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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGCTCCTCCTGCCGCGCTCCGAGGGCGCCGTCGCCGGGGCCGTCGACTTCCGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAATgttcgtcctcggtacgcccaatctccccctcctccccgaaccccaactcccgaggatcgattgagtgaaattttgtggattttggatgtgaaaag

Basic information

species Oryza sativa
transcript LOC_Os01g65100.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g65100.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G400602_T01 (Zea mays), 5'ss of exon 1
CGCTCCTCCTGCCGCGCTCCGAGGGCGCCGTCGCCGGGGCCGTCGACTTCCGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAATgttcgtcctcggtacg-----cccaatctccccctcctccccgaaccccaactcccgaggatcgatt--gagtgaaat--tttgtggattttggatgtgaaaag
           ||  ||||||| |||||||||||||| || || ||||||||||| ||||| || |||||  ||  ||||||||| ||||||||||| ||||||||||||||||||     |||  ||  | |      | ||  | |  |||   | ||  ||     | ||  | |  |     |   | ||||| |   ||
-----------CCCTGCTCCGACGGCGCCGTCGCCGGCGCGGTGGACTTCCGCGGGCGCCCCGCGTCCCGGTCCGGCACCGGCCGATGGTCCGCCGCGATGTTCGTCCTCGgtacggcgccccctgtcctcgctgggcacgcgcgcacacactgatgcggcgcgggccggggttgactaatcgagaggggtcggatgggtgcag
















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|29657453|gb|CB653728.1|CB653728
EST:     CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAATGTTCGTCCT                 
genomic: CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAA---------Tgttcgtcctc ... at
EST: gi|29657453|gb|CB653728.1|CB653728
EST:     CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAATGTTCGTCCT                 
genomic: CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAA---------Tgttcgtcctc ... at
EST: gi|29657453|gb|CB653728.1|CB653728
EST:     CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAATGTTCGTCCT                 
genomic: CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAA---------Tgttcgtcctc ... at
EST: gi|29681953|gb|CB678228.1|CB678228
EST:     CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAATGTTCGTCCT                 
genomic: CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAA---------Tgttcgtcctc ... at
EST: gi|29681953|gb|CB678228.1|CB678228
EST:     CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAATGTTCGTCCT                 
genomic: CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAA---------Tgttcgtcctc ... at
EST: gi|29681953|gb|CB678228.1|CB678228
EST:     CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAATGTTCGTCCT                 
genomic: CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAA---------Tgttcgtcctc ... at
EST: gi|29617558|gb|CB622570.1|CB622570
EST:     CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAATGTTCGTCCT                 
genomic: CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAA---------Tgttcgtcctc ... at
EST: gi|29617558|gb|CB622570.1|CB622570
EST:     CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAATGTTCGTCCT                 
genomic: CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAA---------Tgttcgtcctc ... at
EST: gi|29617558|gb|CB622570.1|CB622570
EST:     CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAATGTTCGTCCT                 
genomic: CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAA---------Tgttcgtcctc ... at
EST: gi|29632212|gb|CB637221.1|CB637221
EST:     CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAAT                         GGGTGGAGATCGCGGAGAGGTTCGCGTACCACGGCGTGTCGGCGAACCTGA
genomic: CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAATgttcgtcctc ... atgtgaaaagGGGTGGAGATCGCGGAGAGGTTCGCGTACCACGGCGTGTCGGCGAACCTGA
EST: gi|58587513|gb|CF985821.1|CF985821
EST:     CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAATGTTCGTCCT                 
genomic: CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAA---------Tgttcgtcctc ... at
EST: gi|58587513|gb|CF985821.1|CF985821
EST:     CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAATGTTCGTCCT                 
genomic: CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAA---------Tgttcgtcctc ... at
EST: gi|58587513|gb|CF985821.1|CF985821
EST:     CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAATGTTCGTCCT                 
genomic: CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAA---------Tgttcgtcctc ... at
EST: gi|29677445|gb|CB673720.1|CB673720
EST:     CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAATGTTCGTCCT                 
genomic: CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAA---------Tgttcgtcctc ... at
EST: gi|29677445|gb|CB673720.1|CB673720
EST:     CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAATGTTCGTCCT                 
genomic: CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAA---------Tgttcgtcctc ... at
EST: gi|29677445|gb|CB673720.1|CB673720
EST:     CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAATGTTCGTCCT                 
genomic: CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAA---------Tgttcgtcctc ... at
EST: gi|29660045|gb|CB656320.1|CB656320
EST:     CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAATGTTCGTCCT                 
genomic: CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAA---------Tgttcgtcctc ... at
EST: gi|29660045|gb|CB656320.1|CB656320
EST:     CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAATGTTCGTCCT                 
genomic: CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAA---------Tgttcgtcctc ... at
EST: gi|29660045|gb|CB656320.1|CB656320
EST:     CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAATGTTCGTCCT                 
genomic: CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAA---------Tgttcgtcctc ... at
EST: gi|29674560|gb|CB670835.1|CB670835
EST:     CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAATGTTCGTCCT                 
genomic: CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAA---------Tgttcgtcctc ... at
EST: gi|29674560|gb|CB670835.1|CB670835
EST:     CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAATGTTCGTCCT                 
genomic: CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAA---------Tgttcgtcctc ... at
EST: gi|29674560|gb|CB670835.1|CB670835
EST:     CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAATGTTCGTCCT                 
genomic: CGCGGCCGCCCGGCCTCCCGCGCCTCCACCGGCCGCTGGTCCGCCGCAA---------Tgttcgtcctc ... at