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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGAGTTCAATGCACGCAAGCCCGAGGAGAGGAATGTCTTCAAAGGAATAACGAAAAACCATCTCTTCATGGGAATAATTGCTATAACTACTGTATTTCAGgtaacaactgatagtgttctttcgctgaatgccctatcatccttaccacatgaattgctgataaagttgctgtcctgttcggcag

Basic information

species Oryza sativa
transcript LOC_Os08g40530.1
intron # 16
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g40530.1 (Oryza sativa), 5'ss of exon 16
lower sequence: AC214484.3_FGT001 (Zea mays), 5'ss of exon 5
CGAGTTCAATGCACGCAAGCCCGAGGAGAGGAATGTCTTCAAAGGAATAACGAAAAACCATCTCTTCATGGGAATAATTGCTATAACTACTGTATTTCAGgtaacaactgatagtgttctttcgctgaatgccctatcatccttaccacatgaattgctgataaagttgctgtcctgttcggcag
 |||||||||||||| || |||||||| | |||||||||||||||    ||||| || || || |||||||||||||| | |||||| || |||||||||||||||   ||||  | |  |   |  | ||   ||||| |  |  | ||||  |     ||||||||||| || | || |||||
TGAGTTCAATGCACGAAAACCCGAGGAAAAGAATGTCTTCAAAGGGGCCACGAAGAATCACCTGTTCATGGGAATAATCGGTATAACGACAGTATTTCAGgtaacagaagatatagattctctcc--attgg--tatcacctctgtc-catggtt-----ataaagttgctctcgtctttggcag

upper sequence: LOC_Os08g40530.1 (Oryza sativa), 5'ss of exon 16
lower sequence: GRMZM2G132712_T03 (Zea mays), 5'ss of exon 32
CGAGTTCAATGCACGCAAGCCCGAGGAGAGGAATGTCTTCAAAGGAATAACGAAAAACCATCTCTTCATGGGAATAATTGCTATAACTACTGTATTTCAGgtaacaactgatagtgttctttcgctgaatgccctatcatccttaccacatgaattgctgataaagttgctgtcctgttcggcag
 |||||||||||||| || |||||||| | |||||||||||||||  | ||||| || || || |||||||||||||| | |||||| || |||||||||||||||   ||||  | |  |   |  | ||   ||||| |  |  | ||||  |     ||||||||||| || | || |||||
TGAGTTCAATGCACGAAAACCCGAGGAAAAGAATGTCTTCAAAGGGGTCACGAAGAATCACCTGTTCATGGGAATAATCGGTATAACGACAGTATTTCAGgtaacatacgatatagattctctcc--attgg--tatcacctctgtc-catggtt-----ataaagttgctctcgtctttggcag

upper sequence: LOC_Os08g40530.1 (Oryza sativa), 5'ss of exon 16
lower sequence: GRMZM2G309782_T01 (Zea mays), 5'ss of exon 4
CGAGTTCAATGCACGCAAGCCCGAGGAGAGGAATGTCTTCAAAGGAATAACGAAAAACCATCTCTTCATGGGAATAATTGCTATAACTACTGTATTTCAGgtaacaactgatagtgttctttcgctgaatgccctatcatccttaccacatgaattgctgataaagttgctgtcctgttcggcag
 |||||||||||||| || |||||||| | |||||||||||||||  | ||||| || || || |||||||||||||| | |||||| || |||||||||||||||   ||||  | |  |   |  | ||   ||||| |  |  | ||||  |     ||||||||||| || | || |||||
TGAGTTCAATGCACGAAAACCCGAGGAAAAGAATGTCTTCAAAGGGGTCACGAAGAATCACCTGTTCATGGGAATAATCGGTATAACGACAGTATTTCAGgtaacagacgatatagattctctcc--attgg--tatcacctctgtc-catggtt-----ataaagttgctctcgtctttggcag

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|29665351|gb|CB661626.1|CB661626
EST:     CGAAAAACCATCTCTTCATGGGAATAATTGCTATAACTACTGTATTTCAG                         ATACTAATTATTGAGGTCCTGGGAAAGTTCTTCAAAACT
genomic: CGAAAAACCATCTCTTCATGGGAATAATTGCTATAACTACTGTATTTCAGgtaacaactg ... tgttcggcagATACTAATTATTGAGTTCCTGGGAAAGTTCTTCAAAACT
EST: gi|33812490|gb|CF332133.1|CF332133
EST:     CGAAAAACCATCTCTTCATGGGAATAATTGCTATAACTACTGTATTTCAG                         ATACTAATTATTGAGTTCCTGGGAAAGTTCTTCAAAACTGTGAGACTTAAT
genomic: CGAAAAACCATCTCTTCATGGGAATAATTGCTATAACTACTGTATTTCAGgtaacaactg ... tgttcggcagATACTAATTATTGAGTTCCTGGGAAAGTTCTTCAAAACTGTGAGACTTAAT
EST: gi|58690194|gb|CK078881.1|CK078881
EST:     CGAAAAACCACCTCTTCATGGGAATAATTGCTATAACTACTGTATTTCAG                         ATACTAATTATTGAGTTCCTGGGAAAGTTCTTCAAAACTGTGAGACTTAAT
genomic: CGAAAAACCATCTCTTCATGGGAATAATTGCTATAACTACTGTATTTCAGgtaacaactg ... tgttcggcagATACTAATTATTGAGTTCCTGGGAAAGTTCTTCAAAACTGTGAGACTTAAT
EST: gi|23322134|gb|BU572379.1|BU572379
EST:     CGAAAAACCACCTCTTCATGGGAATAATTGCTATAACTACTGTATTTCAG                         ATACTAATTATTGAGTTCCTGGGAAAGTTCTTCAAAACTGTGAGACTTAAT
genomic: CGAAAAACCATCTCTTCATGGGAATAATTGCTATAACTACTGTATTTCAGgtaacaactg ... tgttcggcagATACTAATTATTGAGTTCCTGGGAAAGTTCTTCAAAACTGTGAGACTTAAT