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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGCAAACATCATGCTTGGTGGTAAAAGGCACAGCCTTGGGATGTCATTCTATGAGCCAACTGTAGTAGGGAACGTCAGCAATGATATGCTTCTTTTCAGgtagggttcaaaaattgtgatttgaccttattttagtgcatatgctttaccttcatgcgaagaaatgttcaatcattgagaaattctttgacatccttgttctagtttctaacaatcacatttggcttcag

Basic information

species Oryza sativa
transcript LOC_Os02g07760.2
intron # 15
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g07760.1 (Oryza sativa), 5'ss of exon 16
lower sequence: GRMZM2G119482_T01 (Zea mays), 5'ss of exon 16
GAGCAAACATCATGCTTGGTGGTAAAAGGCACAGCCTTGGGATGTCATTCTATGAGCCAACTGTAGTAGGGAACGTCAGCAATGATATGCTTCTTTTCAGgtagggttcaaa---------------------aattgtgatttgaccttattttagtgcatatgctttaccttca--tgcgaagaaatgttcaatcattgagaaattctttgacatccttgttctagtttctaacaatcacatttggcttcag
|||||||  ||||||| ||||||||||| |||||||| || |||||||| ||||||||||||||||||||||| |||||||||||||||||||||||||||||  ||| | |                     ||||   |   |||||| || |||||||||   | ||| ||||  |||||  ||||| || |  |||||| |||| | |||||      |  |||||  |||||      |||   |||||
GAGCAAATGTCATGCTAGGTGGTAAAAGACACAGCCTGGGAATGTCATTTTATGAGCCAACTGTAGTAGGGAATGTCAGCAATGATATGCTTCTTTTCAGgtaaagtttacagttagaccttctaatcttaacaatttcaaccagaccttgttgtagtgcatagaatctactttcacgtgcgagtaaatggtctaatattgaggaattgtctgacact----tcatagttgttaacatctttttttcatttcag

upper sequence: LOC_Os02g07760.1 (Oryza sativa), 5'ss of exon 16
lower sequence: GRMZM2G128114_T01 (Zea mays), 5'ss of exon 16
GAGCAAACATCATGCTTGGTGGTAAAAGGCACAGCCTTGGGATGTCATTCTATGAGCCAACTGTAGTAGGGAACGTCAGCAATGATATGCTTCTTTTCAGgtagggttcaaa-------------aattgtgatttgaccttattttagtgcatatgctttaccttcatg--cgaagaaatgttcaatcattgagaaattctttgacatccttgttctagtttctaacaatcacatttggcttcag
|||||||  ||||||| ||||||||||| |||||||| ||||||||||| ||||||||||||||||||||||| |||||||||||||||||||||||||||||   || | |             ||||   ||   |||||  | ||||||||||  | ||| ||||||  |||| ||||  ||   ||||||| || | | |||||      |   ||||  ||||| ||   |||   |||||
GAGCAAATGTCATGCTAGGTGGTAAAAGACACAGCCTGGGGATGTCATTTTATGAGCCAACTGTAGTAGGGAATGTCAGCAATGATATGCTTCTTTTCAGgtaaactttacagttggaccttagcaatttcaatcaaaccttgatatagtgcatatattctactttcatgtgcgaataaatagtcttacattgagcaactgtctgacact----tcaaagttgttaaca-tcttttttcatttcag

upper sequence: LOC_Os02g07760.1 (Oryza sativa), 5'ss of exon 16
lower sequence: AT1G79440.1 (Arabidopsis thaliana), 5'ss of exon 16
GAGCAAACATCATGCTTGGTGGTAAAAGGCACAGCCTTGGGATGTCATTCTATGAGCCAACTGTAGTAGGGAACGTCAGCAATGATATGCTTCTTTTCAGgtagggttcaaaaattgtgatttgaccttattttagtgcatatgctt-taccttcatgcgaagaaatgttcaatcattgagaaattctttgacatccttgttctagtttctaacaatcacatttggcttcag
||||||| |||||  ||||||| ||||||||||| || |||||| | ||||||||||| |||||  |  |  | ||     || | ||| |  | |  | ||| |     |||| | | |  | |  ||    |  | ||  | ||| || ||  |    | ||  | |  || ||| | |   ||| | | |||  ||||  |       |  |||    |||   |  ||
GAGCAAAAATCATCATTGGTGGCAAAAGGCACAGTCTAGGGATGACTTTCTATGAGCCTACTGTTATCCGCGATGTTTCGGATAACATGATCATGTCTAAgtaagtactgaaaaatttcacataa--ttgcagtgttacagcttcttgtatctctaaagaacgagttatagaaacatagtg---ttcctcg-catttttgtgatcagaagaactaatttacttt--ttctag

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|86496493|gb|CI139126.1|CI139126
EST:     TATGAGCCAACTGTAGTAGGGAACGTCAGCAATGATATGCTTCTTTTCAG                         GGAAGAAGTCTTTGGTCCAGTTGCACCACTTGTACCATTCAAAACTGAGGA
genomic: TATGAGCCAACTGTAGTAGGGAACGTCAGCAATGATATGCTTCTTTTCAGgtagggttca ... ttggcttcagGGAAGAAGTCTTTGGTCCAGTTGCACCACTTGTACCATTCAAAACTGAGGA
EST: gi|218485663|gb|FG949794.1|FG949794
EST:     TATGAGCCAACTGTAGTAGGGAACGTCAGCAATGATATGCTTCTTTTCAG                         GGAAGAAGTCTTTGGTCCAGTTGCACCACTTGTACCATTCAAAACTGAGGA
genomic: TATGAGCCAACTGTAGTAGGGAACGTCAGCAATGATATGCTTCTTTTCAGgtagggttca ... ttggcttcagGGAAGAAGTCTTTGGTCCAGTTGCACCACTTGTACCATTCAAAACTGAGGA
EST: gi|88227449|gb|CI226929.1|CI226929
EST:     TATGAGCCAACTGTAGTAGGGAACGTCAGCAATGATATGCTTCTTTTCAG                         GGAAGAAGTCTTTGGTCCAGTTGCACCACTTGTACCATTCAAAACTGAGGA
genomic: TATGAGCCAACTGTAGTAGGGAACGTCAGCAATGATATGCTTCTTTTCAGgtagggttca ... ttggcttcagGGAAGAAGTCTTTGGTCCAGTTGCACCACTTGTACCATTCAAAACTGAGGA
EST: gi|218498992|gb|FG968229.1|FG968229
EST:     TATGAGCCAACTGTAGTAGGGAACGTCAGCAATGATATGCTTCTTTTCAG                         GGAAGAAGTCTTTGGTCCAGTTGCACCACTTGTACCATTCAAAACTGAGGA
genomic: TATGAGCCAACTGTAGTAGGGAACGTCAGCAATGATATGCTTCTTTTCAGgtagggttca ... ttggcttcagGGAAGAAGTCTTTGGTCCAGTTGCACCACTTGTACCATTCAAAACTGAGGA
EST: gi|218482143|gb|FG968613.1|FG968613
EST:     TATGAGCCAACTGTAGTAGGGAACGTCAGCAATGATATGCTTCTTTTCAG                         GGAAGAAGTCTTTGGTCCAGTTGCACCACTTGTACCATTCAAAACTGAGGA
genomic: TATGAGCCAACTGTAGTAGGGAACGTCAGCAATGATATGCTTCTTTTCAGgtagggttca ... ttggcttcagGGAAGAAGTCTTTGGTCCAGTTGCACCACTTGTACCATTCAAAACTGAGGA