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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tataacagagcttgtgaactgaaaaagtgtctgccttgtattcataaccctatcaataatagatacgtctgttcaataatttttcattttttctgatcagGCTTGGTGAAGCAATAGATAGGACATTACTTAGTCATCTTTTGAAGATGCTTACCGCTCTTGGAATGTATTCTGAGAGTTTTGAAAAGCCCTTTCTTGAG

Basic information

species Zea mays
transcript GRMZM2G704093_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G704093_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g57290.1 (Oryza sativa), 3'ss of exon 3
------------tataacagagcttgtgaactgaaaaagtgtctgccttgtattcataaccctatcaataatagatacgtctgttcaataatttttcattttttctgatcagGCTTGGTGAAGCAATAGATAGGACATTACTTAGTCATCTTTTGAAGATGCTTACCGCTCTTGGAATGTATTCTGAGAGTTTTGAAAAGCCCTTTCTTGAG
             || |   |  ||||| |||  ||  ||       || | || |||  | | |   |||  |||     | |||| |||   |    | || || ||||||||||||||||||||||| ||||||||||||||||||||| |||||||| |||| ||||||||||||||||||||||||||||||||||||||||| |||
gggtccattttaaattattaaaattgtggacttgaagggt---caatttat-tttatattcttctatgtaactgat-----tattcattaaccatc---tcttccttatcagGCTTGGTGAAGCAATAGACAGGACATTACTTAGTCATCTTCTGAAGATGTTTACTGCTCTTGGAATGTATTCTGAGAGTTTTGAAAAGCCCTTTCTGGAG

upper sequence: GRMZM2G704093_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv10s0003g03710.t01 (Vitis vinifera), 3'ss of exon 3
------tataacagagcttgtgaactgaaaaagtgtctgccttgtattcataaccctatcaataatagatacgtctgttcaataatttttcattttttctgatcagGCTTGGTGAAGCAATAGATAGGACATTACTTAGTCATCTTTTGAAGATGCTTACCGCTCTTGGAATGTATTCTGAGAGTTTTGAAAAGCCCTTTCTTGAG
      | |    || |   ||  ||  |  ||  |||   ||  ||        ||||  ||   | ||   | |  |  | |   ||  ||||||  |  ||||  | ||||||||| ||||||||||  | |||| |||||||||||||||| |||| ||||| ||||| ||||  || |||||||| ||||| || || |||
aggatgtttggatgatccattgttcttgactagcttctttgttaaat-----gttctatttatttaacat-tttgtaatgtagagcattctatttttggtcttcagATTAGGTGAAGCAGTAGATAGGACTCTCCTTAATCATCTTTTGAAGATGTTTACTGCTCTAGGAATTTATTTGGAAAGTTTTGAGAAGCCATTCCTCGAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaccctatcaataatagatacgtctgttcaataatttttcattttttctgatcagGCTTGGTGAAGCAATAGATAGGACATTACTTAGTCATCTTTTGAAGATGCTTACCGCTCTTGGAATGTATTCTGAGAGTTTTGAAAAGCCCTTTCTTGAG
 tcataac  putative branch site (score: 2)
                                  tttttcattttttct  putative PPT
                        tgttcaataatttttc  TA-rich tract