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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaacatccgtaacctatttgaatcaatacagttctgtctgctattgttttgcttctgccaatggtgtctaaaactctgtttttatttcaccctgataaagGCAAGAAGCAAGGAAGGAATGAATTCGTTATACGGTTGCAGCCATCGGAAGCCATGTATATGAAATTAACT

Basic information

species Oryza sativa
transcript LOC_Os02g38840.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g38840.2 (Oryza sativa), 3'ss of exon 12
lower sequence: GRMZM2G031107_T02 (Zea mays), 3'ss of exon 12
-------aaacatccgtaac-ctatttgaatcaatacagttctgtctgctattgttttgcttctgccaatggtgtctaaaactctgtttttatttcaccctgataaagGCAAGAAGCAAGGAAGGAATGAATTCGTTATACGGTTGCAGCCATCGGAAGCCATGTATATGAAATTAACT
        | | ||  | |  || ||  || ||  | | |||  | |    |||| | | ||   |  |  |||| |||  ||||||  |   ||        || ||||||||| ||||| |||||||| || || |||||  |||||||||| ||||||||||| |||||| |||| 
tgattactaccttcaatgattctgttcaaagcaccagatttccatttaaacttgtct-ggttgcactgaacgtgtttaatcctctgtgctctcttt-------tatagGCAAGAAACAAGGCAGGAATGAGTTTGTCATACGCCTGCAGCCATCAGAAGCCATGTACATGAAACTAACG
















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|29616737|gb|CB621749.1|CB621749
EST:     AGCAGAGATACGTGTGCAGTTTAAGGATGCTCCTGGTGACATTTTTAAAT                         GCAAGAAGCAAGGAAGGAATGAATTCGTTATACGGTTGCAGCCATCGGAAG
genomic: AGCAGAGATACGTGTGCAGTTCAAGGATGCTCCTGGTGACATTTTTAAATgtatgcgcta ... cctgataaagGCAAGAAGCAAGGAAGGAATGAATTCGTTATACGGTTGCAGCCATCGGAAG
EST: gi|218492006|gb|FG967745.1|FG967745
EST:     AGCAGAGATACGTGTGCAGTTCAAGGATGCTCCTGGTGACATTTTTAAAT                         GGCA-GAAGCAAGGA-GTGAATGAATTCGTTATACGGTTGCAGCCATCGGA
genomic: AGCAGAGATACGTGTGCAGTTCAAGGATGCTCCTGGTGACATTTTTAAATgtatgcgcta ... cctgataaagG-CAAGAAGCAAGGAAG-GAATGAATTCGTTATACGGTTGCAGCCATCGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttttgcttctgccaatggtgtctaaaactctgtttttatttcaccctgataaagGCAAGAAGCAAGGAAGGAATGAATTCGTTATACGGTTGCAGCCATCGGAAGCCATGTATATGAAATTAACT
                                 tttttatttcaccct  CT-rich tract
                               tgtttttattt  TA-rich tract