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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCCGCCATCGAGAAGTTCCTCCAGTTCCAGGACGCCGTCCCCTGCAAGATCCGCGCCAAGCGCGGCTGCGCCACCCACCCCCGCAGCATCGCCGAGCGGgtcagtaccgtaccttacacacgcgcacacctctcgccgccacgcgcacgccatggcatggcgtggcgtggcgtggcgtggcgtggcacgcgatccatttccttcgattcctgagctgaaaatcgtctcccgcttgcag

Basic information

species Oryza sativa
transcript LOC_Os09g31300.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os09g31300.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G417597_T01 (Zea mays), 5'ss of exon 1
GGCCGCCATCGAGAAGTTCCTCCAGTTCCAGGACGCCGTCCCCTGCAAGATCCGCGCCAAGCGCGGCTGCGCCACCCACCCCCGCAGCATCGCCGAGCGGgtcagtac-----cgtaccttacacacgcgc-acacctctcg-ccgccacgcgcacgccatggcatggcgt----ggcgtggcgtggcgtggcgtggcacgcgatccatttcct---tcgattcctgagctgaaaatcgtctcccgc--ttgcag-------
||| || |||||||||||||| |||||||||||||||||||||||||||||||||||||||||||| |||||||||||||| ||||||||||||||||||||  || |      | | |   |   |  ||  ||   || | | |  || |        | || |||  |     ||  | |    |   |    | | | ||        |    | |       | ||  |||  |  ||  |   |||  |       
GGCGGCGATCGAGAAGTTCCTGCAGTTCCAGGACGCCGTCCCCTGCAAGATCCGCGCCAAGCGCGGGTGCGCCACCCACCCGCGCAGCATCGCCGAGCGGgttcgttcgtgcctgcatccagccagccagctgcattccttggctgatactcttgaattctcgcttgggttttccagctagcccaatccgagaaaagaaagagagaagggggccgggtggggaataaaactcgaaactgattcatgtcgttgtcgctgtcag

upper sequence: LOC_Os09g31300.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G085467_T02 (Zea mays), 5'ss of exon 2
GGCCGCCATCGAGAAGTTCCTCCAGTTCCAGGACGCCGTCCCCTGCAAGATCCGCGCCAAGCGCGGCTGCGCCACCCACCCCCGCAGCATCGCCGAGCGGgtcagtaccgtaccttacacacgcgcacacctctcgccgccacgcgcacgccatggcatggcgtggcgtggcgtggcgtggcgtggcacgcgatccatttccttcgattcctgagctgaaaatcgtctcccgcttgcag
||| || ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||| ||||||||||||||||||||  |   | | |||  | | |    || |       |  | |  |      ||  |  | |    |        |   |       |    |   |         ||      | |     |||| |  ||||  |||
GGCGGCGATCGAGAAGTTCCTCCAGTTCCAGGACGCCGTCCCCTGCAAGATCCGCGCCAAGCGCGGGTGCGCCACCCACCCGCGCAGCATCGCCGAGCGGgttcgctgcattcct-gctcgctgctactctcgaattcctcgcttggttttaattcccagcccaatccaaaaagagaacgaaagcaaaaaaaaaaaaaaaaaaaaaatgaaaccggttcgtgtcgt-tgtcgctgtcag
















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|29669314|gb|CB665589.1|CB665589
EST:     GCGCCACCCACCCCCGCAGCATCGCCGAGCGG                         GTGAGGAGGACGCGGATCAGCGAGCGGATACGGAAGCTGCAGGAGCTCGTC
genomic: GCGCCACCCACCCCCGCAGCATCGCCGAGCGGgtcagtaccg ... ccgcttgcagGTGAGGAGGACGCGGATCAGCGAGCGGATACGGAAGCTGCAGGAGCTCGTC
EST: gi|29657039|gb|CB653314.1|CB653314
EST:     TCCGCGCCAAGCGCGGCTGCGCCACCCACCCCCGCAGCATCGCCGAGCGG                         GTGAGGAGGACGCGGATCAGCGAGCGGATACGGAAGCTGCAGGAGCTCGTC
genomic: TCCGCGCCAAGCGCGGCTGCGCCACCCACCCCCGCAGCATCGCCGAGCGGgtcagtaccg ... ccgcttgcagGTGAGGAGGACGCGGATCAGCGAGCGGATACGGAAGCTGCAGGAGCTCGTC
EST: gi|29669315|gb|CB665590.1|CB665590
EST:     TCCGCGCCAAGCGCGGNTGCGCCACCCACCCCCGCAGCATCGCCGAGCGG                         GTGAGGAGGACGCGGATCAGCGAGCGGATACGGAAGCTGCAGGAGCTCGTC
genomic: TCCGCGCCAAGCGCGGCTGCGCCACCCACCCCCGCAGCATCGCCGAGCGGgtcagtaccg ... ccgcttgcagGTGAGGAGGACGCGGATCAGCGAGCGGATACGGAAGCTGCAGGAGCTCGTC