RiceVarMap2

Search for Variation information by Variation ID:

Flanking Sequence (100 bp) in Reference Genome:

AAGGATGAGATAGGTTCGACCCATCGCATGAGCTACCTGGGAAGGATTAAAATCATTCAGAAGGACAAGGATCCCAGCAGTGACACTAAACAAGGCATCT[GCA/GCC]
GCAGCACGATCAGCATACTCAGTAGGATAAAAGTAGAGGCGAAGGAACACACGACCAGGGTTAAGACCAAACCAATATGTGAAATTGGAACTAAATATGC

Reverse complement sequence

GCATATTTAGTTCCAATTTCACATATTGGTTTGGTCTTAACCCTGGTCGTGTGTTCCTTCGCCTCTACTTTTATCCTACTGAGTATGCTGATCGTGCTGC[TGC/GGC]
AGATGCCTTGTTTAGTGTCACTGCTGGGATCCTTGTCCTTCTGAATGATTTTAATCCTTCCCAGGTAGCTCATGCGATGGGTCGAACCTATCTCATCCTT

Allele Frequencies:

Search:

Populations	Population Size	Frequency of GCA(primary allele)	Frequency of GCC(secondary allele)	Frequency of N	Frequency of DEL	Frequency of others Allele
All	774	97.90%	1.20%	0.90%	0.00%	NA
All Indica	492	96.70%	1.90%	1.42%	0.00%	NA
All Japonica	244	100.00%	0.00%	0.00%	0.00%	NA
Aus	7	100.00%	0.00%	0.00%	0.00%	NA
Indica I	492	96.70%	1.90%	1.42%	0.00%	NA
Indica II	215	98.60%	1.40%	0.00%	0.00%	NA
Indica III	21	90.50%	9.50%	0.00%	0.00%	NA
Indica Intermediate	190	96.30%	1.60%	2.11%	0.00%	NA
Temperate Japonica	189	100.00%	0.00%	0.00%	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%	1.30%	1.73%	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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