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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCGGATTTGACACTGCTCATGCGGCGGCTCGgtaagttggactcaattcctcgtcttccaatcgctgacttctattccctgctcgcccaatcgaatccggcgctgtcaaaattctaatcttttttgttatgttcatttcccaatcgcag

Basic information

species Oryza sativa
transcript LOC_Os04g55560.3
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g55560.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G174784_T01 (Zea mays), 5'ss of exon 3
GCGGATTTGACACTGCTCATGCGGCGGCTCGgtaagttggactcaattcctcgtcttccaatcgctgacttctatt---------ccctg---------------ctcgcccaatcgaatccgg---cgctgtcaaaattc--taatcttttttgttatgttcatttcccaatcgcag
|||| |||||||| ||||||||||||||||||||| ||  |  |  || ||| |||  |  ||   || | | |||         |||||               |||  ||||| | | | ||   ||| | | || |    |||||    |   |   ||    | |||| | |||
GCGGGTTTGACACCGCTCATGCGGCGGCTCGgtaa-ttaaagcctctttctc-tctctctgtcttcgattcccattggctctctaccctgactccatgccaagttctccgccaatagcagcgggtctcgccgccgaattgtaataatccggctgtctgcttttccctaccaacctcag

upper sequence: LOC_Os04g55560.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G174784_T04 (Zea mays), 5'ss of exon 2
---------------------------------------------------------------------GCGGATTTGACACTGCTCATGCGGCGGCTCGgtaagttggactcaattcctcgtcttccaatcgctgacttctatt---------ccctg---------------ctcgcccaatcgaatccgg---cgctgtcaaaattc--taatcttttttgttatgttcatttcccaatcgcag
                                                                     |||| |||||||| ||||||||||||||||||||| ||  |  |  || ||| |||  |  ||   || | | |||         |||||               |||  ||||| | | | ||   ||| | | || |    |||||    |   |   ||    | |||| | |||
CTGCCCCAATCCGAGGCGTTTTCGGTTCTGGATCCCTCACAAATGGCTTGGCTTGTGGACGACTTGCAGGCGGGTTTGACACCGCTCATGCGGCGGCTCGgtaa-ttaaagcctctttctc-tctctctgtcttcgattcccattggctctctaccctgactccatgccaagttctccgccaatagcagcgggtctcgccgccgaattgtaataatccggctgtctgcttttccctaccaacctcag
















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|29644662|gb|CB649669.1|CB649669
EST:     GCGGATTTGACACTGCTCATGCGGCGGCTCG                         GGCGTACGATCGGGCGGCGATCAAGTTCCGCGGCGTGGAGGCCGACATCAA
genomic: GCGGATTTGACACTGCTCATGCGGCGGCTCGgtaagttgga ... ccaatcgcagGGCGTACGATCGGGCGGCGATCAAGTTCCGCGGCGTGGAGGCCGACATCAA