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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGACGATCTCCCGCATCCGGCTGGAGAACTTCATGTGCCACTCCAGCCTCCACATCGAGCTCGGCCAACACGTCAACTTCATCACCGGCCAGAACGGCAgtacgcctcccctccctcccgcaaaccctagcctcctcttttcctcccctctcgatcgatccgtgccttatcatttctctccgtcgcag

Basic information

species Oryza sativa
transcript LOC_Os09g03370.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os09g03370.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G025340_T02 (Zea mays), 5'ss of exon 1
GGGACGATCTCCCGCATCCGGCTGGAGAACTTCATGTGCCACTCCAGCCTCCACATCGAGCTCGGCCAACACGTCAACTTCATCACCGGCCAGAACGGCAgtacgcctcccct-ccctcccgcaaaccctagcctcctcttttcctcccctctcgatcgatccgtgccttatcatttctctccgtcgcag--------
||||| ||||||||||||||||| ||||||||||||||||||||||| |||||||||||||||| | | ||||| || |||||||||||||||||||| ||||||||||||   |||| || |   ||||  |  | | | |  |    |   |   ||    ||||  |    ||   || || ||  |        
GGGACTATCTCCCGCATCCGGCTAGAGAACTTCATGTGCCACTCCAGTCTCCACATCGAGCTCGACAAGCACGTGAATTTCATCACCGGCCAGAACGGAAgtacgcctcccaaaccctacccccgtccctctcgccatttatcgcggtgcctcctgacgcatggtgctcttctcttctcctacgacgtggcgttgcag

upper sequence: LOC_Os09g03370.1 (Oryza sativa), 5'ss of exon 1
lower sequence: EDP00589 (Chlamydomonas reinhardtii), 5'ss of exon 2
----------------------------------GGGACG-ATCTCCCGCATCCGGCTGGAGAACTTCATGTGCCACTCCAGCCTCCACATCGAGCTCGGCCA---------ACACGTCAACTTCATCACCGGCCAGAACGGCAgtacgcctcccctccctcccgcaaaccctagcctcctcttttcctcccctctcgatcgatccg---tgccttatcatttctctccgtcgcag-------------------------------------------------
                                  ||| |   |    ||||||||| |||||||||||||||||||||||| | || |  |  |||| ||             |  |    | | |  |   |   | |     |  ||   |  | ||   ||     || ||  | | | |||||  || | |  |  ||| |||   |||||   |||  |   | |  ||                                                   
ACCAGGGCTTCGTGGTCCGCGAGCACGGTCTGGCGGGTCACGTGGATCGCATCCGGGTGGAGAACTTCATGTGCCACTCCAACTTCGAGCTGCAGCTGGGgtgcgtgcgggcgcgtgcgggcatgaagatttggggggattttgggtcggtccgtcaccaggccagggcccttacgcgcatgttttcagccacgca-gtgcgacccggcctgcctgtgcataccgggcggctgctttcttgccaaagctccggtggtgcacacacctgctcctcctgcccatcag
















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|88301209|gb|CI594735.1|CI594735
EST:     CCACATCGAGCTCGGCCAACACGTCAACTTCATCACCGGCCAGAAAGGCA                         GCGGGAAGAGCGCCGTCCTGACGGCGCTGTGTATCGCTTTCGGCTCCCGCG
genomic: CCACATCGAGCTCGGCCAACACGTCAACTTCATCACCGGCCAGAACGGCAgtacgcctcc ... tccgtcgcagGCGGGAAGAGCGCCGTCCTGACGGCGCTGTGTATCGCTTTCGGCTCCCGCG
EST: gi|88696416|gb|CI739991.1|CI739991
EST:     CCACATCGAGCTCGGCCAACACGTCAACTTCATCACCGGCCAGAACGGCA                         GCGGGAAGAGCGCCGTCCTGACGGCGCTGTGTATCGCTTTCGGCTCCCGCG
genomic: CCACATCGAGCTCGGCCAACACGTCAACTTCATCACCGGCCAGAACGGCAgtacgcctcc ... tccgtcgcagGCGGGAAGAGCGCCGTCCTGACGGCGCTGTGTATCGCTTTCGGCTCCCGCG
EST: gi|29631119|gb|CB636128.1|CB636128
EST:     CCACATCGAGCTCGGCCAACACGTCAACTTCATCACCGGCCAGAACGGCA                         GCGGGAATAGCGCCGTCCTGACGGCGCTGTGTATCGCTTTCAGCTCCCGCG
genomic: CCACATCGAGCTCGGCCAACACGTCAACTTCATCACCGGCCAGAACGGCAgtacgcctcc ... tccgtcgcagGCGGGAAGAGCGCCGTCCTGACGGCGCTGTGTATCGCTTTCGGCTCCCGCG
EST: gi|88402682|gb|CI598909.1|CI598909
EST:     CCACATCGAGCTCGGCCAACACGTCAACTTCATCACCGGCCAGAACGGGG                         GCGGGAAGAGCGCCGTCCTGACGGCGCTGTGTATCGCTTTCGGCTCCCGGG
genomic: CCACATCGAGCTCGGCCAACACGTCAACTTCATCACCGGCCAGAACGGCAgtacgcctcc ... tccgtcgcagGCGGGAAGAGCGCCGTCCTGACGGCGCTGTGTATCGCTTTCGGCTCCCGCG
EST: gi|88720097|gb|CI745187.1|CI745187
EST:     CCACATCGAGCTCGGCCAACACGTCAACTTCATCACCGGCCAGAACGGCA                         GCGGGAAGAGCGCCGTCCTGACGGCGCTGTGTATCGCTTTCGGCTCCCGCG
genomic: CCACATCGAGCTCGGCCAACACGTCAACTTCATCACCGGCCAGAACGGCAgtacgcctcc ... tccgtcgcagGCGGGAAGAGCGCCGTCCTGACGGCGCTGTGTATCGCTTTCGGCTCCCGCG
EST: gi|58599910|gb|CK010438.1|CK010438
EST:     CCACATCGAGCTCGGCCAACACGTCAACTTCATCACCGGCCAGAACGGCA                         GCGGGAAGAGCGCCGTCCTGACGGCGCTGTGTATCGCTTTCGGCTCCCGCG
genomic: CCACATCGAGCTCGGCCAACACGTCAACTTCATCACCGGCCAGAACGGCAgtacgcctcc ... tccgtcgcagGCGGGAAGAGCGCCGTCCTGACGGCGCTGTGTATCGCTTTCGGCTCCCGCG