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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGCCTGTCAGCTGTTCATGTGCCGTACTCTTATGGATTCGCCATCATTCTTCTCACTGTTATTGTGAAGGCTGCAACATTACCTTTAACGAAACAACAGgtaaatgataaaatctggtctattttttaattaatgagtaacatggatatggtgggttgagagttgtgctgtttttcctctctttttttag

Basic information

species Oryza sativa
transcript LOC_Os01g05800.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g05800.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM5G839422_T01 (Zea mays), 5'ss of exon 2
TGGCCTGTCAGCTGTTCATGTGCCGTACTCTTATGGATTCGCCATCATTCTTCTCACTGTTATTGTGAAGGCTGCAACATTACCTTTAACGAAACAACAGgtaaatgat--aaa--atctgg-----tctattttttaattaatgagtaac-atggatatggtgggttgagagttgtgctgtttttcctctctttttttag
||| || || || || |||||||| ||||| || || || ||||||||||| |||||| | ||||| |||||||| ||||| ||| |||| ||| | ||||| |||| |  |||  || |||     | |||    |   |  |   |    |  |||  | ||| ||||  ||||||||       |||   | ||||||
TGGTCTTTCTGCAGTCCATGTGCCATACTCCTACGGGTTTGCCATCATTCTGCTCACTATCATTGTTAAGGCTGCGACATTGCCTCTAACCAAAAAGCAGgtgaatgttccaaactatttggagaaatgtatcccgtctctggttccttgttacagattcgatggtttgattgttgtgct------tctcatgtattttag

upper sequence: LOC_Os01g05800.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G110063_T01 (Zea mays), 5'ss of exon 3
TGGCCTGTCAGCTGTTCATGTGCCGTACTCTTATGGATTCGCCATCATTCTTCTCACTGTTATTGTGAAGGCTGCAACATTACCTTTAACGAAACAACAGgtaaatgataaaatctggtcta----------ttttttaattaatgagtaacatggatatggtgggttgagagttgtgctgtttttcctctctttttttag
||| || ||||| ||||||||||||||||| || ||||| |||||||||||||| ||| | ||||| |||||||| ||||| |||||||| ||| | ||||| |||| |  || ||  |  |             ||   |   |   |   |  ||| |||||| ||||  | ||||||   | || | | |||      
TGGTCTCTCAGCAGTTCATGTGCCGTACTCCTACGGATTTGCCATCATTCTTCTTACTATCATTGTTAAGGCTGCGACATTGCCTTTAACCAAAAAGCAGgtgaatgttccaagctatttgaagaaacctgtcccttctgtggtttcttgttacagatttggtggattgattgctgtgct---tctcatgtatttag----
















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|29615536|gb|CB620548.1|CB620548
EST:     TTCCCTCTGGAATTGTGAAGGCTGCAACATTACCTTTAACGAAACAGCAG                         GTCGAATCAACTCTGGCTATGCAGAATTTACAGCCACAGATCAAAGCAATT
genomic: TTCTCACTGTTATTGTGAAGGCTGCAACATTACCTTTAACGAAACAACAGgtaaatgata ... ctttttttagGTCGAATCAACTCTGGCTATGCAGAATTTACAGCCACAGATCAAAGCAATT
EST: gi|13896049|gb|AU182385.1|AU182385
EST:     TTCTCACTGTTATTGTGAAGGCTGCAACATTACCTTTAACGAAACAACAG                         GTCGAATCAACTCTGGCTATGCAGAATTTACAGCCACAGATCAAAGCAATT
genomic: TTCTCACTGTTATTGTGAAGGCTGCAACATTACCTTTAACGAAACAACAGgtaaatgata ... ctttttttagGTCGAATCAACTCTGGCTATGCAGAATTTACAGCCACAGATCAAAGCAATT
EST: gi|29620327|gb|CB625339.1|CB625339
EST:     TTCTCACTGTTATTGTGAAGGCTGCAACATTACCTTTAACGAAACAGCAG                         GTCGAATCAACTCTGGCTATGCAGAATTTACAGCCACAGATCAAAGCAATT
genomic: TTCTCACTGTTATTGTGAAGGCTGCAACATTACCTTTAACGAAACAACAGgtaaatgata ... ctttttttagGTCGAATCAACTCTGGCTATGCAGAATTTACAGCCACAGATCAAAGCAATT
EST: gi|66923693|gb|CX110541.1|CX110541
EST:     TTCTCACTGTTATTGTGAAGGCTGCAACATTACCTTTAACGAAACAACAG                         GTCGAATCAACTCTGGCTATGCAGAATTTACAGCCACAGATCAAAGCAATT
genomic: TTCTCACTGTTATTGTGAAGGCTGCAACATTACCTTTAACGAAACAACAGgtaaatgata ... ctttttttagGTCGAATCAACTCTGGCTATGCAGAATTTACAGCCACAGATCAAAGCAATT
EST: gi|58694651|gb|CK083338.1|CK083338
EST:     CTTT-ACGAAACAGCAG                         GTCGAATCAACTCTGGCTATGCAGAATTTACAGCCACAGATCAAAGCAATT
genomic: CTTTAACGAAACAACAGgtaaatgata ... ctttttttagGTCGAATCAACTCTGGCTATGCAGAATTTACAGCCACAGATCAAAGCAATT