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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCACCGGGCATCGTGCTCAACGCCGCCACCTCCTTCTGGCTCCCCGTCCCTCCCGCCGCCGTCTTCGACTTCCTCCGCGACGAGACCTCTCGCAGCGAGgtgcccaatttgccccccatccctagggaatttatccaatttgctgaccaaattttatacgtgatcaaattcattcctgacgagtttggatttccgcag

Basic information

species Oryza sativa
transcript LOC_Os08g08820.2
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g08820.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G118063_T03 (Zea mays), 5'ss of exon 9
GCCACCGGGCATCGTGCTCAACGCCGCCACCTCCTTCTGGCTCCCCGTCCCTCCCGCCGCCGTCTTCGACTTCCTCCGCGACGAGACCTCTCGCAGCGAGgtgcccaatttgccccccatccctagggaatttatccaatt--tgctgaccaaattttatacgtgatcaaattcattcctgacgagtttggatttccgcag
||| ||||||||||| |||||||| ||||||||||||||||| || ||||| |||      ||||||||||||||||||||||||||||||||||||||||| |  |   |||    ||| | |     ||    |  |     |||  |    | |    |     | |   || | |   |  ||    ||    ||||
GCCGCCGGGCATCGTCCTCAACGCTGCCACCTCCTTCTGGCTGCCTGTCCCGCCCAAGAGGGTCTTCGACTTCCTCCGCGACGAGACCTCTCGCAGCGAGgtacgta-cgtgcgtgtcatgcatgtccgatcctacgtaccaacgctctctctctctacctctctcccgatgacactgcatgcatgtcaatataattgcag

upper sequence: LOC_Os08g08820.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G130442_T02 (Zea mays), 5'ss of exon 8
GCCACCGGGCATCGTGCTCAACGCCGCCACCTCCTTCTGGCTCCCCGTCCCTCCCGCCGCCGTCTTCGACTTCCTCCGCGACGAGACCTCTCGCAGCGAGgtgc-ccaatttgccccccatccctagggaatttatccaatttgctgaccaaattttatacgtgatcaaattcattcctgacgagtttggatttccgcag-----
||| ||||||||||| ||||| || ||||||||||||||||| |||||||| |||      |||||||| ||||||||||| ||||||||||||||||||||    ||    || ||  ||      || | |||| |||||    ||| |||     ||   |   ||| | |     |||   |||  || || |  |     
GCCGCCGGGCATCGTCCTCAATGCTGCCACCTCCTTCTGGCTGCCCGTCCCACCCAAGAGGGTCTTCGATTTCCTCCGCGATGAGACCTCTCGCAGCGAGgtatgtcacagcgcaccagattatattggtacttatacaattga--gactaaaacagttagaagccgaaactaaag--agacacattta-atatcaggtgtatcc
















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|29615070|gb|CB620083.1|CB620083
EST:     CTCCCGCCGCCGTCTTCGACTTCCTCCGTGACGAGACCTCTCGCAGCGAG                         TGGGACATTCTGTCCAACGGCGGCGCCGTCCAAGAAATGGCTCACATTGCC
genomic: CTCCCGCCGCCGTCTTCGACTTCCTCCGCGACGAGACCTCTCGCAGCGAGgtgcccaatt ... atttccgcagTGGGACATTCTGTCCAACGGCGGCGCCGTCCAAGAAATGGCTCACATTGCC
EST: gi|88689663|gb|CI733239.1|CI733239
EST:     CTCCCGCCGCCGTCTTCGACTTCCTCCGCGACGAGACCTCTCGCAGCGAG                         TGGGACATTCTGTCCAACGGCGGCGCCGTCCAAGAAATGGCTCACATTGCC
genomic: CTCCCGCCGCCGTCTTCGACTTCCTCCGCGACGAGACCTCTCGCAGCGAGgtgcccaatt ... atttccgcagTGGGACATTCTGTCCAACGGCGGCGCCGTCCAAGAAATGGCTCACATTGCC
EST: gi|4716207|gb|AU057323.1|AU057323
EST:     CGACGAGACCNCTCGCAGCGAG                         TNGGACATTCTGTCCAACGGCGGCG-CGTCCAAGAAATGGCTCACATTGCC
genomic: CGACGAGACCTCTCGCAGCGAGgtgcccaatt ... atttccgcagTGGGACATTCTGTCCAACGGCGGCGCCGTCCAAGAAATGGCTCACATTGCC
EST: gi|29615392|gb|CB620404.1|CB620404
EST:     CTCCCGCCGCCGTCTTCGACTTCCTCCGTGACGAGACCTCTCGCAGCGAG                         TGGGACATTCTGTCCAACGGCGGCGCCGTCCAAGAAATGGCTCACATTGCC
genomic: CTCCCGCCGCCGTCTTCGACTTCCTCCGCGACGAGACCTCTCGCAGCGAGgtgcccaatt ... atttccgcagTGGGACATTCTGTCCAACGGCGGCGCCGTCCAAGAAATGGCTCACATTGCC