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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAAATAAACAGACAGAGGATGGAGTTAATAAAAGCACTCAATCTGAAGCTTCAAATGAAACCAATAGTTCTCCTGGAACCGAGAATGCATCTCAAGCAGgttcacaagattctgtgccccaatctaacaggaggaggagaggtactaaacgaactgcattttctgattcag

Basic information

species Oryza sativa
transcript LOC_Os08g25090.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g25090.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G002440_T02 (Zea mays), 5'ss of exon 2
GCAAATAAACAGACAGAGGATGGAGTTAATAAAAGCACTCAATC------TGAAGCTTCAAATGAAACCAATAGTTCTCCTGGAACCGAGAATGCATCTCAAGCAGgttcacaagattctgtgccccaatctaacaggaggaggagaggtactaaacgaactgcattttctgattcag
      || || ||||| ||||| ||||||| |||   |  | |      || |||||||| |||| |||||| |   |||||||||||||| |||    ||||||||||||  |||||| |  || | |||||||||| ||||| ||   |||||||||||||||||||||||||||
------AAGCACACAGATGATGGGGTTAATAGAAGTGTTGGAGCAAGTACTGGAGCTTCAAGTGAAGCCAATAATGTGCCTGGAACCGAGAAGGCACAGGAAGCAGgttcacttgattctatatccaagtctaacaggaagaggacag---ctaaacgaactgcattttctgattcag

upper sequence: LOC_Os08g25090.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA02G46390.2 (Glycine max), 5'ss of exon 3
-------GCAAATAAACAGACAGAGGATGGAGTTAATAAAAGCACTCAATCTGAAGCTTCAAATGAAACCAATAGTTCTCCTGGAACCGAGAATGCATCTCAAGCAGgttcacaagattctgtgccccaatct---aacaggaggaggagaggtactaaacgaactgcattttctgattcag
         | | |  | |||   | |   ||  ||| ||    |  ||  | | | |     |       | |   || | |  |      | | |||     |   |||   |||||||    | ||| ||   || || ||||||||||||  ||||||||||||||||||||||||||
GGAGATTCTACAAATGCTGACCCTGCA-AAAGCAAATGAAGAGGCAAAAAATAATGATCAGGCTAGGCAAGACAAACCTGCAGATAAAACAGAGGAATCAGgttctatttc---agattctcaatctcaaactgtcaaaagaaggaggagaggttttaaacgaactgcattttctgattcag
















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|32948266|gb|BP184838.1|BP184838
EST:     ATGCATCTCAAGCAG                         ATACAGAAGACCTTGACCTGTCAAAGGAGGACCTGACAAAGCTAGTTCTGG
genomic: ATGCATCTCAAGCAGgttcacaaga ... tctgattcagATACAGAAGACCTTGACCTGTCAAAGGAGGACCTGACAAAGCTAGTTCTGG
EST: gi|27554120|gb|CA998020.1|CA998020
EST:     CAATAGTGCTCCTGGAACCGAGAATGCATCTCAAGCAG                         ATACAGAAGACCTTGACCTGTCAAAGGAGGACCTGACAAAGCTAGTTCTGG
genomic: CAATAGTTCTCCTGGAACCGAGAATGCATCTCAAGCAGgttcacaaga ... tctgattcagATACAGAAGACCTTGACCTGTCAAAGGAGGACCTGACAAAGCTAGTTCTGG