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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGTAAATTTGGTGCGGTGTGCAAGTTCCATCATCCCCGGGTGCGATCAATGCCTACTCCAGATTGTGTCTTGAGTCCAGTGGGTCTTCCACTACGTCCGgtaagttactacaaacctttttgtacttatgttccagtgacaattatttgtgttctcatgttccacgtatcactttaatgttcatggttgatcattgtac...

Basic information

species Oryza sativa
transcript LOC_Os01g68860.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g68860.3 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G087032_T04 (Zea mays), 5'ss of exon 5
CTGTAAATTTGGTGCGGTGTGCAAGTTCCATCATCCCCGGGTGCGATCAATGCCTACTCCAGATTGTGTCTTGAGTCCAGTGGGTCTTCCACTACGTCCGgtaagttactacaaacctttttgtacttatgttccagtga-caattatttgtgt-tctcatgttccacgtatcactttaatgttcatggttgatcattgtac
 |||||||| ||||| ||||||||||||||||||||||||||| ||||| ||||  |||||||||||||||| |||||| ||||||||||||||||||| |||||| | |  ||||| ||      || ||||  |  |  |  || |||  |  | | ||     |  ||| | | |  || |  | ||    | | ||  
TTGTAAATTCGGTGCAGTGTGCAAGTTCCATCATCCCCGGGTGAGATCACTGCCCCCTCCAGATTGTGTCTTAAGTCCAATGGGTCTTCCACTACGTCCAgtaagtcatt--aaacccttcaccgtttctgttgtatcggtcctttgtttaggcattttatcaattatatatgaatatgttgattgttgtactacctcgtct

upper sequence: LOC_Os01g68860.3 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G107491_T03 (Zea mays), 5'ss of exon 6
CTGTAAATTTGGTGCGGTGTGCAAGTTCCATCATCCCCGGGTGCGATCAATGCCTACTCCAGATTGTGTCTTGAGTCCAGTGGGTCTTCCACTACGTCCGgtaagttactacaaacctttttgtacttatgttccagtgacaattat--ttgtgtt-ctcatgttccacgtatcactttaatgttcatggttgatcattgtac
 |||||||||||||| ||||||||||||||||||||||| ||| |||||  |||  |||| ||||||||||| |||||| ||||||||||| ||||||| |||||||  |  ||||| ||   |  || |||| || |     |||   ||    |  |  ||||  |   |||  ||   |   |||  ||   |||| || 
TTGTAAATTTGGTGCAGTGTGCAAGTTCCATCATCCCCGTGTGAGATCACAGCCCCCTCCGGATTGTGTCTTAAGTCCAATGGGTCTTCCAATACGTCCAgtaagttgtt--aaacccttcactctttctgtttcattttgttttagaattacactgtttctgttgtattgatcctttgtttagacatt-ttatccattatat
















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|29684893|gb|CB681168.1|CB681168
EST:     TGCCTACTCCAGATTGTGTCTTGAGTCCAGTGGGTCTTCCACTACGTCCG                         GGAGAAGAACTGTGCAAGTTCTATTCTCGCTATGGCATCTGCAAGTTCGGC
genomic: TGCCTACTCCAGATTGTGTCTTGAGTCCAGTGGGTCTTCCACTACGTCCGgtaagttact ... agattttcagGGAGAAGAACTGTGCAAGTTCTATTCTCGCTATGGCATCTGCAAGTTCGGC
EST: gi|27334438|gb|CA882889.1|CA882889
EST:     TGCCTACTCCAGATTGTGTCTTGAGTCCAGTGGGTCTTCCACTACGTCCG                         GGAGAAGAACTGTGCAAGTTCTATTCTCGCTATGGCATCTGCAAGTTCGGC
genomic: TGCCTACTCCAGATTGTGTCTTGAGTCCAGTGGGTCTTCCACTACGTCCGgtaagttact ... agattttcagGGAGAAGAACTGTGCAAGTTCTATTCTCGCTATGGCATCTGCAAGTTCGGC
EST: gi|87006969|gb|CI275277.1|CI275277
EST:     TGCCTACTCCAGATTGTCTCTTGAGTCCAGTGGGTCTTCCACTACGCCCG                         GGAGAAGAACTGTGCAAGTTCTATTCTCGCTATGGCATCTGCAAGTTCGGC
genomic: TGCCTACTCCAGATTGTGTCTTGAGTCCAGTGGGTCTTCCACTACGTCCGgtaagttact ... agattttcagGGAGAAGAACTGTGCAAGTTCTATTCTCGCTATGGCATCTGCAAGTTCGGC
EST: gi|87007226|gb|CI277301.1|CI277301
EST:     TGCCTACTCCAGATTGTGTCTTGAGTCCAGTGGGTCTTCCACTACGTCCG                         GGAGAAGAACTGTGCAAGTTCTATTCTCGCTATGGCATCTGCAAGTTCGGC
genomic: TGCCTACTCCAGATTGTGTCTTGAGTCCAGTGGGTCTTCCACTACGTCCGgtaagttact ... agattttcagGGAGAAGAACTGTGCAAGTTCTATTCTCGCTATGGCATCTGCAAGTTCGGC
EST: gi|88959678|gb|CI002288.1|CI002288
EST:     TGCCTACTCCAGATTGTGTCTTGAGTCCAGTGGGTCCTCCACTACGTCCG                         GGAGAAGAACTGTGCAAGTTCTATTCTCGCTATGGCATCTGCAAGTTCGGC
genomic: TGCCTACTCCAGATTGTGTCTTGAGTCCAGTGGGTCTTCCACTACGTCCGgtaagttact ... agattttcagGGAGAAGAACTGTGCAAGTTCTATTCTCGCTATGGCATCTGCAAGTTCGGC
EST: gi|18386749|gb|BM419947.1|BM419947
EST:     TGCCTACTCCAGATTGTGTCTTGAGTCCAGTGGGTCTTCCACTACGTCCG                         GGAGAAGAACTGTGCAAGTTCTATTCTCGCTATGGCATCTGCAAGTTCGGC
genomic: TGCCTACTCCAGATTGTGTCTTGAGTCCAGTGGGTCTTCCACTACGTCCGgtaagttact ... agattttcagGGAGAAGAACTGTGCAAGTTCTATTCTCGCTATGGCATCTGCAAGTTCGGC
EST: gi|88532353|gb|CI461836.1|CI461836
EST:     TCCAGATTGTGTCTTGAGTCCAGTGGTTCTTCCACTACGTCCG                         GGAGAAGAACTGTGCAAGTTCTATTCTCGCTATGGCATCTGCAAGTTCGGC
genomic: TCCAGATTGTGTCTTGAGTCCAGTGGGTCTTCCACTACGTCCGgtaagttact ... agattttcagGGAGAAGAACTGTGCAAGTTCTATTCTCGCTATGGCATCTGCAAGTTCGGC
EST: gi|29658444|gb|CB654719.1|CB654719
EST:     TGCCTACTCCAGATTGTGTCTTGAGTCCAGTGGGTCTTCCACTACGTCCG                         GGAGAAGAACTGTGCAAGTTCTATTCTCGCTATGGCATCTGCAAGTTCGGC
genomic: TGCCTACTCCAGATTGTGTCTTGAGTCCAGTGGGTCTTCCACTACGTCCGgtaagttact ... agattttcagGGAGAAGAACTGTGCAAGTTCTATTCTCGCTATGGCATCTGCAAGTTCGGC
EST: gi|88974704|gb|CI023000.1|CI023000
EST:     TGCCTACTCCAGATTGTGTCTTGAGTCCAGTGGGTCTTCCACTACGTCCG                         GGAGAAGAACTGTGCAAGTTCTATTCTCGCTATGGCATCTGCAAGTTCGGC
genomic: TGCCTACTCCAGATTGTGTCTTGAGTCCAGTGGGTCTTCCACTACGTCCGgtaagttact ... agattttcagGGAGAAGAACTGTGCAAGTTCTATTCTCGCTATGGCATCTGCAAGTTCGGC
EST: gi|88836402|gb|CI078299.1|CI078299
EST:     TGCCTACTCCAGATTGTGTCTTGAGTCCAGTGGGTCTTCCACTACGTCCG                         GGAGAAGAACTGTGCAAGTTCTATTCTCGCTATGGCATCTGCAAGTTCGGC
genomic: TGCCTACTCCAGATTGTGTCTTGAGTCCAGTGGGTCTTCCACTACGTCCGgtaagttact ... agattttcagGGAGAAGAACTGTGCAAGTTCTATTCTCGCTATGGCATCTGCAAGTTCGGC