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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgatagcagcaatgtttttttgtcttcctctcgtttgattgtgatggtgtctactgaaccaaaacaaaatacattaggtaacattatcctatgctgcagGAAGCAAAGGCGTACGCTCAAGAGAATGGTCTCTTCTTCATGGAAACTTCTGCCAAAACAGCTACCAATGTGAACGACGTGTTCTATGAGATTG

Basic information

species Zea mays
transcript GRMZM2G151015_T02
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G151015_T03 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os12g43550.2 (Oryza sativa), 3'ss of exon 5
atgatagcagcaatgtttttttgtcttcctctcgtttgattgtgatggtgtctactga--accaaaacaaaatacattaggtaacattatcc-tatgctgcagGAAGCAAAGGCGTACGCTCAAGAGAATGGTCTCTTCTTCATGGAAACTTCTGCCAAAACAGCTACCAATGTGAACGACGTGTTCTATGAGATTG
  |  |  | |  |||| ||         |    ||  ||| |||  |  ||| | |    |       |     || |       | ||   |||| ||||||| |||||| | ||||| ||||||||||| || |||||||||||||| ||||| ||||| || | |||||||||||| || ||| | ||||| |
--ggcactatcc-tgttcttgaaatgaatttcttttccattatgacagcctctgcggcttgctttgttgatgcttatcaaaagctctaatttgtatggtgcagGAGGCAAAGACCTACGCACAAGAGAATGGCCTTTTCTTCATGGAAACATCTGCGAAAACGGCGATCAATGTGAACGATGTATTCCACGAGATCG

upper sequence: GRMZM2G151015_T03 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os12g43550.1 (Oryza sativa), 3'ss of exon 5
atgatagcagcaatgtttttttgtcttcctctcgtttgattgtgatggtgtctactg--aaccaaaacaaaatacattaggtaacattatcc-tatgctgcagGAAGCAAAGGCGTACGCTCAAGAGAATGGTCTCTTCTTCATGGAAACTTCTGCCAAAACAGCTACCAATGTGAACGACGTGTTCTATGAGATTG------
  |  |  | |  |||| ||         |    ||  ||| |||  |  ||| | |    |       |     || |       | ||   |||| ||||||| |||||| | ||||| ||||||||||| || |||||||||||||| ||||| ||||| || | |||||||||||| || ||| | ||||| |      
--ggcactatcc-tgttcttgaaatgaatttcttttccattatgacagcctctgcggcttgctttgttgatgcttatcaaaagctctaatttgtatggtgcagGAGGCAAAGACCTACGCACAAGAGAATGGCCTTTTCTTCATGGAAACATCTGCGAAAACGGCGATCAATGTGAACGATGTATTCCACGAGATCGGTGAGT


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtgtctactgaaccaaaacaaaatacattaggtaacattatcctatgctgcagGAAGCAAAGGCGTACGCTCAAGAGAATGGTCTCTTCTTCATGGAAACTTCTGCCAAAACAGCTACCAATGTGAACGACGTGTTCTATGAGATTG
                               aggtaac  putative branch site (score: 3)
                                       ttatcct  CT-rich tract
                aaaacaaaatacatta  TA-rich tract