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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTGCCTCTGGGCAAGCATCATGGCTGGATAAAATTCAGCAAACTGTACAGAATGTTTTACGAACATTCAACTTTTTCAAGACCCCTGTGGATTTATCTGgtaggttgtgtattctacctgctatgatccttcaaaaatcatgtgagatgctgtgtcacttattgatctcctttttag

Basic information

species Oryza sativa
transcript LOC_Os01g16970.2
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g16970.2 (Oryza sativa), 5'ss of exon 9
lower sequence: AC213600.3_FGT002 (Zea mays), 5'ss of exon 9
ACTGCCTCTGGGCAAGCATCATGGCTGGATAAAATTCAGCAAACTGTACAGAATGTTTTACGAACATTCAACTTTTTCAAGACCCCTGTGGATTTATCTGgtaggttgtgtattctacctgcta------tgatccttcaaaaatcatgtgagatgctgtgtcacttattgatct-cctttttag
||||   | || || ||||| ||| |||| ||| ||||||| |||||||| |||||||| | || |||||||| ||| ||||||||||| ||||| || ||||  |||| ||| |||  | |||        ||||||||  | | ||| | |   |  |  ||  |    || | ||  | |||
ACTGAGCCAGGACATGCATCGTGGTTGGACAAAGTTCAGCAGACTGTACAAAATGTTTTCCAAAAATTCAACTCTTTTAAGACCCCTGTAGATTTGTCAGgtaatttgtatatgctagtttctaatcagccaatccttcatgagttatgagggg-acactaacatctgcatatttacccatctag

upper sequence: LOC_Os01g16970.2 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G052875_T02 (Zea mays), 5'ss of exon 9
ACTGCCTCTGGGCAAGCATCATGGCTGGATAAAATTCAGCAAACTGTACAGAATGTTTTACGAACATTCAACTTTTTCAAGACCCCTGTGGATTTATCTGgtaggttgtgtattctacctgcta------tgatccttcaaaaatcatgtgag-atgctgtgtcacttattgatc--tcctttttag
||||   | || || ||||| ||| |||| ||||||||||| ||||||||||||||||| | || |||||||||||| | ||||||||| ||||| || ||||  |||| |||  |   | |||       ||| |||||  | ||||| | | ||| | |  || |     |||     |||||||
ACTGAGCCAGGACATGCATCGTGGTTGGACAAAATTCAGCAGACTGTACAGAATGTTTTCCAAAAATTCAACTTTTTTAGGACCCCTGTAGATTTGTCAGgtaatttgtatatagtggtttctaatcagtcgattcttcatgagtcatgagggtatgttataacattcgcatatcaactttttttag
















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|38481101|gb|CF965190.1|CF965190
EST:     AATGTTTTACGAACATTCAACTTTTTCAAGACCCCTGTGGATTGTGTCTG                         AGGCTTCTCGTGTTCGGAAGGAGTATGATGATGCAAGCTCAAAGCTGTCC
genomic: AATGTTTTACGAACATTCAACTTTTTCAAGACCCCTGTGGATT-TATCTGgtaggttgtg ... tcctttttagAGGCTTCTCGTGTTCGGAAGGAGTATGATGATGCAAGCTCAAAGCTGTCC
EST: gi|88371457|gb|CI602635.1|CI602635
EST:     GAATGTTTTACGAACATTCAACTTTTTCAAGACCCCTGTGGATTTATCTG                         AGGCTTCTCGTGTTCGGAAGGAGTATGATGATGCAAGCTCAAAGCTGTCCA
genomic: GAATGTTTTACGAACATTCAACTTTTTCAAGACCCCTGTGGATTTATCTGgtaggttgtg ... tcctttttagAGGCTTCTCGTGTTCGGAAGGAGTATGATGATGCAAGCTCAAAGCTGTCCA
EST: gi|58589761|gb|CF988069.1|CF988069
EST:     GAATGTTTTACGAACATTCAACTTTTTCAAGACCCCTGTGGATTTATCTG                         AGGCTTCTCGTGTTCGGAAGGAGTATGATGATGCAAGCTCAAAGCTGTCCA
genomic: GAATGTTTTACGAACATTCAACTTTTTCAAGACCCCTGTGGATTTATCTGgtaggttgtg ... tcctttttagAGGCTTCTCGTGTTCGGAAGGAGTATGATGATGCAAGCTCAAAGCTGTCCA