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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGAATGGAAAGTCTAGAACACTGCAAGCGATTGAATTGGAAAGTGGTGTTGGACGGCAGTTATGTCTTTGGAAATGGGCTTCATATTGTGCTTCAGAGgttaaacatgctcttgtttttgaactatgctctgttgtgctctcaattaatggtctgaatttttttattttcttcaaattcattacacttttgtgtagccagcacataatgctttgcaaacctaaatctgaaattgataatatttatgtag

Basic information

species Oryza sativa
transcript LOC_Os11g42420.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g42420.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G348675_T02 (Zea mays), 5'ss of exon 33
GAAGAATGGAAAGTCTAGAACACTGCAAGCGATTGAATTGGAAAGTGGTGTTGGACGGCAGTTATGTCTTTGGAAATGGGCTTCATATTGTGCTTCAGAGgttaaacatgctcttgtttttgaactatgctctgttgtgctctcaattaatggt-ctgaatttttttattttcttcaaattcattacacttttgtgtagccagcacataatgctttgcaaacctaaatctgaaattgataatatttatgtag
 || ||||||||||  |||||||| ||||| || ||||| |||||||||||||| |||||||   |||||||||||||||| |||||||||||||||||||| ||   | |||   | | |  | |||||    || || | |   |||   || ||| | || ||      |  ||  |   || || | ||   ||      |  |  |||||  | | | |  |     |||||||| ||||| |  ||
CAAAAATGGAAAGTACAGAACACTACAAGCCATGGAATTAGAAAGTGGTGTTGGGCGGCAGTGGCGTCTTTGGAAATGGGCATCATATTGTGCTTCAGAGgtgaactctactcac-tctctagagtatgcctctttctg-tgttttttagcagtgctgtacttattgga---caacaggtctgtttcattctt---taa-----atttgctgcttctcta-catgcactctgaattgatattattttttcag

upper sequence: LOC_Os11g42420.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GLYMA07G04680.1 (Glycine max), 5'ss of exon 6
GAAGAATGGAAAGTCTAGAACACTGCAAGCGATTGAATTGGAAAGTGGTGTTGGACGGCAGTTATGTCTTTGGAAATGGGCTTCATATTGTGCTTCAGAGgttaaac---atgctcttgttt-ttgaactatgctctgttgtgctctcaattaatg---gtctgaatttttttattttcttcaaattcattacacttttgtgtagccagcacataatgctttgcaaacctaaatctgaaattgataatatttatgtag
||||||||| ||   ||||||  |||||||  ||||||| ||||||||  |||| |  ||||    |||||||||||||||||||| |||||| ||||||||        ||  |  |  |  |||||| ||  ||| | ||| | |  ||| |||    | | ||| | | ||||  |  |    ||   |   |||                                                            
GAAGAATGGTAAAAATAGAACTTTGCAAGCTGTTGAATTTGAAAGTGGCATTGGTCATCAGTGGCATCTTTGGAAATGGGCTTCATTTTGTGCATCAGAGgtagggttgtatattaatactaattgaacgattttct-tcgtgttttttattgatgcatatgttaatctgtgtattgacaccttcctctccagcttttcac---------------------------------------------------------

upper sequence: LOC_Os11g42420.1 (Oryza sativa), 5'ss of exon 9
lower sequence: AT3G14120.3 (Arabidopsis thaliana), 5'ss of exon 10
GAAGAATGGAAAGTCTAGAACACTGCAAGCGATTGAATTGGAAAGTGGTGTTGGACGGCAGTTATGTCTTTGGAAATGGGCTTCATATTGTGCTTCAGAGgttaaacatgctcttgtttttgaactatgctctgttgtgctctcaattaatggtctgaatttttttattttcttcaaattcattacacttttgtgtagccagcacataatgctttgcaaacctaaatctgaaattgataatatttatgtag
 ||||||||  |   ||| || || || || || ||   |||||||||  ||||    ||  |  ||||||||||||||||||| || ||||| |||||||| | |||   ||| | |          | | |||||   | | ||||         | |||||||   |     | |   | |  |||| | | |   ||        || ||   ||                                
AAAGAATGGGGAAAATAGGACTCTCCAGGCCATCGAGCAGGAAAGTGGCTTTGGCAATCAACTGCGTCTTTGGAAATGGGCTTCCTACTGTGCATCAGAGgtaatacagaatctggata---------gttttgttgctttttgaatttg------aagtttttttccgtctcagagacgtaatttacttatcttttttcatt------tgtttctgaag-------------------------------

upper sequence: LOC_Os11g42420.1 (Oryza sativa), 5'ss of exon 9
lower sequence: Vv09s0002g00840.t01 (Vitis vinifera), 5'ss of exon 5
GAAGAATGGAAAGTCTAGAACACTGCAAGCGATTGAATTGGAAAGTGGTGTTGGACGGCAGTTATGTCTTTGGAAATGGGCTTCATATTGTGCTTCAGAGgttaaacatgctcttgtttttgaactatgctctgttgtgctctcaattaatggtctgaatttttttattttcttcaaattcattacacttttgtgtagccagcacataatgctttgcaaacctaaatctgaaattgataatatttatgtag
|||||||||||||  |||||| |||||||| |||||| | ||||||||  ||||    ||||   | ||||||||||||||||| |||||||| ||||||||     |   ||      |||||     ||||    |  |  || |||||              | | |   | |||| ||||   ||| | |  || |     || |     || ||||                              
GAAGAATGGAAAGAATAGAACTCTGCAAGCCATTGAACTTGAAAGTGGCATTGGTAACCAGTGGCGCCTTTGGAAATGGGCTTCCTATTGTGCATCAGAGgt-----agattcaaaggattgaatacatctctaccatatttaca-ttaat-------------ctgtctagctgaaatgcatt---cttgtatcgagactatgaatgaaagcctgaaaaca-----------------------------