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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGGGATGGCGCAGAAGGAGGCCAATGGCAGCAGCAACGGGGAGCACACCACCCGCCCGCCGCCGACGCCCTCGCCGCTCCGGTTCTCCAAGTTCTTCCAGgtgattttgccgggatccgatcgctggatctcgccgtatacgtggcccgatcgctcgacctggtctgattgttcgtgggtgtttgtgtgtgtgtgcag

Basic information

species Oryza sativa
transcript LOC_Os03g16980.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g16980.4 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G044027_T02 (Zea mays), 5'ss of exon 2
CGGGATGGCGCAGAAGGAGGCCAATGGCAGCAGCAACGGGGAGCACACCACCCGCCCGCCGCCGACGCCCTCGCCGCTCCGGTTCTCCAAGTTCTTCCAGgtgattttgccggg-atccgatcgctggatctc-----------------gccgtatacgt-----ggcccgatcgctcgacctgg--tctgattgttcgtgggtgtttgtgtgtgtgtgcag
|| |||||||||||||||| |||||||||||| |  || | |   | ||||||||||||||||||| || ||||| ||||| |||||||||||||||||||| |    ||     |||  | |||||||||||                 ||| | || |      |||| | ||||  |  | ||   ||||||    |||     |||    |   | |||
CGCGATGGCGCAGAAGGAGACCAATGGCAGCAACGGCGAGCACATCTCCACCCGCCCGCCGCCGACCCCGTCGCCCCTCCGCTTCTCCAAGTTCTTCCAGgtcacagcgcgatctatctcaacgctggatctctgtttcacttgccgcgagccatgtatggttcagggcctgctcgcgtgttccggatcctgattaccggtgccaaattgctgcttgatccag

upper sequence: LOC_Os03g16980.4 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G165357_T02 (Zea mays), 5'ss of exon 1
CGGGATGGCGCAGAAGGAGGCCAATGGCAGCAGCAACGGGGAGCACACCACCCGCCCGCCGCCGACGCCCTCGCCGCTCCGGTTCTCCAAGTTCTTCCAGgtga-----ttttgccgggatccgatcgctggatc--tcgccgt-atacgtgg-cccgatcgctcgacctgg--tctgattgttcgtgggtgtttgtgtgtgtgtgcag
|| |||||||||||||||| | |||||||||| |  ||   |   | ||||||||||||||||||| |||||||| ||||| |||||||||||||| |||||||     |  |  ||      |||| ||   ||  || |||| | || ||| |  | ||||  |  | |    |||||| || |||     |||    |   | |||
CGCGATGGCGCAGAAGGAGACTAATGGCAGCAACGGCGATCACATCTCCACCCGCCCGCCGCCGACCCCCTCGCCCCTCCGCTTCTCCAAGTTCTTTCAGgtgagagcgtgatctcgactctggatctctatttcactcaccgttagacatgggcttgttcgcgtgttccgaatcctgatttttggtgcccaattgctgtttgatccag
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|29668686|gb|CB664961.1|CB664961
EST:     CCCGCCCGCCGCCGACGCCCTCGCCGCTCCGGTTCTCCAAGTTCTTCCAG                         GCGAACCTGAGGATCCTCGTCACCGGCGGAGCTGGCTTCATCGGCTCGCAC
genomic: CCCGCCCGCCGCCGACGCCCTCGCCGCTCCGGTTCTCCAAGTTCTTCCAGgtgattttgc ... gtgtgtgcagGCGAACCTGAGGATCCTCGTCACCGGCGGAGCTGGCTTCATCGGCTCGCAC
EST: gi|58659240|gb|CK047920.1|CK047920
EST:     CCCGCCCGCCGCCGACGCCCTCGCCGCTCCGGTTCTCCAAGTTCTTCCAG                         GCGAACCTGAGGATCCTCGTCACCGGCGGAGCTGGCTTCATCGGCTCGCAC
genomic: CCCGCCCGCCGCCGACGCCCTCGCCGCTCCGGTTCTCCAAGTTCTTCCAGgtgattttgc ... gtgtgtgcagGCGAACCTGAGGATCCTCGTCACCGGCGGAGCTGGCTTCATCGGCTCGCAC
EST: gi|313080404|gb|HO213412.1|HO213412
EST:     CTCGCCGCTCCGGTTCTCCAAGTTCTTCCAG                         GCGAACCTGAGGATCCTCGTCACCGGCGGAGCTGGCTTCATCGGCTCGCAC
genomic: CTCGCCGCTCCGGTTCTCCAAGTTCTTCCAGgtgattttgc ... gtgtgtgcagGCGAACCTGAGGATCCTCGTCACCGGCGGAGCTGGCTTCATCGGCTCGCAC
EST: gi|30229035|gb|CB966926.1|CB966926
EST:     CCCGCCCGCCGCCGACGCCCTCGCCGCTCCGGTTCTCCAAGTTCTTCCAG                         GCGAACCTGAGGATCCTCGTCACCGGCGGAGCTGGCTTCATCGGCTCGCAC
genomic: CCCGCCCGCCGCCGACGCCCTCGCCGCTCCGGTTCTCCAAGTTCTTCCAGgtgattttgc ... gtgtgtgcagGCGAACCTGAGGATCCTCGTCACCGGCGGAGCTGGCTTCATCGGCTCGCAC
EST: gi|30228342|gb|CB966233.1|CB966233
EST:     CCCGCCCGCCGCCGACGCCCTCGCCGCTCCGGTTCTCCAAGTTCTTCCAG                         GCGAACCTGAGGATCCTCGTCACCGGCGGAGCTGGCTTCATCGGCTCGCAC
genomic: CCCGCCCGCCGCCGACGCCCTCGCCGCTCCGGTTCTCCAAGTTCTTCCAGgtgattttgc ... gtgtgtgcagGCGAACCTGAGGATCCTCGTCACCGGCGGAGCTGGCTTCATCGGCTCGCAC
EST: gi|29668646|gb|CB664921.1|CB664921
EST:     CGCCCGACGACGACGCCCTCAGGCGCGTCCGGTTCTCCAAGTTCTTCCAG                         GCGAACCTGAGGATCCTCGTCACCGGCGGAGCTGGCTTCATCGGCTCGCAC
genomic: CGCCCGCCGCCGACGCCCTC-GCCGC-TCCGGTTCTCCAAGTTCTTCCAGgtgattttgc ... gtgtgtgcagGCGAACCTGAGGATCCTCGTCACCGGCGGAGCTGGCTTCATCGGCTCGCAC
EST: gi|58672962|gb|CK061648.1|CK061648
EST:     CCCGCCCGCCGCCGACGCCCTCGCCGCTCCGGTTCTCCAAGTTCTTCCAG                         GCGAACCTGAGGATCCTCGTCACCGGCGGAGCTGGCTTCATCGGCTCGCAC
genomic: CCCGCCCGCCGCCGACGCCCTCGCCGCTCCGGTTCTCCAAGTTCTTCCAGgtgattttgc ... gtgtgtgcagGCGAACCTGAGGATCCTCGTCACCGGCGGAGCTGGCTTCATCGGCTCGCAC
EST: gi|58654932|gb|CK043612.1|CK043612
EST:     CCCGCCCGCCGCCGACGCCCTCGCCGCTCCGGTTCTCCAAGTTCTTCCAG                         GCGAACCTGAGGATCCTCGTCACCGGCGGAGCTGGCTTCATCGGCTCGCAC
genomic: CCCGCCCGCCGCCGACGCCCTCGCCGCTCCGGTTCTCCAAGTTCTTCCAGgtgattttgc ... gtgtgtgcagGCGAACCTGAGGATCCTCGTCACCGGCGGAGCTGGCTTCATCGGCTCGCAC
EST: gi|58656016|gb|CK044696.1|CK044696
EST:     CCAAGTTCTTCCAG                         GCGAACCTGAGGATCCTCGTCACCGGCGGAGCTGGCTTCATCGGCGCGCAC
genomic: CCAAGTTCTTCCAGgtgattttgc ... gtgtgtgcagGCGAACCTGAGGATCCTCGTCACCGGCGGAGCTGGCTTCATCGGCTCGCAC
EST: gi|58659773|gb|CK048453.1|CK048453
EST:     CCCGCCCGCCGCCGACGCCCTCGCCGCTCCGGTTCTCCAAGTTCTTCCAG                         GCGAACCTGAGGATCCTCGTCACCGGCGGAGCTGGCTTCATCGGCTCGCAC
genomic: CCCGCCCGCCGCCGACGCCCTCGCCGCTCCGGTTCTCCAAGTTCTTCCAGgtgattttgc ... gtgtgtgcagGCGAACCTGAGGATCCTCGTCACCGGCGGAGCTGGCTTCATCGGCTCGCAC
EST: gi|30226636|gb|CB964528.1|CB964528
EST:     CCCGCCCGCCGCCGACGCCCTCGCCGCTCCGGTTCTCCAAGTTCTTCCAG                         GCGAACCTGAGGATCCTCGTCACCGGCGGAGCTGGCTTCATCGGCTCGCAC
genomic: CCCGCCCGCCGCCGACGCCCTCGCCGCTCCGGTTCTCCAAGTTCTTCCAGgtgattttgc ... gtgtgtgcagGCGAACCTGAGGATCCTCGTCACCGGCGGAGCTGGCTTCATCGGCTCGCAC