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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGCATATTCGCGTATGGGCAAACAAGCAGTGGCAAGACTTACACGATGACCGGGATAACCGAGTATAGTGTTCTCGACATCTATGACTACATCGAAAAGgtgtgtgcaatgtgaacattgctttactttacctctgcgaaaatttatccgtctcattgtgtgccattgctacag

Basic information

species Oryza sativa
transcript LOC_Os08g43400.4
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g43400.4 (Oryza sativa), 5'ss of exon 3
lower sequence: AT3G51150.2 (Arabidopsis thaliana), 5'ss of exon 5
AAGCATATTCGCGTATGGGCAAACAAGCAGTGGCAAGACTTACACGATGACCGGGATAACCGAGTATAGTGTTCTCGACATCTATGACTACATCGAAAAGgtgtgtgcaatgtgaacattg-ctttactttacctctgcgaaaatttatccgtctcattgtgtg-ccattgctacag------------------------
 ||  | || || |||||||||||||||||||| ||||| ||||| ||||  || || || || |||    |    || || ||||| ||||| || |||||      ||    | ||  | ||| |   ||    | |   | | | |||   |||||  ||  |  | ||                             
TAGTGTCTTTGCATATGGGCAAACAAGCAGTGGAAAGACATACACTATGATTGGTATTACGGATTATGCCTTGGCTGATATATATGATTACATTGAGAAGgtaaagttaacaatatcagagtcttcatagtaatcttaccgcattatttccaattcattcagtaactgtcgccttttaaaaaaattatttgttttttgcag

upper sequence: LOC_Os08g43400.4 (Oryza sativa), 5'ss of exon 3
lower sequence: AT5G66310.1 (Arabidopsis thaliana), 5'ss of exon 5
AAGCATATTCGCGTATGGGCAAACAAGCAGTGGCAAGACTTACACGATGACCGGGATAACCGAGTATAGTGTTCTCGACATCTATGACTACATCGAAAAGgtgtgtgcaatgtgaacattgctttactttacctctgcgaaaattt---atccgtc---tcattgtgtgcca--ttgctacag
 ||  ||||||| |||||||||||||||||||| ||||| ||||| |||| ||| || || || |      |  | || || |||| |||||| || |||||      || |  ||||||    |  | |    || |   | ||      || |    |  ||||||      || || |||
TAGTGTATTCGCATATGGGCAAACAAGCAGTGGAAAGACGTACACTATGAGCGGAATTACTGACTGCGCCTTGGTTGATATATATGGCTACATTGACAAGgtaaag--aaagcaaacattatccttatatcttactactttacttccgagcccattatgtagttgtgtatttgctttctgcag
















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|88367346|gb|CI566312.1|CI566312
EST:     CCGGGATAACCGAGTATAGTGTTCTCGACATCTATGACTACATCGAAAAG                         CATCCTGAAAGAGAATTCATTTTGAGATTTTCGGCAATAGAGATATACAAT
genomic: CCGGGATAACCGAGTATAGTGTTCTCGACATCTATGACTACATCGAAAAGgtgtgtgcaa ... attgctacagCATCCTGAAAGAGAATTCATTTTGAGATTTTCGGCAATAGAGATATACAAT