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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCGAGGCCGGGTCCCAGGAGGGCCGGGCTGGCCGTCGTCTCCGCCGCCGCCGGTGGCCCGCTTCCCACCGTGCTCGTCACCGGCGCAGGCGGCCGAACAGgtgcaatgtactccttgcggaaacccctctcatgcccctcctcgccatcttgcccatttggttcctcgtgttcatcgaatcgaatcgaattttctttttt...

Basic information

species Oryza sativa
transcript LOC_Os05g01970.5
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g01970.5 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G047219_T01 (Zea mays), 5'ss of exon 1
TCGAGGCCGGGTCCCAGGAGGGCCGGGCTGGCCGTC---GTCTCCGCCGCCGCCGGTGGCCCGCTTCCCACCGTGCTCGTCACCGGCGCAGGCGGCCGAACAGgtgcaatgtactccttgcggaaacccctctcatgcccctcctcgccatcttgcccatttggttcctcgtgttcatcgaatcgaatcgaatt-ttctttttt-------------------------------------------------
   |||| ||| ||||||||||||||||||||||||   |   | || |||||||||||  |||  | ||| ||||||||||||||||| |||||||||||||||   | ||   |          | | | |       ||| ||   |       |  | || |  | |   |      | ||  ||  ||| ||| |  ||                                                 
---AGGCGGGGACCCAGGAGGGCCGGGCTGGCCGTCACGGCGGCGGCTGCCGCCGGTGGATCGCCGCGCACTGTGCTCGTCACCGGCGCGGGCGGCCGAACAGgt---aggtttcctgaagttccgctcatttggcatttctcatccgtagtcaaagctctcggcttttggctgttgatagagcggttcacattgttcatgattcatgtcaacgtttgcaaaaaaccaattttcatcatttgtggtaatccag
















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|29637321|gb|CB642330.1|CB642330
EST:     CGGTGGCCCGCTTCCCACCGTGCTCGTCACCGGCGCAGGCGGCCGAACAG                         GCCAGATTGTGTACAAGAAGCTCAAGGAGAGGGCAGACCAATTTGTGGGGA
genomic: CGGTGGCCCGCTTCCCACCGTGCTCGTCACCGGCGCAGGCGGCCGAACAGgtgcaatgta ... gatctttcagGCCAGATTGTGTACAAGAAGCTCAAGGAGAGGGCAGACCAATTTGTGGGGA
EST: gi|58682453|gb|CK071140.1|CK071140
EST:     CGGTGGCCCGCTTCCCACCGTGCTCGTCACCGGCGCAGGCGGCCGAACAG                         GCCAGATTGTGTACAAGAAGCTCAAGGAGAGGGCGGACCAATTTGTGGGGA
genomic: CGGTGGCCCGCTTCCCACCGTGCTCGTCACCGGCGCAGGCGGCCGAACAGgtgcaatgta ... gatctttcagGCCAGATTGTGTACAAGAAGCTCAAGGAGAGGGCAGACCAATTTGTGGGGA
EST: gi|58667512|gb|CK056198.1|CK056198
EST:     CGGTGGCCCGCTTCCCACCGTGCTCGTCACCGGCGCAGGCGGCCGAACAG                         GCCAGATTGTGTACAAGAAGCTCAAGGAGAGGGCGGACCAATTTGTGGGGA
genomic: CGGTGGCCCGCTTCCCACCGTGCTCGTCACCGGCGCAGGCGGCCGAACAGgtgcaatgta ... gatctttcagGCCAGATTGTGTACAAGAAGCTCAAGGAGAGGGCAGACCAATTTGTGGGGA
EST: gi|88327982|gb|CI648387.1|CI648387
EST:     CGGTGGCCCGCTTCCCACCGTGCTCGTCACCGGCGCAGGCGGCCGAACAG                         GCCAGATTGTGTACAAGAAGCTCAAGGAGAGGGCAGACCAATTTGTGGGGA
genomic: CGGTGGCCCGCTTCCCACCGTGCTCGTCACCGGCGCAGGCGGCCGAACAGgtgcaatgta ... gatctttcagGCCAGATTGTGTACAAGAAGCTCAAGGAGAGGGCAGACCAATTTGTGGGGA
EST: gi|29637203|gb|CB642212.1|CB642212
EST:     CGGTGGCCCGCTTCCCACCGTGCTCGTCACCGGCGCAGGCGGCCGAACAG                         GCCAGATTGTGTACAAGAAGCTCAAGGAGAGGGCAGACCAATTTGTGGGGA
genomic: CGGTGGCCCGCTTCCCACCGTGCTCGTCACCGGCGCAGGCGGCCGAACAGgtgcaatgta ... gatctttcagGCCAGATTGTGTACAAGAAGCTCAAGGAGAGGGCAGACCAATTTGTGGGGA
EST: gi|701156|gb|D47447.1|D47447
EST:     CGGTGGCCCGCTTCCCACCGTGCTCGTCACCGGCGCAGGCGGCCGAACAG                         GC-AGATTGTGTACAAGAAGCTCAAGGAGAGGGCAGACCAATTTGTGGGGA
genomic: CGGTGGCCCGCTTCCCACCGTGCTCGTCACCGGCGCAGGCGGCCGAACAGgtgcaatgta ... gatctttcagGCCAGATTGTGTACAAGAAGCTCAAGGAGAGGGCAGACCAATTTGTGGGGA
EST: gi|29614613|gb|CB619626.1|CB619626
EST:     CGGTGGCCCGCTTCCCACCGTGCTCGTCACCGGCGCAGGCGGCCGAACAG                         GCCAGATTGTGTACAAGAAGCTCAAGGAGAGGGCGGACCAATTTGTGGGGA
genomic: CGGTGGCCCGCTTCCCACCGTGCTCGTCACCGGCGCAGGCGGCCGAACAGgtgcaatgta ... gatctttcagGCCAGATTGTGTACAAGAAGCTCAAGGAGAGGGCAGACCAATTTGTGGGGA
EST: gi|88333296|gb|CI642333.1|CI642333
EST:     CGGTGGCCCGCTTCCCACCGTGCTCGTCACCGGCGCAGGCGGCCGAACAG                         GCCAGATTGTGTACAAGAAGCTCAAGGAGAGGGCAGACCAATTTGTGGGGA
genomic: CGGTGGCCCGCTTCCCACCGTGCTCGTCACCGGCGCAGGCGGCCGAACAGgtgcaatgta ... gatctttcagGCCAGATTGTGTACAAGAAGCTCAAGGAGAGGGCAGACCAATTTGTGGGGA
EST: gi|29637365|gb|CB642374.1|CB642374
EST:     CGGTGGCCCGCTTCCCACCGTGCTCGTCACCGGCGCAGGCGGCCGAACAG                         GCCAGATTGTGTACAAGAAGCTCAAGGAGAGGGCAAACCAATTTGTGGGGA
genomic: CGGTGGCCCGCTTCCCACCGTGCTCGTCACCGGCGCAGGCGGCCGAACAGgtgcaatgta ... gatctttcagGCCAGATTGTGTACAAGAAGCTCAAGGAGAGGGCAGACCAATTTGTGGGGA