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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGGGCACAATGAAGCGGAGTTTGGAATGTCATGGTGCGCAGGGTTTGGCCCCTCTTTCTATGACGCTTACTTCAAGgtacaaagttgaatgcatctacctaaatctgtaggaggtagaagagtttgttacgccgtgctgtagttcacttctgttgagacaccacatgatcaaagct...

Basic information

species Physcomitrella patens
transcript PP1S83_158V6.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S83_158V6.1 (Physcomitrella patens), 5'ss of exon 9
lower sequence: LOC_Os03g02640.1 (Oryza sativa), 5'ss of exon 8
ATGGGCACAATGAAGCGGAGTTTGGAATGTCATGGTGCGCAGGGTTTGGCCCCTCTTTCTATGACGCTTACTTCAAGgtacaaagttgaatgcatctacctaaatctgtaggaggtagaagagtttgttacgccgtgctgtagttcacttctgttgagacaccacatgatcaaagct-
|||| ||||| |||||||||||||| |||||||||||||| || |||||       ||||||  | | || ||  |||||   | ||   ||       | |  | | |      |  |  ||    | |      |  ||   |  | |    ||| |  |   |         || 
ATGGCCACAACGAAGCGGAGTTTGGTATGTCATGGTGCGCTGGATTTGGGGGGGAATTCTATAGCTCCTATTTTGAGgtattcactttcttgttctgttccatgtatttgttttatgcaccagcacttcagattaaga-gtgaatttcataatctgaaatgctgaaacccatccactt

upper sequence: PP1S83_158V6.1 (Physcomitrella patens), 5'ss of exon 9
lower sequence: AT3G61080.1 (Arabidopsis thaliana), 5'ss of exon 8
ATGGGCACAATGAAGCGGAGTTTGGAATGTCATGGTGCGCAGGGTTTGGCCCCTCTTTCTATGACGCTTACTTCAAGgtacaaagttgaatgcatctacctaaatctgtaggaggtagaa--gagtttgttacgccgtgctgtagttcacttctgttgagacaccacatgatcaaagct
||||||| || || ||||| ||||||||||| ||||||||||| |||||    ||||||||  | || || |||||||| |    |        |||  |    ||||||  |  || ||   |||||   | |  ||  |||        ||  |  ||                   
ATGGGCATAACGAGGCGGATTTTGGAATGTCGTGGTGCGCAGGATTTGGAGAATCTTTCTACAATGCCTATTTCAAGgttc----tcttccttttctcacagtttctgtatcaactaaaatcaagtttaa-aggttgttttgtttcattgctccctcaag-------------------
















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|208396828|gb|DC920424.1|DC920424
EST:     TGTCATGGTGCGCAGGGTTTGGCCCCTCTTTNTATGACGCTTACTTCAAG                         GTCATGCCAAAACAACCAGGGTTTGAGCAACGGACAGAGCTGTACAAATTA
genomic: TGTCATGGTGCGCAGGGTTTGGCCCCTCTTTCTATGACGCTTACTTCAAGgtacaaagtt ... taaaatacagGTCATGCCAAAACAACCAGGGTTTGAGCAACGGACAGAGCTGTACAAATTA
EST: gi|18333323|gb|BJ165337.1|BJ165337
EST:     TGTCATGGTGCGCAGGGTTTGGCCCCTCTTTCTATGACGCTTACTTCAAG                         GTCATGCCAAAACAACCAGGGTTTGAGCAACGGACAGAGCTGTACAAATTA
genomic: TGTCATGGTGCGCAGGGTTTGGCCCCTCTTTCTATGACGCTTACTTCAAGgtacaaagtt ... taaaatacagGTCATGCCAAAACAACCAGGGTTTGAGCAACGGACAGAGCTGTACAAATTA
EST: gi|162187661|gb|FC364105.1|FC364105
EST:     TGTCATGGTGCGCAGGGTTTGGCCCCTCTTTCTATGACGCTTACTTCAAG                         GTCATGCCAAAACAACCAGGGTTTGAGCAACGGACAGAGCTGTACAAATTA
genomic: TGTCATGGTGCGCAGGGTTTGGCCCCTCTTTCTATGACGCTTACTTCAAGgtacaaagtt ... taaaatacagGTCATGCCAAAACAACCAGGGTTTGAGCAACGGACAGAGCTGTACAAATTA
EST: gi|37838919|gb|BJ596927.1|BJ596927
EST:     TGTCATGGTGCGCAGGGTTTGGCCCCTCTTTCTATGACGCTTACTTCAAG                         GTCATGCCAAAACAACCAGGGTTTGAGCAACGGACAGAGCTGTACAAATTA
genomic: TGTCATGGTGCGCAGGGTTTGGCCCCTCTTTCTATGACGCTTACTTCAAGgtacaaagtt ... taaaatacagGTCATGCCAAAACAACCAGGGTTTGAGCAACGGACAGAGCTGTACAAATTA