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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATCTCGCATGGCAGCGCTTGATTATATTGTGTGTGATAAGAGTGATGTATTTGTGACAAATAACAACGGCAACATGGCCAGAATGTTGGCTGGTCGAAGgtaatgtttttacccgtttctcagaaatagtttgggtacatctggtcatattctgaagagaaaattgaatttcag

Basic information

species Oryza sativa
transcript LOC_Os04g47520.2
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g47520.2 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G142664_T01 (Zea mays), 5'ss of exon 9
CATCTCGCATGGCAGCGCTTGATTATATTGTGTGTGATAAGAGTGATGTATTTGTGACAAATAACAACGGCAACATGGCCAGAATGTTGGCTGGTCGAAGgtaatgtttt-tacccgtttctcagaaatagtttgggtacatctggtcatattctgaagagaaaattgaatttcag---------------------------------------------------------
||||||||||||| || || |||| ||| || ||||||| ||| ||||| || |||||||| ||||| ||||||||||||||||||||||||||||||||||| | |||| |  | |||| ||    |  | |    || |   |||   | |     ||  ||| |  ||||                                                            
CATCTCGCATGGCTGCTCTCGATTTTATCGTATGTGATAGGAGCGATGTCTTCGTGACAAACAACAATGGCAACATGGCCAGAATGTTGGCTGGTCGAAGgtactcttttctttctgtttttcctttagtgctaacctagactcggtggcaattgattgaacaaagtagatttggtttatctgtcttacactctaaggcaatggtgattgactgataaattttggattttcag

upper sequence: LOC_Os04g47520.2 (Oryza sativa), 5'ss of exon 9
lower sequence: AT4G38390.1 (Arabidopsis thaliana), 5'ss of exon 8
CATCTCGCATGGCAGCGCTTGATTATATTGTGTGTGATAAGAGTGATGTATTTGTGACAAATAACAACGGCAACATGGCCAGAATGTTGGCTGGTCGAAGgtaatgtttttaccc-------gtttctcagaaatagtttgggtacatctggtcatattctgaagagaaaattgaattt-cag
|||| |||||||| || ||||| |  ||||| ||||||||||| || | |||||| ||||| |||||||||||||||||  |||| || |||||  |||||||    | |||  |       || ||| |  |  | |||       |||  || || | || | |   |  ||  ||| |||
CATCACGCATGGCTGCTCTTGACTTCATTGTCTGTGATAAGAGCGACGCATTTGTCACAAACAACAACGGCAACATGGCTCGAATCTTAGCTGGGAGAAGgtataactcttagtccagctgtgtctcttaacatcactttttccctctcttttc-taatatgcacatgcatgtgtgtttgcag

upper sequence: LOC_Os04g47520.2 (Oryza sativa), 5'ss of exon 9
lower sequence: Vv03s0038g03240.t01 (Vitis vinifera), 5'ss of exon 9
CATCTCGCATGGCAGCGCTTGATTATATTGTGTGTGATAAGAGTGATGTATTTGTGACAAATAACAACGGCAACATGGCCAGAATGTTGGCTGGTCGAAGgta----atgtttttacccgtttct-cagaaatagtttg--ggtacatctggtcatattctgaagagaaaattgaatttcag------------------
| ||||| ||||| || || || |  ||||| |||||| | |||||||| ||||| || || ||||| ||||||||||| |||||||||||||| ||||||||    || ||||    |   |||   |||  |  ||    | |  |  ||  | | | | || |      | |||  |                    
CTTCTCGTATGGCTGCCCTAGACTTCATTGTTTGTGATGAAAGTGATGTTTTTGTCACCAACAACAATGGCAACATGGCTAGAATGTTGGCTGGACGAAGgtatgtgattttttatttcacgtctgtggaagcaaattacaaggatgtgaggaaaaacttttaatactctccttaatacccattaacccatctacaatga

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|86528484|gb|CI168690.1|CI168690
EST:     TTTGTGACAAATAACAACGGCAACATGGCCAGAATGTTGGCTGGTCGAAG                         GAGGTATTTTGGGCACAAGAGGACCATAAGGCCCAATTGCCAAGAAGCTTT
genomic: TTTGTGACAAATAACAACGGCAACATGGCCAGAATGTTGGCTGGTCGAAGgtaatgtttt ... tgaatttcagGAGGTATTTTGGGCACAAGAGGACCATAAGGCCCAA-TGCCAAGAAGCTTT