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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTACTCGCTCGAAGTCTGACAACCCACTCTATGGGTCTTCACTGATTGAATATgtgagtgatctttcataaatatttaggatcattcttgattattttccagctcctagaattttgtgtttctttcaggttgatctttcatagacatttaggatcattcttgattattttaccagctccttgaatttcttgtttctttcag

Basic information

species Oryza sativa
transcript LOC_Os02g12800.3
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g12800.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G029559_T02 (Zea mays), 5'ss of exon 5
TTACTCGCTCGAAGTCTGACAACCCACTCTATGGGTCTTCACTGATTGAATATgtgagtgatctttcataaatatttaggatcattcttgattattttccagctcctagaattttgtgtttctttcaggttgatctttcatagacatttaggatcattcttgattattttaccagctccttgaatttcttgtttctttcag
||||||||| |||| || |||||||||| || || |||||||||||||| ||||||||| || ||  |||  |  ||   || | | || ||  || |  |  |  |    ||   ||||||| || | |||| | |   |     |||  |                                                 
TTACTCGCTTGAAGGCTAACAACCCACTTTACGGATCTTCACTGATTGATTATgtgagtaatgttcaatatttcattcaaattaatttt-atatttcttgaatttttttgcttagatgtttctgtccgtttgaacct--gtgcttgtttcag-------------------------------------------------

upper sequence: LOC_Os02g12800.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G134582_T01 (Zea mays), 5'ss of exon 5
TTACTCGCTCGAAGTCTGACAACCCACTCTATGGGTCTTCACTGATTGAATATgtgagtgatctttcataaatat-ttaggatcattcttgattattttccagctcctagaatttt---gtgtttctttcaggttgatctttcatagacatttaggatcattcttgattattttaccagctccttgaatttcttgtttctttcag
||||||||| |||| |||| |||||||| ||||| |||||||||||||| |||||||||||| ||  |||  | | |||  ||||||    ||| | || ||   | | |  |  |    ||||||| || | |||| | | |       || ||                                                  
TTACTCGCTTGAAGGCTGATAACCCACTTTATGGATCTTCACTGATTGATTATgtgagtgatgttcaatatttttattaaaatcatttaatattttcttgcatgccattgtttgcttagatgtttctgtctgcttgaacctgcgcttgt-ttcag--------------------------------------------------

upper sequence: LOC_Os02g12800.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G029559_T01 (Zea mays), 5'ss of exon 4
-----------------------------------------------TTACTCGCTCGAAGTCTGACAACCCACTCTATGGGTCTTCACTGATTGAATATgtgagtgatctttcataaatatttaggatcattcttgattattttccagctcctagaattttgtgtttctttcaggttgatctttcatagacatttaggatcattcttgattattttaccagctccttgaatttcttgtttctttcag
                                               ||||||||| |||| || |||||||||| || || |||||||||||||| ||||||||| || ||  |||  |  ||   || | | || ||  || |  |  |  |    ||   ||||||| || | |||| | |   |     |||  |                                                 
GTTTGCATTTATTTGATTGAGCACCGAATTCTGTCATCTCCCTGAAGTTACTCGCTTGAAGGCTAACAACCCACTTTACGGATCTTCACTGATTGATTATgtgagtaatgttcaatatttcattcaaattaatttt-atatttcttgaatttttttgcttagatgtttctgtccgtttgaacct--gtgcttgtttcag-------------------------------------------------

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|88991494|gb|CI034829.1|CI034829
EST:     CTCGCTCGAAGTCTGACAACCCACTCTATGGGTCTTCACTGATTGAATAT                         GCCCACATTGAGCAGTGGATTGACTTTTCAGCCACAGAGGTTGATGCTAAT
genomic: CTCGCTCGAAGTCTGACAACCCACTCTATGGGTCTTCACTGATTGAATATgtgagtgatc ... tttctttcagGCCCACATTGAGCAGTGGATTGACTTTTCAGCCACAGAGGTTGATGCTAAT
EST: gi|58601569|gb|CK012097.1|CK012097
EST:     CTCGCTCGAAGTCTGACAACCCACTCTATGGGTCTTCACTGATTGAATAT                         GCCCACATTGAGCAGTGGATTGACTTTTCAGCCACAGAGGTTGATGCTAAT
genomic: CTCGCTCGAAGTCTGACAACCCACTCTATGGGTCTTCACTGATTGAATATgtgagtgatc ... tttctttcagGCCCACATTGAGCAGTGGATTGACTTTTCAGCCACAGAGGTTGATGCTAAT
EST: gi|58691659|gb|CK080346.1|CK080346
EST:     CCACTCTATGGGTCTTCACTGATTGAATAT                         GCCCACATTGAGCAGTGGATTGACTTTTCAGCCACAGAGGTTGATGCTAAT
genomic: CCACTCTATGGGTCTTCACTGATTGAATATgtgagtgatc ... tttctttcagGCCCACATTGAGCAGTGGATTGACTTTTCAGCCACAGAGGTTGATGCTAAT
EST: gi|58663459|gb|CK052145.1|CK052145
EST:     CTCGCTCGAAGTCTGACAACCCACTCTATGGGTCTTCACTGATTGAATAT                         GCCCACATTGAGCAGTGGATTGACTTTTCAGCCACAGAGGTTGATGCTAAT
genomic: CTCGCTCGAAGTCTGACAACCCACTCTATGGGTCTTCACTGATTGAATATgtgagtgatc ... tttctttcagGCCCACATTGAGCAGTGGATTGACTTTTCAGCCACAGAGGTTGATGCTAAT