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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGCGCAGAGAGAATAAGCTAACCAAGTCGTCAATTATGGTTACCTCTGGTGCAAATCAGgtaatgcacatgctttccagtttccacctgatttattacagctttgtcatcttattccggttttcctctgtgtattttgccttgtttagctagactatag...

Basic information

species Oryza sativa
transcript LOC_Os01g08270.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g08270.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G107639_T01 (Zea mays), 5'ss of exon 4
CTGCGCAGAGAGAATAAGCTAACCAAGTCGTCAATTATGGTTACCTCTGGTGCAAATCAGgtaa--------tgcacatgctttccagttt-ccacctgatttattacagctttgtcatct-tattccggttttcctctgtgtattttgccttgtttagctagactatag---------------------------------------------------------------------
||  |||||||||||||||| ||||| || ||| | ||||| ||  ||||||||||||||||||        ||||  | ||  | | ||| ||   |  | | || ||  |  | | | | | | ||  ||| | |||||  |||    ||| |   |  | ||| |                                                                       
CTAAGCAGAGAGAATAAGCTTACCAAATCATCAGTCATGGTCACTGCTGGTGCAAATCAGgtaagttctgcctgcatttactacctattttgccttgtagtgttttccaaatgggccttatgtttcccaatttacttctgttaattacttctt-tgggggcacactcttctttcctgtttcactgctagaccttgatcttgtcttataatctggtcttttctaacattgattttttcag

upper sequence: LOC_Os01g08270.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G029135_T01 (Zea mays), 5'ss of exon 4
CTGCGCAGAGAGAATAAGCTAACCAAGTCGTCAATTATGGTTACCTCTGGTGCAAATCAGgtaatgcacatgctttccagttt-ccacctgatttattacagctttgtcatcttattccggttttcctctgtgtattttgccttgttta-gctagactatag
 | ||||||||||||||||| || ||||| ||| ||||||| ||  ||||||||||||| ||||   || |    |||||| |   |  || | | |    || |||| |  || |||    |   || | ||| | |    ||   || | |    ||  |
TTACGCAGAGAGAATAAGCTTACTAAGTCATCAGTTATGGTCACTGCTGGTGCAAATCAAgtaa-aaacttctcatccagtgtgttatatgttctctatttgccttgtaaagtt-ttcaaactggactttatgtttctcaatttacatatgtttttttactg
















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|396941342|gb|HO188551.1|HO188551
EST:     AGAATAAGCTAACCAAGTCGTCAATTATGGTTACCTCTGGTGCAAATCAG                         GCCTTTGTAAATGTGGTCCTCACCCTTTGTGATGCTGGGGATGCAGTTGTC
genomic: AGAATAAGCTAACCAAGTCGTCAATTATGGTTACCTCTGGTGCAAATCAGgtaatgcaca ... attttggcagGCCTTTGTAAATGTGGTCCTCACCCTTTGTGATGCTGGGGATGCAGTTGTC
EST: gi|88412148|gb|CI573424.1|CI573424
EST:     AGAATAAGCTAACCAAGTCGTCAATTATGGTTACCTCTGGTGCAAATCAG                         GCCTTTGTAAATGTGGTCCTCACCCTTTGTGATGCTGGGGATGCAGTTGTC
genomic: AGAATAAGCTAACCAAGTCGTCAATTATGGTTACCTCTGGTGCAAATCAGgtaatgcaca ... attttggcagGCCTTTGTAAATGTGGTCCTCACCCTTTGTGATGCTGGGGATGCAGTTGTC
EST: gi|66913374|gb|CX100222.1|CX100222
EST:     AGAATAAGCTAACCAAGTCGTCAATTATGGTTACCTCTGGTGCAAATCAN                         GCCTTTGTAAATGTGGTCCTCACCCTTTGTGATGCTGGGGATGCAGTTGTC
genomic: AGAATAAGCTAACCAAGTCGTCAATTATGGTTACCTCTGGTGCAAATCAGgtaatgcaca ... attttggcagGCCTTTGTAAATGTGGTCCTCACCCTTTGTGATGCTGGGGATGCAGTTGTC