTAATATTTATAT[GAATATGA/AAATATGA]
GTAATGCTAGAAAATCTTACATTATGAAACGGAGGGAGTATATTTTAGGGGCGGAGGGAGTAGCCTTCTTTTCGTTTTCTGGCCAGTGCTTTTACATTCT

Allele Frequencies:

Search:

Populations	Population Size	Frequency of TCATATTC(primary allele)	Frequency of TCATATTT(secondary allele)	Frequency of N	Frequency of DEL	Frequency of others Allele
All	774	98.80%	0.30%	0.90%	0.00%	NA
All Indica	492	99.00%	0.40%	0.61%	0.00%	NA
All Japonica	244	99.60%	0.00%	0.41%	0.00%	NA
Aus	7	85.70%	0.00%	14.29%	0.00%	NA
Indica I	492	99.00%	0.40%	0.61%	0.00%	NA
Indica II	215	100.00%	0.00%	0.00%	0.00%	NA
Indica III	21	100.00%	0.00%	0.00%	0.00%	NA
Indica Intermediate	190	97.40%	1.10%	1.58%	0.00%	NA
Temperate Japonica	189	99.50%	0.00%	0.53%	0.00%	NA
Tropical Japonica	36	100.00%	0.00%	0.00%	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	97.00%	0.90%	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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