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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgctttgtttcttaaatttttttcttctatcaactgtcatctcgaaaaccaaacagtaggaaaattaatatggctaacactttaagggtttatttaacagGTATCATCAAGTTGACAGTGATGATTTGACAATAGCAATTAACTTTTGGTGGAAGTCAAGAATAATGAATGAAATGTTAGAACATATGGATGCCTACTAT

Basic information

species Oryza sativa
transcript LOC_Os01g56640.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g56640.3 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G079468_T01 (Zea mays), 3'ss of exon 8
tgctttgtttcttaaattttttt-cttctatcaactgtcatctcgaa--aaccaaacagtaggaaaattaatatggctaacactttaagggtttatttaacagGTATCATCAAGTTGACAGTGATGATTTGACAATAGCAATTAACTTTTGGTGGAAGTCAAGAATAATGAATGAAATGTTAGAACATATGGATGCCTACTAT
||  |       |  |||| |||  || | | |  |||| | |  |    |  || ||||||   | ||| |   ||||||||||  || |||  | |||||||||||| |||||||||||||| || || ||||||||| |||||||||||||||||||||||||||||| | |||||||||||||||||||||||||||||
tgaataacagtgtctatttgtttatttttgttatatgtcctttatatctgataaatcagtagtgca-ttagtccagctaacactt--agtgttcttgtaacagGTATCACCAAGTTGACAGTGACGACTTAACAATAGCAGTTAACTTTTGGTGGAAGTCAAGAATAATGACTCAAATGTTAGAACATATGGATGCCTACTAT

upper sequence: LOC_Os01g56640.3 (Oryza sativa), 3'ss of exon 8
lower sequence: GLYMA10G03550.1 (Glycine max), 3'ss of exon 8
-tgctttgtttcttaaatttttttcttctatcaactgtcatctcgaaaaccaaacagtaggaaaattaatatggctaacactttaagggtttatt-taacagGTATCATCAAGTTGACAGTGATGATTTGACAATAGCAATTAACTTTTGGTGGAAGTCAAGAATAATGAATGAAATGTTAGAACATATGGATGCCTACTAT
 | ||         |||  ||   | | ||  || || |   |  |||  |     ||  || | ||| ||         | |||| | ||| ||     ||||  ||||| || || ||||||||||| || || |||||||||||||||||||  || |  || |||  |   ||||| ||||| |||||||| || |||
ttcctgaaggatgaaaagcttgaacgtatactaaatg-cggttaaaaattctgtttgtctgatactta-tacattagtttcattaatgtttttttgctgtagGTTCCATCAGGTAGATAGTGATGATTTTACCATTGCAATTAACTTTTGGTGGAGATCCAACATGATGTCTTGCATGTTGGAACACATGGATGCTTATTAT


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaccaaacagtaggaaaattaatatggctaacactttaagggtttatttaacagGTATCATCAAGTTGACAGTGATGATTTGACAATAGCAATTAACTTTTGGTGGAAGTCAAGAATAATGAATGAAATGTTAGAACATATGGATGCCTACTAT
                          ggctaac  putative branch site (score: 2)
                                           tttattt  putative PPT
           taggaaaattaatat  TA-rich tract