RiceVarMap2

Search for Variation information by Variation ID:

Flanking Sequence (100 bp) in Reference Genome:

ATAGTGAACCATAATTCTGATTTTTATGTGGAATACATTGAATACAAATCTACCAAGTTTCTTCAAAGACATCACTTTGCTTGGCTAGCATTATCAGAAG[TTT/TTTT]
TTTTTATAAAAAAAGTCAAGAGTATGGAACTAAATCTGTGATTCCATGACTGGTGCAACAGTTGCTTCAAATAGTCAATTAGGAAACAAAACCCTGCATA

Reverse complement sequence

TATGCAGGGTTTTGTTTCCTAATTGACTATTTGAAGCAACTGTTGCACCAGTCATGGAATCACAGATTTAGTTCCATACTCTTGACTTTTTTTATAAAAA[AAA/AAAA]
CTTCTGATAATGCTAGCCAAGCAAAGTGATGTCTTTGAAGAAACTTGGTAGATTTGTATTCAATGTATTCCACATAAAAATCAGAATTATGGTTCACTAT

Allele Frequencies:

Search:

Populations	Population Size	Frequency of TTT(primary allele)	Frequency of TTTT(secondary allele)	Frequency of N	Frequency of DEL	Frequency of others Allele
All	774	96.90%	2.30%	0.78%	0.00%	NA
All Indica	492	97.40%	1.80%	0.81%	0.00%	NA
All Japonica	244	99.60%	0.00%	0.41%	0.00%	NA
Aus	7	0.00%	85.70%	14.29%	0.00%	NA
Indica I	492	97.40%	1.80%	0.81%	0.00%	NA
Indica II	215	98.10%	1.40%	0.47%	0.00%	NA
Indica III	21	85.70%	14.30%	0.00%	0.00%	NA
Indica Intermediate	190	95.80%	3.20%	1.05%	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	77.80%	22.20%	0.00%	0.00%	NA
Intermediate	231	96.10%	3.10%	0.87%	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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