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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGGAAGCTTGGAAAGGGAGGATTTGGACAAGTATACGTTGGCCGGCGTATTTCCTCTCCTACTCATGGTAACAGAAATTCTGGTGCAAATGCATTAGAGgtcagtgtatctccttgaatgattgaagtagttggaactgagactattcgtacttgcgtcagtactcatgttcatttctgtcag

Basic information

species Oryza sativa
transcript LOC_Os01g10150.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g10150.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G045259_T02 (Zea mays), 5'ss of exon 2
GAGGAAGCTTGGAAAGGGAGGATTTGGACAAGTATACGTTGGCCGGCGTATTTCCTCTCCTACTCATGGTAACAGAAATTCTGGTGCAAATGCATTAGAGgtcagtgtatctccttgaatgattgaagtagttggaactgagactattcgtacttgcgtcagtactcatgttc--atttctgtcag
 ||||||||||||||||||||||||||||||||||||||||| || ||||||||  |||||  ||   || || | ||  ||||| ||||||| |||||||||| | ||||||| | |||||||  ||| ||||||||||  |  |  |||| || | ||| |  ||||| |   || | ||| ||
AAGGAAGCTTGGAAAGGGAGGATTTGGACAAGTATACGTTGGTCGACGTATTTCAGCTCCTCGTCTCAGTGACCGTAACCCTGGTTCAAATGCTTTAGAGgtcactatatctccataaatgatt--agt-gttggaactggaaaaaa-cgtagttccatcaattttcatgcttctatatttgttag

upper sequence: LOC_Os01g10150.1 (Oryza sativa), 5'ss of exon 2
lower sequence: PP1S66_174V6.1 (Physcomitrella patens), 5'ss of exon 2
---------GAGGAAGCTTGGAAAGGGAGGATTTGGACAAGTATACGTTGGCCGGCGTATT-----------------TCCTCTCCTACTCATGGTAACAGAAATTCTGGTGCAAATGCATTAGAGgtcagt------gtatctccttgaatgattgaagtagttggaactgag--actattcgtactt-gcgtcagta--ctcatgttcatttctgtcag-----------
         |||||| |||||||||||||| ||||| |||||||| ||||| || ||| |                    ||   | ||     ||    | | |  |    | ||| | ||   |  | ||      ||||  | |  | ||      || ||    | | ||  | |||   | ||| | ||| | |    ||   | | |  |||              
CAAGATTGAGAGGAAACTTGGAAAGGGAGGCTTTGGTCAAGTATATGTTGGTCGTCGTCTCAGTGGTGGGGCAGAGCGCACTGGTCCACAGGCTGTCGAGgtactctttactctaattcgttgaggtccggtcgtgtcgtattccgtatagtgccgagggttgtgattatttagcgagtatctttgctttgtgtctggaagtacaaactgagtcttgttttcgtgctcgcag
















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|29688778|gb|CB685053.1|CB685053
EST:     TTTCCTCTCCTACTCATGGTAACAGAAATTCTGGTGCAAATGCATTAGAG                         GTTGCGCTAAAATTCGAACATCGAACCAGCAAAGGTTGCAGCTATGGAGCT
genomic: TTTCCTCTCCTACTCATGGTAACAGAAATTCTGGTGCAAATGCATTAGAGgtcagtgtat ... tttctgtcagGTTGCGCTAAAATTCGAACATCGAACCAGCAAAGGTTGCAGCTATGGAGCT
EST: gi|29630440|gb|CB635449.1|CB635449
EST:     TTTCCTCTCCTACTCATGGTAACAGAAATTCTGGTGCAAATGCATTAGAG                         GTTGCGCTAAAATTCGAACATCGAACCAGCAAAGGTTGCAGCTATGGAGCT
genomic: TTTCCTCTCCTACTCATGGTAACAGAAATTCTGGTGCAAATGCATTAGAGgtcagtgtat ... tttctgtcagGTTGCGCTAAAATTCGAACATCGAACCAGCAAAGGTTGCAGCTATGGAGCT
EST: gi|29632065|gb|CB637074.1|CB637074
EST:     TTTCCTCTCCTACTCATGGTAACAGAAATTCTGGTGCAAATGCATTAGAG                         GTTGCGCTAAAATTCGAACATCGAAC
genomic: TTTCCTCTCCTACTCATGGTAACAGAAATTCTGGTGCAAATGCATTAGAGgtcagtgtat ... tttctgtcagGTTGCGCTAAAATTCGAACATCGAAC