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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctgtaagcatgtatactttgcagttgacctaatgacctgtgcgctcggctcaactaacttggcgatacgatggttcgttgggtggttgtgatggatacagGGGATACTACAAGTGCAGCAGCATGAAGGGGTGCATGGCCAGGAAGATGGTGGAGCGCAGCCCGGCCAAGCCCGGGATGCTCGTCGTCACCTACATGGCC

Basic information

species Oryza sativa
transcript LOC_Os01g43550.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g43550.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G105140_T01 (Zea mays), 3'ss of exon 2
-ctgtaagcatgtatactttgcagttgacctaatgacctgtgcgctcggctcaactaacttggcgatacgatggtt-cgttgggtggttgtg-atggatacagGGGATACTACAAGTGCAGCAGCATGAAGGGGTGCATGGCCAGGAAGATGGTGGAGCGCAGCCCGGCCAAGCCCGGGATGCTCGTCGTCACCTACATGGCC
   |      ||  | ||| ||||||||||   || | ||   || || | |    | |      |  |||  ||| || ||||   |  |   |||   |||||| |||||||||||||||||||||||||||||||||||  ||||| |||||||||||||||| || ||||||||| ||||| |||||||||||||||| 
atagccgtactgcgtgctt-gcagttgaccctgtggc-tgctggcccg-cacgctcagcgaactaacgcgactgttgcgatgggaattgatctgtggccgcagGGGGTACTACAAGTGCAGCAGCATGAAGGGGTGCATGGCGCGGAAGCTGGTGGAGCGCAGCCCAGCGAAGCCCGGGGTGCTCATCGTCACCTACATGGCG

upper sequence: LOC_Os01g43550.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G149683_T01 (Zea mays), 3'ss of exon 2
---------------------------------------------------------------------------------------------ctgtaagcatgtatactttgcagttgacctaatgacctgtgcgct--cggctcaactaacttggcgat---acgatggttcgttggg--tggttgtgatggatacagGGGATACTACAAGTGCAGCAGCATGAAGGGGTGCATGGCCAGGAAGATGGTGGAGCGCAGCCCGGCCAAGCCCGGGATGCTCGTCGTCACCTACATGGCC
                                                                                             | | |    ||  | ||| ||||| ||| |  || ||  || |     | | |      ||   |||    |  ||| | ||||| |  | |      ||    |||||| ||||||||||||||||||||||||||||||| |||  ||||| |||||||||||||||| |||||||||||| ||||| ||||||| |||||||||
gtaactacgttgttttttactttgacctcgccttccatactgcgtgcttgctagtgttaggagctttgataattcagccacaagacaattcgacagcagtagtgcgtgctt-gcagtcgacattgtggccgctgaggcgctgacccgcagggctcaccgaactaataatgctccgttgcgattcgaatctgtgaccgcagGGGGTACTACAAGTGCAGCAGCATGAAGGGGTGCACGGCGCGGAAGCTGGTGGAGCGCAGCCCAGCCAAGCCCGGGGTGCTCATCGTCACGTACATGGCC


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cggctcaactaacttggcgatacgatggttcgttgggtggttgtgatggatacagGGGATACTACAAGTGCAGCAGCATGAAGGGGTGCATGGCCAGGAAGATGGTGGAGCGCAGCCCGGCCAAGCCCGGGATGCTCGTCGTCACCTACATGGCC
      aactaac  putative branch site (score: 1)