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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgtttctatgtgaataacctggaatacgcctttctttgtctagttttgtctgtgctaattttccactacctatcggttcccccctttctgcttgtagAAACCAAGAGCATGGAACATGGCTGCAATTCAGCCTTGGTTGCAATCTATAATTGTAGCCAAGGACTTTGTTCATTTGATGTTCTCCCTTATGATGTTCA

Basic information

species Oryza sativa
transcript LOC_Os01g42010.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g42010.2 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G072080_T02 (Zea mays), 3'ss of exon 4
gtaagtgtttcta--tgtgaataacctgg-aatacgcctttctttgtctagtttt-gtctgtgctaattttccactacctatcggttcc---cccctttctgcttgtagAAACCAAGAGCATGGAACATGGCTGCAATTCAGCCTTGGTTGCAATCTATAATTGTAGCCAAGGACTTTGTTCATTTGATGTTCTCCCTTATGATGTTCA
|| ||||  | |   | ||||| |   |  ||| | |||       |||| ||||   |||||   || |||||||   |   |||| |        ||||||||||||||||||||||||||||| ||| ||||||||||| | |||||||| ||||| |||||||| |||||||||||||| ||||||||||| |||||||||||||
gtgagtgcctgttattctgaatgaatggataatgcacctcagcacctctattttttaactgtgtagatgttccactttatgatggttacaaattttgttctgcttgtagAAACCAAGAGCATGGAATATGCCTGCAATTCAGTCCTGGTTGCAGTCTATTATTGTAGCTAAGGACTTTGTTCACTTGATGTTCTCTCTTATGATGTTCA


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttttgtctgtgctaattttccactacctatcggttcccccctttctgcttgtagAAACCAAGAGCATGGAACATGGCTGCAATTCAGCCTTGGTTGCAATCTATAATTGTAGCCAAGGACTTTGTTCATTTGATGTTCTCCCTTATGATGTTCA
          tgctaat  putative branch site (score: 2)
                          cctatcggttcccccc  putative PPT
             taatttt  TA-rich tract