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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGGACTTCTCCGACCTCGAAGAGCTCCAGGTCGTCCGCGTCCAGGGCACCGACAGGGCCGGGAGGCGCATCGTCCGCGTCGTCGGCAGGTTCTTCCCTGgtgcgccaaacgccctcttctccccacctctcctttcctttgtggctttatcagattggatcgtggttcccttctggatgtatctatcatctatgtgggt...

Basic information

species Oryza sativa
transcript LOC_Os01g71980.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g71980.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G129108_T01 (Zea mays), 5'ss of exon 1
GAGGACTTCTCCGACCTCGAAGAGCTCCAGGTCGTCCGCGTCCAGGGCACCGACAGGGCCGGGAGGCGCATCGTCCGCGTCGTCGGCAGGTTCTTCCCTGgtgcgccaaacgccctcttctccccacctctcctttcctttgtggctttatcagattggatcgtggttcccttctggatgtatctatcatctatgtgggt------
|    ||||||||||||||| |||| ||||||||| |||||||||||||||||  ||||| |  |   ||||||||| |||||||||| ||||||||| ||||||| || || || | | |   | || ||     |    || |||   ||||       ||||| |  ||     |   |   || |      || |       
GCCTGCTTCTCCGACCTCGAGGAGCGCCAGGTCGTGCGCGTCCAGGGCACCGATCGGGCCCGCCGAACCATCGTCCGTGTCGTCGGCAAGTTCTTCCCGGgtgcgcgaatcggccacgtatttgctccccttacagctgcagttgctcggtcagg------cgtggattgctatgaaaaaaaaaaatgaatagaatgagatttaat

upper sequence: LOC_Os01g71980.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G369652_T02 (Zea mays), 5'ss of exon 1
GAGGACTTCTCCGACCTCGAAGAGCTCCAGGTCGTCCGCGTCCAGGGCACCGACAGGGCCGGGAGGCGCATCGTCCGCGTCGTCGGCAGGTTCTTCCCTGgtgcgccaaacgccctcttc-tccccacctctcctttcctttgtggctttatcagattggatcgtggttcccttctggatgtatctatcatctatgtgggt-
     ||||||||||||||| |||| ||||||||| ||| |||||||||| || ||||| ||  |   |||||||||||||||||||| ||| ||||| ||||||| || || || | |  |   |     |||   ||       |     |         |        |      |   |   |  |    ||      
--CTGCTTCTCCGACCTCGAGGAGCGCCAGGTCGTGCGCATCCAGGGCACGGATAGGGCAGGCCGAACCATCGTCCGCGTCGTCGGCAAGTTTTTCCCGGGTgcgcgaatcgaccacgtagttttcgttaatccccccccccccccccccccccccccccccccccaaatacacacacacaaacaaactacaattgcaatcc

upper sequence: LOC_Os01g71980.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G369652_T01 (Zea mays), 5'ss of exon 1
GAGGACTTCTCCGACCTCGAAGAGCTCCAGGTCGTCCGCGTCCAGGGCACCGACAGGGCCGGGAGGCGCATCGTCCGCGTCGTCGGCAGGTTCTTCCCTGgtgcgccaaacgccctc----ttctccccacctctcctttcctttgtggctttatcagattggatcgtggttcccttctggatgtatctatcatctatgtgggt
|    ||||||||||||||| |||| ||||||||| ||| |||||||||| || ||||| ||  |   |||||||||||||||||||| ||| ||||| ||||||| || || || |    || ||   |   | ||   ||       |     |         |       |   |   |   | |||  ||     |    
GCCTGCTTCTCCGACCTCGAGGAGCGCCAGGTCGTGCGCATCCAGGGCACGGATAGGGCAGGCCGAACCATCGTCCGCGTCGTCGGCAAGTTTTTCCCGGgtgcgcgaatcgaccacgtagttttcgttaatccccccccccccccccccccccccccccccccccaaatacacacacacaaacaaactacaattgcaat----

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|58672220|gb|CK060906.1|CK060906
EST:     CGACAGGGCCGGGAGGCGCATCGTCCGCGTCGTCGGCAGGTTCTTCCCTG                         CTCCTGTCATAGGTGGTGATCGTCTGAAGAAGTATGTTCTTCACAAGCTGC
genomic: CGACAGGGCCGGGAGGCGCATCGTCCGCGTCGTCGGCAGGTTCTTCCCTGgtgcgccaaa ... cgaattccagCTCCTGTCATAGGTGGTGATCGTCTGAAGAAGTATGTTCTTCACAAGCTGC
EST: gi|568004|gb|D38839.1|D38839
EST:     CGACAGGGCCGGGAGN-GCATCGTCCGCGTCGTCGGCAGGTTCTTCCCTG                         CTCCTGTCATAGGTGGTGATCGTCTGAAGAAGTATGTTCTTCACAAGCTGC
genomic: CGACAGGGCCGGGAGGCGCATCGTCCGCGTCGTCGGCAGGTTCTTCCCTGgtgcgccaaa ... cgaattccagCTCCTGTCATAGGTGGTGATCGTCTGAAGAAGTATGTTCTTCACAAGCTGC
EST: gi|8857437|gb|AU094755.1|AU094755
EST:     CGACAGGGCCGGGAGGCGCATCGTCCGCGTCGTCGGCAGGTTCTTCCCTG                         CTCCTGTCATAGGTGGTGATCGTCTGAAGAAGTATGTTCTTTCACAAGCTG
genomic: CGACAGGGCCGGGAGGCGCATCGTCCGCGTCGTCGGCAGGTTCTTCCCTGgtgcgccaaa ... cgaattccagCTCCTGTCATAGGTGGTGATCGTCTGAAGAAGTATGTTCTT-CACAAGCTG