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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAGTTAAGCGATGAATGGTTTGCGGATGAAGAAAAAGTTCGTGATATTGTTGGATTACTTTTAAATGGAATTGATCTTCCTAACTCTAGAAAGgtttgtattatttattcaaatgccagtatattgttatcacttgtttgttgtgctggccacatgtcatatctgatcaaacctttggctgtggctacatatacactgtttcttacatctgacagctgttttggttgcag

Basic information

species Oryza sativa
transcript LOC_Os08g42740.4
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g42740.4 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G143644_T01 (Zea mays), 5'ss of exon 3
------CAAGTTAAGCGATGAATGGTTTGCGGATGAAGAAAAAGTTCGTGATATTGTTGGATTACTTTTAAATGGAATTGATCTTCCTAACTCTAGAAAGgtttgtattatttattcaaatgccagtatattgttatcacttgtttgttgtgctggccacatgtcatatctgatcaaacctttggctgtggctacatatacactgtttcttacatctgacagctgttttggttgcag
      |||||| || |||||||||||||| |||||||||||||| ||  ||| |||||| |||||||| ||||||| | ||   ||   |||||| ||||   |  |||  | |||| ||  |  |||  | || | |     |    |     ||  |||||   ||||| |  ||||||||||| || | | || | ||   ||||||    || |||    ||||||||||||
CATCAGCAAGTTGAGTGATGAATGGTTTGCAGATGAAGAAAAAGTCCGCCATACTGTTGGCTTACTTTTGAATGGAAATCATGAGCCCGGCTCTAGGAAGgcaagatttacat-ttcacatttc--tatgcttttctta-----tcaaagcagaagcagcatgtgtaatctggtagaacctttggctctgac-atatgttcatattttctt----ctaacaatctttttggttgcag

upper sequence: LOC_Os08g42740.4 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G100913_T02 (Zea mays), 5'ss of exon 3
------CAAGTTAAGCGATGAATGGTTTGCGGATGAAGAAAAAGTTCGTGATATTGTTGGATTACTTTTAAATGGAATTGATCTTCCTAACTCTAGAAAGgtttgtattatttattcaaatgccagtatattgttatcacttgtttgttgtgctggccacatgtcatatctgatcaaacctttggctgtggctacatatacactgtttcttacatctgacagctgttttggttgcag
      |||| | || || ||||||||||| |||||||||||||| ||  ||| |||||| |||||||| ||||||| | ||   ||   |||||| ||||   |  |||| | |            ||| | ||||   || ||| |  |    || ||  ||   ||| | |  ||||||||||| |||| |  ||| ||   |||||      | |||    ||||||||||||
CATCAGCAAGCTGAGTGACGAATGGTTTGCAGATGAAGAAAAAGTCCGCCATACTGTTGGCTTACTTTTGAATGGAAATCATGACCCCCGCTCTAGGAAGgcaagatttatatttc-----------atactcttat-gtttctttttcatcaaagcaacgcgtgtaatccggtagaacctttggctctggc-atgtattcataatttcta----ttaacaatctttttggttgcag
















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|29669832|gb|CB666107.1|CB666107
EST:     ATATTGTTGGATTACTTTTAAATGGAATTGATCTTCCTAACTCTAGAAAG                         CTAACTTGTGGAATATGTTTTGAAGGGTATTCTTCTGATGTGATGAGTTCT
genomic: ATATTGTTGGATTACTTTTAAATGGAATTGATCTTCCTAACTCTAGAAAGgtttgtatta ... ttggttgcagCTAACTTGTGGAATATGTTTTGAAGGGTATTCTTCTGATGTGATGAGTTCT
EST: gi|33793942|gb|CF322859.1|CF322859
EST:     ATATTGTTGGATTACTTTTAAATGGAATTGATCTTCCTAACTCTAGAAAG                         CTAACTTGTGGAATATGTTTTGAAGGGTATTCTTCTGATGTGATGAGTTCT
genomic: ATATTGTTGGATTACTTTTAAATGGAATTGATCTTCCTAACTCTAGAAAGgtttgtatta ... ttggttgcagCTAACTTGTGGAATATGTTTTGAAGGGTATTCTTCTGATGTGATGAGTTCT
EST: gi|29671896|gb|CB668171.1|CB668171
EST:     ATATTGTTGGATTACTTTTAAATGGAATTGATCTTCCTAACTCTAGAAAG                         CTAACTTGTGGAATATGTTTTGAAGGGTATTCTTCTGATGTGATGAGTTCT
genomic: ATATTGTTGGATTACTTTTAAATGGAATTGATCTTCCTAACTCTAGAAAGgtttgtatta ... ttggttgcagCTAACTTGTGGAATATGTTTTGAAGGGTATTCTTCTGATGTGATGAGTTCT
EST: gi|29622679|gb|CB627690.1|CB627690
EST:     ATATTGTTGGATTACTTTTAAATGGAATTGATCTTCCTAACTCTAGAAAG                         CTAACTTGTGGAATATGTTTTGAAGGGTATTCTTCTGATGCGATGAGTTCT
genomic: ATATTGTTGGATTACTTTTAAATGGAATTGATCTTCCTAACTCTAGAAAGgtttgtatta ... ttggttgcagCTAACTTGTGGAATATGTTTTGAAGGGTATTCTTCTGATGTGATGAGTTCT
EST: gi|58672626|gb|CK061312.1|CK061312
EST:     ATATTGTTGGATTACTTTTAAATGGAATTGATCTTCCTAACTCTAGAAAG                         CTAACTTGTGGAATATGTTTTGAAGGGTATTCTTCTGATGCGATGAGTTCT
genomic: ATATTGTTGGATTACTTTTAAATGGAATTGATCTTCCTAACTCTAGAAAGgtttgtatta ... ttggttgcagCTAACTTGTGGAATATGTTTTGAAGGGTATTCTTCTGATGTGATGAGTTCT