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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAGGAGGTGGAGGTGGCGCCGCCGGAGGCCATGGAGATCCGCGTCAAGGTCGTCTCCACCTCCATCTGCCGCAGTGACGTCACCCAGTGGCAATCCACGgtacgccggcctctctagctctgcttccatccagcccgatactcctgatgcgctcatcgattttgctgctgtttccgaaacgcag

Basic information

species Oryza sativa
transcript LOC_Os02g42520.3
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g42520.3 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G149272_T01 (Zea mays), 5'ss of exon 2
GGAGGAGGTGGAGGTGGCGCCGCCGGAGGCCATGGAGATCCGCGTCAAGGTCGTCTCCACCTCCATCTGCCGCAGTGACGTCACCCAGTGGCAATCCACGgtacgc----cggcctctctagctctgcttc--catccagcccgata--ctcctg---atgcgc--tcatcgattttgctgctgttt--ccgaaacgcag------------------------------------------------------------------------------------------------
||||||||||||||| || ||||||| | ||||||||||||| ||||||||||||||||||||| |||||||||| ||||||||    |||||||||| |||| ||    ||||  |       | || ||  | |  |    | ||  ||||||   |||||   | ||  || ||    ||  ||    || |   |                                                                                                 
GGAGGAGGTGGAGGTCGCCCCGCCGGGGCCCATGGAGATCCGTGTCAAGGTCGTCTCCACCTCCGTCTGCCGCAGCGACGTCACTGCCTGGCAATCCAAGgtatgcactacggcggcggggctgcagcctctgcgtttactatggtagcctcctgcttatgcgtagtaatgtatattctccctacttgtttgagaattattttcatatcataattttttttccttagctgagagcctgagacaaacgatctctctgatcgaatttgctcatctgtgttctcttccaattccaacat

upper sequence: LOC_Os02g42520.3 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G149272_T05 (Zea mays), 5'ss of exon 2
GGAGGAGGTGGAGGTGGCGCCGCCGGAGGCCATGGAGATCCGCGTCAAGGTCGTCTCCACCTCCATCTGCCGCAGTGACGTCACCCAGTGGCAATCCACGgtacgc----cggcctctctagctctgcttc--catccagcccgata--ctcctg---atgcgc--tcatcgattttgctgctgttt--ccgaaacgcag---------------------------
||||||||||||||| || ||||||| | ||||||||||||| ||||||||||||||||||||| |||||||||| ||||||||    |||||||||| |||| ||    ||||  |       | || ||  | |  |    | ||  ||||||   |||||   | ||  || ||    ||  ||    || |   |                            
GGAGGAGGTGGAGGTCGCCCCGCCGGGGCCCATGGAGATCCGTGTCAAGGTCGTCTCCACCTCCGTCTGCCGCAGCGACGTCACTGCCTGGCAATCCAAGgtatgcactacggcggcggggctgcagcctctgcgtttactatggtagcctcctgcttatgcgtagtaatgtatattctccctacttgtttgagaattattttcatatcataattttttttccttag

upper sequence: LOC_Os02g42520.3 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G149272_T02 (Zea mays), 5'ss of exon 2
GGAGGAGGTGGAGGTGGCGCCGCCGGAGGCCATGGAGATCCGCGTCAAGGTCGTCTCCACCTCCATCTGCCGCAGTGACGTCACCCAGTGGCAATCCACGgtacgc----cggcctctctagctctgcttc--catccagcccgata--ctcctg---atgcgc--tcatcgattttgctgctgttt--ccgaaacgcag----------------------------------------------------------------------------------------------------
||||||||||||||| || ||||||| | ||||||||||||| ||||||||||||||||||||| |||||||||| ||||||||    |||||||||| |||| ||    ||||  |       | || ||  | |  |    | ||  ||||||   |||||   | ||  || ||    ||  ||    || |   |                                                                                                     
GGAGGAGGTGGAGGTCGCCCCGCCGGGGCCCATGGAGATCCGTGTCAAGGTCGTCTCCACCTCCGTCTGCCGCAGCGACGTCACTGCCTGGCAATCCAAGgtatgcactacggcggcggggctgcagcctctgcgtttactatggtagcctcctgcttatgcgtagtaatgtatattctccctacttgtttgagaattattttcatatcataattttttttccttagctgagagcctgagacaaacgatctctctgatcgaatttgctcatctgtgttctcttccaattccaacatgcag

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|25797193|gb|CA753154.1|CA753154
EST:     TCGTCTCCACCTCCATCTGCCGCAGTGACGTCACCCAGTGGCAATCCACG                         GCTCAAACCGATCTGTTCCCCAGAATTTTCGGGCACGAAGCATCCGG
genomic: TCGTCTCCACCTCCATCTGCCGCAGTGACGTCACCCAGTGGCAATCCACGgtacgccggc ... cgaaacgcagGCTCAAACCGATCTGTTCCCCAGAATTTTCGGGCACGAAGCATCCGG
EST: gi|88357025|gb|CI620913.1|CI620913
EST:     TCGTCTCCACCTCCATCTGCCGCAGTGACGTCACCCAGTGGCAATCCACG                         GCTCAAACCGATCTGTTCCCCAGAATTTTCGGGCACGAAGCATCCGG
genomic: TCGTCTCCACCTCCATCTGCCGCAGTGACGTCACCCAGTGGCAATCCACGgtacgccggc ... cgaaacgcagGCTCAAACCGATCTGTTCCCCAGAATTTTCGGGCACGAAGCATCCGG
EST: gi|88372773|gb|CI612701.1|CI612701
EST:     TCGTCTCCACCTCCATCTGCCGCAGTGACGTCACCCAGTGGCAATCCACG                         GCTCAAACCGATCTGTTCCCCAG
genomic: TCGTCTCCACCTCCATCTGCCGCAGTGACGTCACCCAGTGGCAATCCACGgtacgccggc ... cgaaacgcagGCTCAAACCGATCTGTTCCCCAG
EST: gi|58602019|gb|CK012547.1|CK012547
EST:     TCGTCTCCACCTCCATCTGCCGCAGTGACGTCACCCAGTGGCAATCCACG                         GCTCAAACCGATCTGTTCCCCAGAATTTTCGGGCACGAAGCATCCGG
genomic: TCGTCTCCACCTCCATCTGCCGCAGTGACGTCACCCAGTGGCAATCCACGgtacgccggc ... cgaaacgcagGCTCAAACCGATCTGTTCCCCAGAATTTTCGGGCACGAAGCATCCGG
EST: gi|88425441|gb|CI567161.1|CI567161
EST:     TCGTCTCCAACTCCATCTGCCGCAGTGACGTCACCCAGTGGCAATCCACG                         GCTCAAACCGATCTGTTCCCCAGAATTTTCGGGCACGAAGCATCCGG
genomic: TCGTCTCCACCTCCATCTGCCGCAGTGACGTCACCCAGTGGCAATCCACGgtacgccggc ... cgaaacgcagGCTCAAACCGATCTGTTCCCCAGAATTTTCGGGCACGAAGCATCCGG
EST: gi|88449400|gb|CI582272.1|CI582272
EST:     TCGTCTCCACCTCCATCTGCCGCAGTGACGTCACCCAGTGGCAATCCACG                         GCTCAAACCGATCTGTTCCCCAGAATTTTCGGGCACGAAGCATCCGG
genomic: TCGTCTCCACCTCCATCTGCCGCAGTGACGTCACCCAGTGGCAATCCACGgtacgccggc ... cgaaacgcagGCTCAAACCGATCTGTTCCCCAGAATTTTCGGGCACGAAGCATCCGG
EST: gi|58658973|gb|CK047653.1|CK047653
EST:     TCGTCTCCACCTCGGTCTGCCGCAGTGACGTCACCCAGTGGCAATCCACG                         GCTCAAACCGATCTGTTCCCCAGAATTTTCGGGCACGAAGCATCCGG
genomic: TCGTCTCCACCTCCATCTGCCGCAGTGACGTCACCCAGTGGCAATCCACGgtacgccggc ... cgaaacgcagGCTCAAACCGATCTGTTCCCCAGAATTTTCGGGCACGAAGCATCCGG
EST: gi|29617893|gb|CB622905.1|CB622905
EST:     TCGTCTCCACCTCCATCTGCCGCAGTGACGTCACCCAGTGGCAATCCACG                         GCTCAAACCGATCTGTTCCCCAGAATTTTCGGGCACGAAGCATCCGG
genomic: TCGTCTCCACCTCCATCTGCCGCAGTGACGTCACCCAGTGGCAATCCACGgtacgccggc ... cgaaacgcagGCTCAAACCGATCTGTTCCCCAGAATTTTCGGGCACGAAGCATCCGG