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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGGCACTTGTAAATTCACTTCATAGACTTGTGGGCTCACTGTCTTCATCCATTGAGGGgtatagttagcacgcattgcatgtaaaatgcatctgcaagtgtcatttctatatgactatatctaacttattacctctgcccctgtcacag

Basic information

species Oryza sativa
transcript LOC_Os03g17120.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g17120.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G044237_T01 (Zea mays), 5'ss of exon 6
GAGGCACTTGTAAATTCACTTCATAGACTTGTGGGCTCACTGTCTTCATCCATTGAGGGgtatagttagcacgcattgcatgtaaaatgcatctgcaagtgtcatttctatatgactat-atctaacttattacctctgcccctgtcacag-----------------------------------
||||||||| |||||||||| | |||||||||||||||||||||||| ||  || |||||||     |    | |||    |||  ||       ||||  |      | ||  |   |  | | | | ||              |   |                                    
GAGGCACTTTTAAATTCACTACCTAGACTTGTGGGCTCACTGTCTTCTTCAGTTCAGGGgtaataaaattcagtattatgagtagcattatagctcaagcctttaaattgtaaaatcctcgtgttaatcatcgatataattttaatggtaattattgtcgctgacctaatataccttcttcaatag

upper sequence: LOC_Os03g17120.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G044237_T04 (Zea mays), 5'ss of exon 3
---------------GAGGCACTTGTAAATTCACTTCATAGACTTGTGGGCTCACTGTCTTCATCCATTGAGGGgtatagttagcacgcattgcatgtaaaatgcatctgcaagtgtcatttctatatgactat-atctaacttattacctctgcccctgtcacag-----------------------------------
               ||||||||| |||||||||| | |||||||||||||||||||||||| ||  || |||||||     |    | |||    |||  ||       ||||  |      | ||  |   |  | | | | ||              |   |                                    
GCTTTGGCATTGTAGGAGGCACTTTTAAATTCACTACCTAGACTTGTGGGCTCACTGTCTTCTTCAGTTCAGGGgtaataaaattcagtattatgagtagcattatagctcaagcctttaaattgtaaaatcctcgtgttaatcatcgatataattttaatggtaattattgtcgctgacctaatataccttcttcaatag
















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|29613226|gb|CB618239.1|CB618239
EST:     GTAAATTCACTTCATAGACTTGTGGGCTCACTGTCTTCATCCATTGAGGG                         TGCAAATTCTGCAGCTGTGGCCATTACAACTACAGACCTTGTTAGCAAGAG
genomic: GTAAATTCACTTCATAGACTTGTGGGCTCACTGTCTTCATCCATTGAGGGgtatagttag ... cctgtcacagTGCAAATTCTGCAGCTGTGGCCATTACAACTACAGACCTTGTTAGCAAGAG
EST: gi|218494800|gb|FG943469.1|FG943469
EST:     GTAAATTCACTTCATAGACTTGTGGGCTCACTGTCTTCATCCATTGAGGG                         TGCAAATTCTGCAGCTGTGGCCATTACAACTACAGACCTTGTTAGCAAGAG
genomic: GTAAATTCACTTCATAGACTTGTGGGCTCACTGTCTTCATCCATTGAGGGgtatagttag ... cctgtcacagTGCAAATTCTGCAGCTGTGGCCATTACAACTACAGACCTTGTTAGCAAGAG
EST: gi|29670993|gb|CB667268.1|CB667268
EST:     GTAAATTCACTTCATAGACTTGTGGGCTCACTGTCTTCATCCATTGAGGG                         TGCAAATTCTGCAGCTGTGGCCATTACAACTACAGACCTTGTTAGCAAGAG
genomic: GTAAATTCACTTCATAGACTTGTGGGCTCACTGTCTTCATCCATTGAGGGgtatagttag ... cctgtcacagTGCAAATTCTGCAGCTGTGGCCATTACAACTACAGACCTTGTTAGCAAGAG