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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGACCCATCAAAAATTAAGGATAAGCTTAAGCGTGACATTGAGGCGCATGTGGCATCAGTTCGTGCCAAAAAACTATCTGAACTTTGTTCCAAATACGAGgttgcttatgtttatctaatcaaatggttggcaaagttatcaagagaaacaagccattatctaatttgagatgtgttattttag

Basic information

species Oryza sativa
transcript LOC_Os01g39310.1
intron # 16
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g39310.3 (Oryza sativa), 5'ss of exon 16
lower sequence: AC196426.3_FGT007 (Zea mays), 5'ss of exon 15
GGACCCATCAAAAATTAAGGATAAGCTTAAGCGTGACATTGAGGCGCATGTGGCATCAGTTCGTGCCAAAAAACTATCTGAACTTTGTTCCAAATACGAGgttgcttatgtttatctaatcaaatggttggcaaagttatcaagagaaacaagccattatctaat--ttgagatgtgttattttag
|||| | |||||| | | |||||||||||  |||||||||||||| ||||| || |||||||| ||    ||| | |||||||||||| | ||||| ||||||| |     ||    |||  |   ||| |     | |   |    ||  || | |||||||||  || |||| |||| ||| ||
GGACACCTCAAAAGTGAGGGATAAGCTTAGACGTGACATTGAGGCTCATGTAGCTTCAGTTCGGGCTGCTAAATTGTCTGAACTTTGTGCGAAATATGAGgttggtcccagtt--tgaattcatctgtttgtgtcatcacacaacacaaggagtccttatctaatattttagatatgttgtttcag

upper sequence: LOC_Os01g39310.3 (Oryza sativa), 5'ss of exon 16
lower sequence: GRMZM5G838579_T01 (Zea mays), 5'ss of exon 5
GGACCCATCAAAAATTAAGGATAAGCTTAAGCGTGACATTGAGGCGCATGTGGCATCAGTTCGTGCCAAAAAACTATCTGAACTTTGTTCCAAATACGAGgttgcttatgtttatctaatcaaatggttggcaaagttatcaagagaaacaagccattatctaatttgagatgtgttattttag
|||| | |||||| | |||||||||||||  |||||||||||||| ||||| || |||||||| ||    ||| |||||||||||||| ||||||| ||||||| |     || |  | |||  || |||    |     ||  | ||   |  | |  |||||| | |||| |||| ||||||
GGACACCTCAAAAGTGAAGGATAAGCTTAGACGTGACATTGAGGCTCATGTAGCTTCAGTTCGAGCTGCTAAATTATCTGAACTTTGTGCCAAATATGAGgttggtcccagtt-tgcattcacctgtttgtgtcaccatgcagcacaagagaatcctcgtctaatcttagatatgttgttttag
















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|571771|gb|D41282.1|D41282
EST:     TGGCATCAGTTCGTGCCAAAAAACTATCTGAACTTTGTTCCAAATACGAG                         GGACAACTTACCAAGGNACTGGCAGAACCAGTTGAAGCTCTTCTAGATTCA
genomic: TGGCATCAGTTCGTGCCAAAAAACTATCTGAACTTTGTTCCAAATACGAGgttgcttatg ... gttattttagGGACAACTTACCAAGGCACTGGCAGAACCAGTTGAAGCTCTTCTAGATTCA
EST: gi|29641074|gb|CB646081.1|CB646081
EST:     TGGCATCAGTTCGTGCCAAAAAACTATCTGAACTTTGTTCCAAATACGAG                         GGACAACTTACCAAGGCACTGGCAGAACCAGTTGAAGCTCTTCTAGATTCA
genomic: TGGCATCAGTTCGTGCCAAAAAACTATCTGAACTTTGTTCCAAATACGAGgttgcttatg ... gttattttagGGACAACTTACCAAGGCACTGGCAGAACCAGTTGAAGCTCTTCTAGATTCA
EST: gi|218488553|gb|FG950540.1|FG950540
EST:     TGGCATCAGTTCGTGCCAAAAAACTATCTGAACTTTGTTCCAAATACGAG                         GGACAACTTACCAAGGCACTGGCAGAACCAGTTGAAGCTCTTCTAGATTCA
genomic: TGGCATCAGTTCGTGCCAAAAAACTATCTGAACTTTGTTCCAAATACGAGgttgcttatg ... gttattttagGGACAACTTACCAAGGCACTGGCAGAACCAGTTGAAGCTCTTCTAGATTCA
EST: gi|58665350|gb|CK054036.1|CK054036
EST:     TGGCATCAGTTCGTGCCAAAAAACTATCTGAACTTTGTTCCAAATACGAG                         GGACAACTTACCAAGGCACTGGCAGAACCAGTTGAAGCTCTTCTAGATTCA
genomic: TGGCATCAGTTCGTGCCAAAAAACTATCTGAACTTTGTTCCAAATACGAGgttgcttatg ... gttattttagGGACAACTTACCAAGGCACTGGCAGAACCAGTTGAAGCTCTTCTAGATTCA
EST: gi|157650537|gb|EX450171.1|EX450171
EST:     TGGCATCAGTTCGTGCCAAAAAACTATCTGAACTTTGTTCCAAATACGAG                         GGACAACTTACCAAGGCACTGGCAGAACCAGTTGAAGCTCTTCTAGATTCA
genomic: TGGCATCAGTTCGTGCCAAAAAACTATCTGAACTTTGTTCCAAATACGAGgttgcttatg ... gttattttagGGACAACTTACCAAGGCACTGGCAGAACCAGTTGAAGCTCTTCTAGATTCA
EST: gi|58661464|gb|CK050144.1|CK050144
EST:     TGGCATCAGTTCGTGCCAAAAAACTATCTGAACTGGGTTCCAAATACGAG                         GGACAACTTACCAAGGCACTGGCAGAACCAGTTGAAGCTCTTCTAGATTCA
genomic: TGGCATCAGTTCGTGCCAAAAAACTATCTGAACTTTGTTCCAAATACGAGgttgcttatg ... gttattttagGGACAACTTACCAAGGCACTGGCAGAACCAGTTGAAGCTCTTCTAGATTCA
EST: gi|5003388|gb|AU068537.1|AU068537
EST:     TGGCATCAGTTCGTGCCAAAAAACTATCTGAACTTTGTTCCAAATACGAG                         GGACAACTTACCAAGGCACTGGCAGAACCAGTTGAAGCTCTTCTAGATTCA
genomic: TGGCATCAGTTCGTGCCAAAAAACTATCTGAACTTTGTTCCAAATACGAGgttgcttatg ... gttattttagGGACAACTTACCAAGGCACTGGCAGAACCAGTTGAAGCTCTTCTAGATTCA