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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTTGTAGGGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGAGATATAAAGCCACAGAATATATTGgtatgtactgtggttaactggttatcatttgtctgagtagtgcatactagcaacattattttccgtatatgataatttcagcttaatgaggtctgacaagatattcctgtcatag

Basic information

species Oryza sativa
transcript LOC_Os01g19150.5
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g19150.4 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G075992_T01 (Zea mays), 5'ss of exon 2
ATTTGTAGGGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGAGATATAAAGCCACAGAATATATTGgtatgtactgtggttaactggttatcatttgtctgagtagtgcatactagcaacattattttccgtatatgataatttcagcttaatgag-gtctgacaagatattcctgtcatag
|||||||| |||||||| ||| |||| ||||| || ||||| ||||||||||||||||||||||| |||||  ||||||    ||||||||          |||| |   | | ||  |   ||| ||| ||   ||   |   || |||||  |  |||  ||    ||     || |            
ATTTGTAGAGCTTTGGCTTACCTTCACAACTGCGTAGGAGTGTGCCACAGAGATATAAAGCCACAAAATATTCTGgtatccg-tgtggttag---------atttcttaaaat-gttta---tagaaacgtttggtttgattattggtaatt--attttatcgaataactattgtgacag-----------

upper sequence: LOC_Os01g19150.4 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv07s0005g02100.t01 (Vitis vinifera), 5'ss of exon 6
ATTTGTAGGGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGAGATATAAAGCCACAGAATATATTGgtatgtactgtggttaactggttatcatttgtctgagtag--tgcatactagcaacattattttccgtatatgataatttcagcttaatgaggtctgacaa-gatattcctgtcatag--------------------
|||||||| ||  |||| |||||||||    || | |||||||||||||| |||||||| || || ||| |||||||||||      || ||    |||     |||   | ||   ||   | |     | | ||| |     |||  | |  |     |  | |  |||  |    ||  |    | |||                     
ATTTGTAGAGCGCTGGCTTACATTCATGGTGGTATTGGAGTATGCCACAGGGATATAAAACCTCAAAATTTATTGgtatgttaacgagtgaatgtattacttcatgttccactaaactgttcattttactcgtcattctttaattatttttacatttatcttgtcatttctttctctaattataagattataacacttcactttttggaacag
















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|29628248|gb|CB633259.1|CB633259
EST:     ATAACTGTGTGGGAGTATGCCACAGAGATATAAAGCCACAGAATATATTG                         GTGAATCCACATAATCATCAGTTGAAATTGTGTGACTTTGGCAGTGCAAAA
genomic: ATAACTGTGTGGGAGTATGCCACAGAGATATAAAGCCACAGAATATATTGgtatgtactg ... cctgtcatagGTGAATCCACATAATCATCAGTTGAAATTGTGTGACTTTGGCAGTGCAAAA
EST: gi|33683226|gb|CF311465.1|CF311465
EST:     ATAACTGTGTGGGAGTATGCCACAGAGATATAAAGCCACAGAATATATTG                         GTGAATCCACATAATCATCAGTTGAAATTGTGTGACTTTGGCAGTGCAAAA
genomic: ATAACTGTGTGGGAGTATGCCACAGAGATATAAAGCCACAGAATATATTGgtatgtactg ... cctgtcatagGTGAATCCACATAATCATCAGTTGAAATTGTGTGACTTTGGCAGTGCAAAA
EST: gi|29668828|gb|CB665103.1|CB665103
EST:     ATAACTGTGTGGGAGTATGCCACAGAGATATAAAGCCACAGAATATATTG                         GTGAATCCACATAATCATCAGTTGAAATTGTGTGACTTTGGCAGTGCAAAA
genomic: ATAACTGTGTGGGAGTATGCCACAGAGATATAAAGCCACAGAATATATTGgtatgtactg ... cctgtcatagGTGAATCCACATAATCATCAGTTGAAATTGTGTGACTTTGGCAGTGCAAAA
EST: gi|29628183|gb|CB633194.1|CB633194
EST:     ATAACTGTGTGGGAGTATGCCACAGAGATATAAAGCCACAGAATATATTG                         GTGAATCCACATAATCATCAGTTGAAATTGTGTGACTTTGGCAGTGCAAAA
genomic: ATAACTGTGTGGGAGTATGCCACAGAGATATAAAGCCACAGAATATATTGgtatgtactg ... cctgtcatagGTGAATCCACATAATCATCAGTTGAAATTGTGTGACTTTGGCAGTGCAAAA
EST: gi|29637277|gb|CB642286.1|CB642286
EST:     ATAACTGTGTGGGAGTATGCCACAGAGATATAAAGCCACAGAATATATTG                         GTGAATCCACATAATCATCAGTTGAAATTGTGTGACTTTGGCAGTGCAAAA
genomic: ATAACTGTGTGGGAGTATGCCACAGAGATATAAAGCCACAGAATATATTGgtatgtactg ... cctgtcatagGTGAATCCACATAATCATCAGTTGAAATTGTGTGACTTTGGCAGTGCAAAA
EST: gi|29666642|gb|CB662917.1|CB662917
EST:     ATAACTGTGTGGGAGTATGCCACAGAGATATAAAGCCACAGAATATATTG                         GTGAATCCACATAATCATCAGTTGAAATTGTGTGACTTTGGCAGTGCAAAA
genomic: ATAACTGTGTGGGAGTATGCCACAGAGATATAAAGCCACAGAATATATTGgtatgtactg ... cctgtcatagGTGAATCCACATAATCATCAGTTGAAATTGTGTGACTTTGGCAGTGCAAAA
EST: gi|218502361|gb|FG956952.1|FG956952
EST:     ATAACTGTGTGGGAGTATGCCACAGAGATATAAAGCCACAGAATATATTG                         GTGAATCCACATAATCATCAGTTGAAATTGTGTGACTTTGGCAGTGCAAAA
genomic: ATAACTGTGTGGGAGTATGCCACAGAGATATAAAGCCACAGAATATATTGgtatgtactg ... cctgtcatagGTGAATCCACATAATCATCAGTTGAAATTGTGTGACTTTGGCAGTGCAAAA
EST: gi|29668963|gb|CB665238.1|CB665238
EST:     ATAACTGTGTGGGAGTATGCCACAGAGATATAAAGCCACAGAATATATTG                         GTGAATCCACATAATCATCAGTTGAAATTGTGTGACTTTGGCAGTGCAAAA
genomic: ATAACTGTGTGGGAGTATGCCACAGAGATATAAAGCCACAGAATATATTGgtatgtactg ... cctgtcatagGTGAATCCACATAATCATCAGTTGAAATTGTGTGACTTTGGCAGTGCAAAA