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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGTACGTGCGGAACTCGAGAGGGGTGCAGCTCTTCACCTGCGGCTGGCTGCCCGCCAAAACGTCGCCCAAGGCCCTCGTCTTCCTCTGCCACGgtacgtatgtagtactagattcaaagctcgatagctagctgcatatgcattgagcaaaagaaccaaccgagaatgaactttgtctttgtttctctctgaaatttttagacggaaacgagattgttctcatgtttcgaggctaattgattcttgttgttttgtttctgtgtgttgttcatcag

Basic information

species Oryza sativa
transcript LOC_Os01g21300.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g21300.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G080320_T03 (Zea mays), 5'ss of exon 2
GAGTACGTGCGGAACTCGAGAGGGGTGCAGCTCTTCACCTGCGGCTGGCTGCCCGCCAAAACGTCGCCCAAGGCCCTCGTCTTCCTCTGCCACGgtacgtatgtagtactagattcaaagctcgatagctagctgcatatgcattgagcaaaagaaccaaccgagaatgaactttgtctttgtttctctctgaaatttttagacggaaacgagattgttctcatgtttcgaggctaattgattcttgtt-gttttgtttctgt--gtgttgttcatcag-----
||||||||||||| ||||||||| ||||||||||||||||||||||||||||||||     | ||||||||||| ||||||||||||||||||||        ||||| |  |  || | | |   ||   ||||||  ||||  | |     || |  | |          ||    |     | |  |||  || |||  |  |    |   | ||| ||   ||   ||     | | ||  |  | ||| |  ||  ||  |||| |||  ||       
GAGTACGTGCGGAGCTCGAGAGGCGTGCAGCTCTTCACCTGCGGCTGGCTGCCCGCTGCCGCATCGCCCAAGGCGCTCGTCTTCCTCTGCCACGg--------tagtaatcaagccacaccgctgcaggctgctgcac-tgcac-gcgttgttgagcttagctgtttcctgtttcagttactactatacctgttatctttccattgcgttggtgtcgtt-tctcattaacagctctttcggttactactcgttctcattgcgttggtgtcgtttctcgccgcag

upper sequence: LOC_Os01g21300.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G080320_T04 (Zea mays), 5'ss of exon 2
---GAGTACGTGCGGAACTCGAGAGGGGTGCAGCTCTTCACCTGCGGCTGGCTGCCCGCCAAAACGTCGCCCAAGGCCCTCGTCTTCCTCTGCCACGgtacgtatgtagtactagattcaaagctcgatagctagctgcatatgcattgagcaaaagaaccaaccgagaatgaactttgtctttgtttctctctgaaatttttagacggaaacgagattgttctcatgtttcgaggctaattgattcttgtt-gttttgtttctgt--gtgttgttcatcag-----
   ||||||||||||| ||||||||| ||||||||||||||||||||||||||||||||     | ||||||||||| ||||||||||||||||||||        ||||| |  |  || | | |   ||   ||||||  ||||  | |     || |  | |          ||    |     | |  |||  || |||  |  |    |   | ||| ||   ||   ||     | | ||  |  | ||| |  ||  ||  |||| |||  ||       
CAGGAGTACGTGCGGAGCTCGAGAGGCGTGCAGCTCTTCACCTGCGGCTGGCTGCCCGCTGCCGCATCGCCCAAGGCGCTCGTCTTCCTCTGCCACGg--------tagtaatcaagccacaccgctgcaggctgctgcac-tgcac-gcgttgttgagcttagctgtttcctgtttcagttactactatacctgttatctttccattgcgttggtgtcgtt-tctcattaacagctctttcggttactactcgttctcattgcgttggtgtcgtttctcgccgcag

upper sequence: LOC_Os01g21300.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G080320_T02 (Zea mays), 5'ss of exon 2
GAGTACGTGCGGAACTCGAGAGGGGTGCAGCTCTTCACCTGCGGCTGGCTGCCCGCCAAAACGTCGCCCAAGGCCCTCGTCTTCCTCTGCCACGgtacgtatgtagtactagattcaaagctcgatagctagctgcatatgcattgagcaaaagaaccaaccgagaatgaactttgtctttgtttctctctgaaatttttagacggaaacgagattgttctcatgtttcgaggctaattgattcttgtt-gttttgtttctgt--gtgttgttcatcag-----
                              ||||||||||||||||||||||||||     | ||||||||||| ||||||||||||||||||||        ||||| |  |  || | | |   ||   ||||||  ||||  | |     || |  | |          ||    |     | |  |||  || |||  |  |    |   | ||| ||   ||   ||     | | ||  |  | ||| |  ||  ||  |||| |||  ||       
------------------------------CTCTTCACCTGCGGCTGGCTGCCCGCTGCCGCATCGCCCAAGGCGCTCGTCTTCCTCTGCCACGg--------tagtaatcaagccacaccgctgcaggctgctgcac-tgcac-gcgttgttgagcttagctgtttcctgtttcagttactactatacctgttatctttccattgcgttggtgtcgtt-tctcattaacagctctttcggttactactcgttctcattgcgttggtgtcgtttctcgccgcag

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|2442763|gb|C74534.1|C74534
EST:     CTGGCTGCCCGCCAAAACGTCGCCCAAGGCCCTCGTCTTCCTCTGCCACG                         GCTATGCCATGGAGTNCAGCGGCTACATGAGAG
genomic: CTGGCTGCCCGCCAAAACGTCGCCCAAGGCCCTCGTCTTCCTCTGCCACGgtacgtatgt ... tgttcatcagGCTATGCCATGGAGTGCAGCGGCTACATGAGAG