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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagaagaaaactactttctcatgattcttacaaagttttgtctctaggatttatcctttttgtgtttctgcagAGGTGTTAAGGTAAGGAGCTTGTGGTACTTCCTCCACTGGCTTCTTGGCATCGCAATTTGCGCAACTGGCATTACAAATGTCTACATTGGCCTTCACACA

Basic information

species Oryza sativa
transcript LOC_Os01g47635.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g47635.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G024448_T01 (Zea mays), 3'ss of exon 3
--------------------------------------------------------------gtagaagaaaactactttctcatgattcttacaaagttttgtc----tctaggatttatccttttt---gtgtttctgcagAGGTGTTAAGGTAAGGAGCTTGTGGTACTTCCTCCACTGGCTTCTTGGCATCGCAATTTGCGCAACTGGCATTACAAATGTCTACATTGGCCTTCACACA
                                                               |  |||||| ||  |  ||     | | ||||  | |    |    ||||     | |||||  |    | |||||||||||| || ||||| |||||| | ||||||||| |||||||||| || || ||||| || ||||| || || ||    || |||||||| ||||| | ||| 
gtagaagaagaaaatatatgactttccaatccatttgcaccacagctacctttttctatttcttccaagaaagcttatgcctagc--tacctacacggctacaccaccatctaaaccatctccttcctcatatatttctgcagAGGCGTCAAGGTGAGGAGCCTATGGTACTTCTTCCACTGGCTCCTCGGGATCGCGATCTGCGCCACGGGGATCGTCAACGTCTACATCGGCCTCCGCACC


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatgattcttacaaagttttgtctctaggatttatcctttttgtgtttctgcagAGGTGTTAAGGTAAGGAGCTTGTGGTACTTCCTCCACTGGCTTCTTGGCATCGCAATTTGCGCAACTGGCATTACAAATGTCTACATTGGCCTTCACACA
      ttcttac  putative branch site (score: 2)
                                   tcctttttgtgtttct  putative PPT
             aaagtttt  TA-rich tract