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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCCCAAGCTCCAAGAGCTATTACGCCTGTGTAGGGGAGAGTACTCATGCATTTCAGAGCCCCTCCAAGGACCTTAAGGTTATAAACAACCGCCTAAACAGgtaaaactagaaagaagctggaaaagaagtctttttatccttatttcactagtgagaggaaaactttgtctaaactattctcaatttgtgcag

Basic information

species Oryza sativa
transcript LOC_Os08g42600.1
intron # 17
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g42600.2 (Oryza sativa), 5'ss of exon 17
lower sequence: GRMZM2G033828_T01 (Zea mays), 5'ss of exon 18
CCCCAAGCTCCAAGAGCTATTACGCCTGTGTAGGGGAGAGTACTCATGCATTTCAGAGCCCCTCCAAGGACCTTAAGGTTATAAACAACCGCCTAAACAGgtaaaactagaaagaagctgg---aaaagaagtctttttatccttatttcactagtgagaggaaaactt-tgtctaaactattctcaatttgtgcag
|||| |||||||||||||| ||||| || || || ||||| ||  | || || |||||||||||||||||||| |||| ||| |||||||||||||||||| || |  |  || |     |      ||| || |  |  |||   ||||   ||  | ||  |||||  || | | |    || |      |||||
CCCCGAGCTCCAAGAGCTACTACGCGTGCGTCGGCGAGAGCACCTACGCGTTCCAGAGCCCCTCCAAGGACCTGAAGGCTATCAACAACCGCCTAAACAGgcaagatcatcaaaagagcagttcgctagaggtttgctggtcca-gtttccaaagcaacagataaactgatgcccagatcgatcacc-----tgcag

upper sequence: LOC_Os08g42600.2 (Oryza sativa), 5'ss of exon 17
lower sequence: GRMZM2G016997_T01 (Zea mays), 5'ss of exon 17
CCCCAAGCTCCAAGAGCTATTACGCCTGTGTAGGGGAGAGTACTCATGCATTTCAGAGCCCCTCCAAGGACCTTAAGGTTATAAACAACCGCCTAAACAGgtaaaactagaa-agaagctggaaaag---------aagtctttttatccttatttcactagtgagaggaaaactttgtctaaactattctcaatttgtgcag
| |||||| | ||||||||||| || ||||| || ||||||||  |||| || || ||||||||||||||||| |||| ||| |||||||||||||| ||||||||  |||| ||||    ||| ||          || | |||    |   ||    || |   ||   || |     | |  || |   || |     | 
CACCAAGCCCAAAGAGCTATTATGCATGTGTCGGCGAGAGTACCTATGCGTTCCAAAGCCCCTCCAAGGACCTGAAGGCTATCAACAACCGCCTAAATAGgtaaaatcagaacagaaaaaagaacagttccctaacgaggcgtttagatccctttattttaattttagaggaattggaattcacttaata--aagtaaccta-
















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|33805332|gb|CF328544.1|CF328544
EST:     TTCAGAGCCCCTCCAAGGACCTTAAGGTTATAAACAACCGCCCTAAACAG                         TGGGAAGAAAGTCAGTGGAAGACTGAACTTTGATGTTGTCAGTGATTTGG
genomic: TTCAGAGCCCCTCCAAGGACCTTAAGGTTATAAACAACCG-CCTAAACAGgtaaaactag ... atttgtgcagTGGGAAGAAAGTCAGTGGAAGACTGAACTTTGATGTTGTCAGTGATTTGG
EST: gi|58602114|gb|CK012642.1|CK012642
EST:     TTTCAGAGCCCCTCCAAGGACCTTAAGGTTATAAACAACCGCCTAAACAG                         TGGGAAGAAAGTCAGTGGAAGACTGAACTTTGATGTTGTCAGTGATTTGGT
genomic: TTTCAGAGCCCCTCCAAGGACCTTAAGGTTATAAACAACCGCCTAAACAGgtaaaactag ... atttgtgcagTGGGAAGAAAGTCAGTGGAAGACTGAACTTTGATGTTGTCAGTGATTTGGT
EST: gi|218484308|gb|FG956791.1|FG956791
EST:     TTTCAGAGCCCCTCCAAGGACCTTAAGGTTATAAACAACCGCCTAAACAG                         TGGGAAGAAAGTCAGTGGAAGACTGAACTTTGATGTTGTCAGTGATTTGGT
genomic: TTTCAGAGCCCCTCCAAGGACCTTAAGGTTATAAACAACCGCCTAAACAGgtaaaactag ... atttgtgcagTGGGAAGAAAGTCAGTGGAAGACTGAACTTTGATGTTGTCAGTGATTTGGT
EST: gi|33805335|gb|CF328545.1|CF328545
EST:     TTTCAGAGCCCCTCCAAGGACCTTAAGGTTATAAACAACCGCCTAAACAG                         TGGGAAGAAAGTCAGTGGAAGACTGAACTTTGATGTTGTCAGTGATTTGGT
genomic: TTTCAGAGCCCCTCCAAGGACCTTAAGGTTATAAACAACCGCCTAAACAGgtaaaactag ... atttgtgcagTGGGAAGAAAGTCAGTGGAAGACTGAACTTTGATGTTGTCAGTGATTTGGT