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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATTGAGTCAGTGAGAAAAGAATTGCAGTCAATGCACCCGGAAGATAGGCATATTGTTGTTCTCAAGCACAACGTTTGGCGTGTAAAAGGTCTAATTCAGgtgagttctctatcactatgaacacagttttagctttgaagaagtttgattgaaggatcatttcatattgcctcctgcatctgccattattcccatcatc...

Basic information

species Oryza sativa
transcript LOC_Os06g50380.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g50380.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G069970_T02 (Zea mays), 5'ss of exon 3
CATTGAGTCAGTGAGAAAAGAATTGCAGTCAATGCACCCGGAAGATAGGCATATTGTTGTTCTCAAGCACAACGTTTGGCGTGTAAAAGGTCTAATTCAGgtgagttctctatcactatgaacacagttttagctttgaagaagtttgattgaaggatcatttcatattgcctcctgcatctgccattattcccatcatc--
 ||||||||||||||||||||| |||||||||||||||| ||||||||||| |||||||||||||||||||| ||||||||||||||||| |||||||||||| ||  |||||  ||  ||| |||  | ||||||| | ||  |||| | |||   |||| ||||    |    ||   | ||      ||| |   |   
TATTGAGTCAGTGAGAAAAGAACTGCAGTCAATGCACCCAGAAGATAGGCACATTGTTGTTCTCAAGCACAATGTTTGGCGTGTAAAAGGACTAATTCAGgtgtgtattctatatctgagaa-acatctgtagctttca-gatttttgttagaattgtcatctcatggctctgtttggtacagctccagctccaagtttttt

upper sequence: LOC_Os06g50380.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G151254_T02 (Zea mays), 5'ss of exon 3
CATTGAGTCAGTGAGAAAAGAATTGCAGTCAATGCACCCGGAAGATAGGCATATTGTTGTTCTCAAGCACAACGTTTGGCGTGTAAAAGGTCTAATTCAGgtgagttctctatcactatgaacacagttttagctttgaagaagtttgattgaaggatcatttcatattgcctcctgcatctgccattattcccatcatc----
 |||| ||| |||||||||||| |||||||||||||||| ||||||||||| |||||||||||||||||||| ||||||||||| ||||| |||||||||||| ||  |||||  ||  |||| || ||  |||||| |   | |||| | |||   ||||  |||    ||| ||   |    |    |  |||  ||     
TATTGCGTCCGTGAGAAAAGAACTGCAGTCAATGCACCCAGAAGATAGGCACATTGTTGTTCTCAAGCACAATGTTTGGCGTGTTAAAGGACTAATTCAGgtgtgtattctatatctgagaac-catttacagctttcag--attttgttagaattgtcatcacatggc-cctgctcggtacaactccctctccaagatttttt
















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|29646161|gb|CB651168.1|CB651168
EST:     ATATTGTTGTTCTCAAGCACAACGTTTGGCGTGTAAAAGGTCTAATTCAG                         GTCTGCAGATCAATTGGTGATGCCTATCTCAAAAGATCAGAGTTCAACCGG
genomic: ATATTGTTGTTCTCAAGCACAACGTTTGGCGTGTAAAAGGTCTAATTCAGgtgagttctc ... tattttgcagGTCTGCAGATCAATTGGTGATGCCTATCTCAAAAGATCAGAGTTCAACCGG
EST: gi|87023874|gb|CI288227.1|CI288227
EST:     ATATTGTTGTTCTCAAGCACAACGTTTGGCGTGTAAAAGGTCTAATTCAG                         GTCTGCAGATCAATTGGTGATGCCTATCTCAAAAGATCAGAGTTCAACCGG
genomic: ATATTGTTGTTCTCAAGCACAACGTTTGGCGTGTAAAAGGTCTAATTCAGgtgagttctc ... tattttgcagGTCTGCAGATCAATTGGTGATGCCTATCTCAAAAGATCAGAGTTCAACCGG
EST: gi|87023875|gb|CI288228.1|CI288228
EST:     ATATTGTTGTTCTCAAGCACAACGTTTGGCGTGTAAAAGGTCTAATTCAG                         GTCTGCAGATCAATTGGTGATGCCTATCTCAAAAGATCAGAGTTCAACCGG
genomic: ATATTGTTGTTCTCAAGCACAACGTTTGGCGTGTAAAAGGTCTAATTCAGgtgagttctc ... tattttgcagGTCTGCAGATCAATTGGTGATGCCTATCTCAAAAGATCAGAGTTCAACCGG
EST: gi|33793893|gb|CF322835.1|CF322835
EST:     ATATTGTTGTTCTCAAGCACAACGTTTGGCGTGTAAAAGGTCTAATTCAG                         GTCTGCAGATCAATTGGTGATGCCTATCTCAAAAGATCAGAGTTCAACCGG
genomic: ATATTGTTGTTCTCAAGCACAACGTTTGGCGTGTAAAAGGTCTAATTCAGgtgagttctc ... tattttgcagGTCTGCAGATCAATTGGTGATGCCTATCTCAAAAGATCAGAGTTCAACCGG
EST: gi|58679941|gb|CK068628.1|CK068628
EST:     ATA-TGTTGTTCTCAAGCACAACGTTTGGCGTGTAAAAGGTCTAATTCAG                         GTCTGCAGATCAATTGGTGATGCCTATCTCAAAAGATCAGAGTTCAACCGG
genomic: ATATTGTTGTTCTCAAGCACAACGTTTGGCGTGTAAAAGGTCTAATTCAGgtgagttctc ... tattttgcagGTCTGCAGATCAATTGGTGATGCCTATCTCAAAAGATCAGAGTTCAACCGG
EST: gi|29677203|gb|CB673478.1|CB673478
EST:     ATATTGTTGTTCTCAAGCACAACGTTTGGCGTGTAAAAGGTCTAATTCAG                         GTCTGCAGATCAATTGGTGATGCCTATCTCAAAAGATCAGAGTTCAACCGG
genomic: ATATTGTTGTTCTCAAGCACAACGTTTGGCGTGTAAAAGGTCTAATTCAGgtgagttctc ... tattttgcagGTCTGCAGATCAATTGGTGATGCCTATCTCAAAAGATCAGAGTTCAACCGG
EST: gi|87024482|gb|CI290012.1|CI290012
EST:     ATATTGTTGTTCTCAAGCACAACGTTTGGCGTGTAAAAGGTCTAATTCAG                         GTCTGCAGATCACGTGGTGATGCCTATCTCAAAAGATCAGAGTTCAACCGG
genomic: ATATTGTTGTTCTCAAGCACAACGTTTGGCGTGTAAAAGGTCTAATTCAGgtgagttctc ... tattttgcagGTCTGCAGATCAATTGGTGATGCCTATCTCAAAAGATCAGAGTTCAACCGG