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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATGCTTGGTAACATCCAAGCGATGCTTCTTGTTGGCTGGCGACTATGCAAGCTTTATGAGTCAGGGAAAATGACACCAGGGCATGCTAGTTTAGGGAAGgtttgtgaaatactagctggcaaaggctgcctttcttcctctgtaactagaactttgtgttcctttgatatatcagtgattttaacttttgattcctcgctcccatttag

Basic information

species Oryza sativa
transcript LOC_Os01g06600.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g06600.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM5G862219_T03 (Zea mays), 5'ss of exon 10
AATGCTTGGTAACATCCAAGCGATGCTTCTTGTTGGCTGGCGACTATGCAAGCTTTATGAGTCAGGGAAAATGACACCAGGGCATGCTAGTTTAGGGAAGgtttgtgaaatactagctggcaaaggctgcctt--tcttcctctgtaactagaactttgt-gttcctttgata---tatcagtgattttaacttt----tgattcctcgctcccatttag-----------
 ||||| |||||| ||||  ||||| | || || |||||||| || |||||||| || ||||| ||||||||||| || || || |||||  |||||||||| |||    |  |     |    ||||| |     | ||    |     | ||||  || | ||  | ||     |||   || |  |  || |    |||   | || | | | |              
GATGCTCGGTAACGTCCAGTCGATGGTCCTCGTCGGCTGGCGTCTCTGCAAGCTCTACGAGTCGGGGAAAATGACGCCGGGCCACGCTAGCCTAGGGAAGgtctgtagtgtgttttgcagactcggctggcacggccgtctctcgctttgataactcagtcgctcgctcgacgctttattcctggtcctggctgtgatgtgacgacgcgtttctaatgtttttttgtttag

upper sequence: LOC_Os01g06600.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GLYMA18G43240.1 (Glycine max), 5'ss of exon 11
AATGCTTGGTAACATCCAAGCGATGCTTCTTGTTGGCTGGCGACTATGCAAGCTTTATGAGTCAGGGAAAATGACACCAGGGCATGCTAGTTTAGGGAAGgt--ttgtgaaatactagctggcaaag--gctgcctttcttcctctgtaactagaactttgtgttcctttgatatatcagtgattttaacttttgattcctcgctcccatttag------------------
|||||| |||||||| ||||| ||| |||||||||| ||||| || |||||| | ||||||   || |||||||||||||| |||||||| || ||||||||  ||   ||  ||    |  ||||      |    | |  |   ||||  | | |||| ||||   |   | | |   || |  ||| ||  | |   |  ||     | |                   
AATGCTAGGTAACATTCAAGCAATGATTCTTGTTGGTTGGCGCCTGTGCAAGTTGTATGAGAGTGGTAAAATGACACCAGGTCATGCTAGCTTGGGGAAGgtaattcctaaccacctattcacaaaataaaagaaaatatcaccaagtaataaaagctttatgttggct-attttgttgttgttaataaattgaggtagataactggtgataaaatgtcaatcatgtttcag
















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|29658082|gb|CB654357.1|CB654357
EST:     AGCTTTATGAGTCAGGGAAAATGACACCAGGGCATGCTAGTTTAGGGAAG                         GGTTGGACTTCCAGAATGGCTCGTGAGGTGGTTTCTCTCGGTCGAGAATTG
genomic: AGCTTTATGAGTCAGGGAAAATGACACCAGGGCATGCTAGTTTAGGGAAGgtttgtgaaa ... tcccatttagGGTTGGACTTCCAGAATGGCTCGTGAGGTGGTTTCTCTCGGTCGAGAATTG
EST: gi|86504925|gb|CI147558.1|CI147558
EST:     AGCTTTATGAGTCAGGGAAAATGACACCAGGCCATGCTAGTTTAGGGAAG                         GGTTGGACTTCCAGAATGGCTCGTGAGNTGGTTTCTCTCGGTCGAGAATTG
genomic: AGCTTTATGAGTCAGGGAAAATGACACCAGGGCATGCTAGTTTAGGGAAGgtttgtgaaa ... tcccatttagGGTTGGACTTCCAGAATGGCTCGTGAGGTGGTTTCTCTCGGTCGAGAATTG
EST: gi|33683999|gb|CF312238.1|CF312238
EST:     GCTTTATGAGTCAGGGAAAATGACACCAGGGGCATGCTAGTTTAGGGAAG                         GGTTGGACTTCCCAGAATGGCTCGTGAGGTGGTTTCTCTCGGTCGAGAATT
genomic: GCTTTATGAGTCAGGGAAAATGACACCA-GGGCATGCTAGTTTAGGGAAGgtttgtgaaa ... tcccatttagGGTTGGACTT-CCAGAATGGCTCGTGAGGTGGTTTCTCTCGGTCGAGAATT
EST: gi|44666104|gb|CR279538.1|CR279538
EST:     AGCTTTATGAGTCAGGGAAAATGACACCAGGGCATGCTAGTTTAGGGAAG                         GGTTGGACTTCCAGAATGGCTCGTGAGATGGTTTCTCTCGGTCGAGAATTG
genomic: AGCTTTATGAGTCAGGGAAAATGACACCAGGGCATGCTAGTTTAGGGAAGgtttgtgaaa ... tcccatttagGGTTGGACTTCCAGAATGGCTCGTGAGGTGGTTTCTCTCGGTCGAGAATTG
EST: gi|4715706|gb|AU056822.1|AU056822
EST:     GCTTTATGAGTCAGGGAAAATGACCACCAGGGCATGCTAGTTTAGGGAAG                         GGTTGGACTTCCAGAATGGCTCGTGAGGTGGTTTCTCTCGGTCGAGAATTG
genomic: GCTTTATGAGTCAGGGAAAATGA-CACCAGGGCATGCTAGTTTAGGGAAGgtttgtgaaa ... tcccatttagGGTTGGACTTCCAGAATGGCTCGTGAGGTGGTTTCTCTCGGTCGAGAATTG
EST: gi|7839222|gb|AU090633.1|AU090633
EST:     CTTTTATGAGTCAGGGAAAATGACACCAGGGCATGCTTAGTTTAGGGAAG                         GGTTGGACTTCCAGAATGGCTCGTGAGGTGGTTTCTCTCGGTCGAGAATTG
genomic: C-TTTATGAGTCAGGGAAAATGACACCAGGGCATGC-TAGTTTAGGGAAGgtttgtgaaa ... tcccatttagGGTTGGACTTCCAGAATGGCTCGTGAGGTGGTTTCTCTCGGTCGAGAATTG
EST: gi|29668419|gb|CB664694.1|CB664694
EST:     AGCTTTATGAGTCAGGGAAAATGACACCAGGGCATGCTAGTTTAGGGAAG                         GGTTGGACTTCCAGAATGGCTCGTGAGGTGGTTTCTCTCGGTCGAGAATTG
genomic: AGCTTTATGAGTCAGGGAAAATGACACCAGGGCATGCTAGTTTAGGGAAGgtttgtgaaa ... tcccatttagGGTTGGACTTCCAGAATGGCTCGTGAGGTGGTTTCTCTCGGTCGAGAATTG
EST: gi|29660317|gb|CB656592.1|CB656592
EST:     AGCTTTATGAGTCAGGGAAAATGACACCAGGGCATGCTAGTTTAGGGAAG                         GGTTGGACTTCCAGAATGGCTCGTGAGGTGGTTTCTCTCGGTCGAGAATTG
genomic: AGCTTTATGAGTCAGGGAAAATGACACCAGGGCATGCTAGTTTAGGGAAGgtttgtgaaa ... tcccatttagGGTTGGACTTCCAGAATGGCTCGTGAGGTGGTTTCTCTCGGTCGAGAATTG
EST: gi|29660291|gb|CB656566.1|CB656566
EST:     AGCTTTATGAGTCAGGGAAAATGACACCAGGGCATGCTAGTTTAGGGAAG                         GGTTGGACTTCCAGAATGGCTCGTGAGGTGGTTTCTCTCGGTCGAGAATTG
genomic: AGCTTTATGAGTCAGGGAAAATGACACCAGGGCATGCTAGTTTAGGGAAGgtttgtgaaa ... tcccatttagGGTTGGACTTCCAGAATGGCTCGTGAGGTGGTTTCTCTCGGTCGAGAATTG