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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATATGGAGGCTATTTACAAGCTTCTTTTTCCTGGGCAAGTTTTCTATCAACTTTGGGATTCGCCTTCTGATGATgtaagtcttgttgaaatcaattgtgtgtttgaaagcatgcagagtattacaataagtaaacttgcagccattggttgaatcaattgtgtgtttgggcatgcag

Basic information

species Oryza sativa
transcript LOC_Os05g09550.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g09550.3 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G117388_T01 (Zea mays), 5'ss of exon 3
ATATGGAGGCTATTTACAAGCTTCTTTTTCCTGGGCAAGTTTTCTATCAACTTTGGGATTCGCCTTCTGATGATgta------agtcttgttgaa-atcaattgtgtgtt--tgaaagcatgcagagtat-tacaataagtaaacttgcagccattggttgaatcaattgt---gtgtttgggcatgcag
|||||||||||||| ||||| |||||||||||||     ||||| || || ||||| ||||||||||||||||||||      ||| ||| |||  |   ||| |    |  ||| ||  |    | ||| || |||  ||||| | ||     ||| ||| ||    | |   |||||| |||||||||
ATATGGAGGCTATTGACAAGTTTCTTTTTCCTGGCACCATTTTCCATGAAATTTGGTATTCGCCTTCTGATGATgtaggttaaagttttgctgactactgattataaaatagtgacagt-tatgaactatctataatt-gtaaattagctttggttgtttggatttgctttatcgtgttttggcatgcag

upper sequence: LOC_Os05g09550.3 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G143817_T01 (Zea mays), 5'ss of exon 3
ATATGGAGGCTATTTACAAGCTTCTTTTTCCTGGGCAAGTTTTCTATCAACTTTGGGATTCGCCTTCTGATGATgtaagtcttgttgaaatcaattgtgtgtttgaaagcatgcagagtattacaataagtaaacttgcagccattggttgaatcaattgtgtgtttgggcatgcag
 |||||||| |||||||||| ||||| ||||||||    ||||| || |||||||| |||||||||||||||||||||||     |       |       |   |||  |||   | |   ||| ||  || | ||  |      | | |  |   |    | | |  ||||    
GTATGGAGGATATTTACAAGTTTCTTCTTCCTGGGACCATTTTCCATAAACTTTGGTATTCGCCTTCTGATGATgtaagtgaaagtttttctgaacaccgatgataaaatatggttacttccacagtatatataattttaaatcaggttggggtttttgaaatttctttgcatag--
















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|218492921|gb|FG948483.1|FG948483
EST:     TTTTCCTGGGGCAAGTTTTCTATCAACTTTGGGATTCGCCTTCTGATGAT                         AGCAAGATACGGCGTGCAGTTAGAAAAGGGTGCATTTGAAAAGCGCACAGC
genomic: TTTTCCT-GGGCAAGTTTTCTATCAACTTTGGGATTCGCCTTCTGATGATgtaagtcttg ... gggcatgcagAGCAAGATACGGCGTGCAGTTAGAAAAGGGTGCATTTGAAAAGCGCACAGC
EST: gi|157651306|gb|EX450940.1|EX450940
EST:     TTTTTCCTGGGCAAGTTTTCTATCAACTTTGGGATTCACCTTCTGATGAT                         AGCAAGATACGGCGTGCAGTTAGAAAAGGGTGCATTTGAAAAGCGCACAGC
genomic: TTTTTCCTGGGCAAGTTTTCTATCAACTTTGGGATTCGCCTTCTGATGATgtaagtcttg ... gggcatgcagAGCAAGATACGGCGTGCAGTTAGAAAAGGGTGCATTTGAAAAGCGCACAGC
EST: gi|27554498|gb|CA998398.1|CA998398
EST:     TTTTCTATCAACTTTGGGATTCGCCTTCTGATGAT                         AGCAAGATACGGCGTGCAGTTAGAAAAGGGTGCATTTGAAAAGCGCACAGC
genomic: TTTTCTATCAACTTTGGGATTCGCCTTCTGATGATgtaagtcttg ... gggcatgcagAGCAAGATACGGCGTGCAGTTAGAAAAGGGTGCATTTGAAAAGCGCACAGC