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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCATATGAACACGGTTACACTGCACCTACTAGGCCTCATCCTGATGAAACTACCATTGACATCAGgtagggcatcatgcttttctatattgaagacatgggttcttgttgatattatatcgtggtgtcatttgtagtattccaggctaattgcaacctatttcttttggaatgcacag

Basic information

species Oryza sativa
transcript LOC_Os09g24650.3
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os09g24650.3 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G113619_T03 (Zea mays), 5'ss of exon 6
CCATATGAACACGGTTACACTGCACCTACTAGGCCTCATCCTGATGAAACTACCATTGACATCAGgtagggcatcatgct-tttctatattgaagacatgggttcttgttgatattatatcgtggtgtcatttgtagtattccaggctaattgcaacctatttcttttggaatgcacag----------------------------------
|| |||||||| || |||||||||||| | ||    ||||||||||||||||||||||| || ||||||| ||| ||||  ||| |||  || |    |    | | ||  | |  || || |       ||||   |   |     |   | ||   |   |  |   |  || |||                                   
CCTTATGAACATGGGTACACTGCACCTCCCAGAGGCCATCCTGATGAAACTACCATTGATATAAGgtaggacataatgccctttttattctgtaattgttctatttagtaaaaaaaat-tcatctaactgtttgccatcacctctcatttcttcatggttcctagtggtgggtggacaattaccggtaccgcatttgacttgcgtgatcctag

upper sequence: LOC_Os09g24650.3 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G113619_T04 (Zea mays), 5'ss of exon 6
CCATATGAACACGGTTACACTGCACCTACTAGGCCTCATCCTGATGAAACTACCATTGACATCAGgtagggcatcatgcttttctatattgaagacatgggttcttgttgatattatatcgtggtgtcatttgtagtattccaggctaattgcaacctatttcttttggaatgcacag
|| |||||||| || |||||||||||| | ||    ||||||||||||||||||||||| || ||||||| ||| ||||  || | ||||    |  |  |||||  ||  ||  | |   |  | | | |  | |   ||    || ||| |  | |  ||| |             
CCTTATGAACATGGGTACACTGCACCTCCCAGAGGCCATCCTGATGAAACTACCATTGATATAAGgtaggacataatgccctttt-tattctgtaatt--gttctatttagtaaaaaaaattcatctaactgtttgccatcacctctcatttcttcatggttcctag-----------
















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|38471428|gb|CF955559.1|CF955559
EST:     TACACTGCACCTACTAGGCCTCATCCTGATGAAACTACCATTGACATCAG                         TGGTGGCTGGACCATTACTGGTACTGCATTTGACTTGCGTGATCCTAGGAT
genomic: TACACTGCACCTACTAGGCCTCATCCTGATGAAACTACCATTGACATCAGgtagggcatc ... gaatgcacagTGGTGGCTGGACCATTACTGGTACTGCATTTGACTTGCGTGATCCTAGGAT
EST: gi|29626392|gb|CB631403.1|CB631403
EST:     TACACTGCACCTACTAGGCCTCATCCTGATGAAACTACCATTGACATCAG                         TGGTGGCTGGACCATTACTGGTACTGCATTTGACTTGCGTGATCCTAGGAT
genomic: TACACTGCACCTACTAGGCCTCATCCTGATGAAACTACCATTGACATCAGgtagggcatc ... gaatgcacagTGGTGGCTGGACCATTACTGGTACTGCATTTGACTTGCGTGATCCTAGGAT