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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGGGAGATGCGTTGAGGTTGGACTTCCAATGTTAATTCTGTTTGTCGTGCTTTCTCAGgtttggcaagcaactccaatgatcgaattcttttgctagtgaccatatttgaagttgagtctaactcgtgcattgtcaattatgtttttcag

Basic information

species Oryza sativa
transcript LOC_Os01g55500.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g55500.4 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G437859_T01 (Zea mays), 5'ss of exon 5
----------------------------------------GTTGGGAGATGCGTTGAGGTTGGACTTCCAATGTTAATTCTGTTTGTCGTGCTTTCTCAGgtttggcaagcaa----------ctcca-atgatcgaattcttttgctagtgaccatatttgaagttgagtctaactcgtgcattgtcaat-tatgtttttcag-----------
                                        |||||||||||||||||| |||| || |||||| | || || ||||||||||| |||||||| || |  ||||          ||||| || ||  | |||| |  |||   |||| |||     |   | | |  |   || |     || | ||  |||| |           
ATGGCTTGCTCATCCGATTGATGTCTGATAATTGCATCAGGTTGGGAGATGCGTTGAGATTGGCCTGCCAATGCTGATCCTCTTTGTCGTGCTGTCTCAGgtctgactggcaaaaaaaaaaaactccagattattcagttctct--ctacgcaccaaattcatgatcttggcgagtttaagcgtacctgatctctgcatttcggttgtttcgcag

upper sequence: LOC_Os01g55500.4 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G437859_T03 (Zea mays), 5'ss of exon 6
GTTGGGAGATGCGTTGAGGTTGGACTTCCAATGTTAATTCTGTTTGTCGTGCTTTCTCAGgtttggcaagcaa----------ctcca-atgatcgaattcttttgctagtgaccatatttgaagttgagtctaactcgtgcattgtcaat-tatgtttttcag-----------
|||||||||||||||||| |||| || |||||| | || || ||||||||||| |||||||| || |  ||||          ||||| || ||  | |||| |  |||   |||| |||     |   | | |  |   || |     || | ||  |||| |           
GTTGGGAGATGCGTTGAGATTGGCCTGCCAATGCTGATCCTCTTTGTCGTGCTGTCTCAGgtctgactggcaaaaaaaaaaaactccagattattcagttctct--ctacgcaccaaattcatgatcttggcgagtttaagcgtacctgatctctgcatttcggttgtttcgcag
















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|58599082|gb|CK009610.1|CK009610
EST:     GCGTTGAGGTTGGACTTCCAATGTTAATTCTGTTCGTCGTGCTTTCTCAG                         TATCTGAAGAATGTACAGATAAGAGATATTCCAATACTGGAGAGGTTCTCC
genomic: GCGTTGAGGTTGGACTTCCAATGTTAATTCTGTTTGTCGTGCTTTCTCAGgtttggcaag ... tgtttttcagTATCTGAAGAATGTACAGATAAGAGATATTCCAATACTGGAGAGGTTCTCC
EST: gi|88358900|gb|CI619404.1|CI619404
EST:     GCGTTGAGGTTGGACTTCCAATGTTAATTCTGTTTGTCGTGCTTTCTCAG                         TATCTGAAGAATGTACAGATAAGAGATATTCCAATACTGGAGAGGTTCTCC
genomic: GCGTTGAGGTTGGACTTCCAATGTTAATTCTGTTTGTCGTGCTTTCTCAGgtttggcaag ... tgtttttcagTATCTGAAGAATGTACAGATAAGAGATATTCCAATACTGGAGAGGTTCTCC