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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacaaatttatgggacagttgtaaaccctcttacatgtatttagttccccatttgattttgatccaactgtgcataatcttggatatgctctctgaagGTTGTGGAGTGTCGCATGTGTGGGGACCCAAATTCAGTCCTTAGGTTTGCTTTCATAGAGTTCACTGATGAGG

Basic information

species Zea mays
transcript GRMZM2G376619_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G376619_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os08g02330.1 (Oryza sativa), 3'ss of exon 3
gtacaaatttatgggacagttgtaaaccctcttacatgtatttagttccccatttgattt-tgatccaactgtgcataat---cttgga--tatgctctctgaagGTTGTGGAGTGTCGCATGTGTGGGGACCCAAATTCAGTCCTTAGGTTTGCTTTCATAGAGTTCACTGATGAGG
                                ||||| | | | | ||| || ||| ||| ||    || ||||||||||   |||| |  | | || ||||||||||||||| ||||| ||||||||||| || ||||| || ||| | ||||||||||||||||||||||||||||
-------------------------------gtacatttttctggctccacacttgctttctgtgataattgtgcataataatcttgaaatttttctttctgaagGTTGTGGACTGTCGTATGTGTGGGGATCCGAATTCTGTTCTTCGTTTTGCTTTCATAGAGTTCACTGATGAGG

upper sequence: GRMZM2G376619_T01 (Zea mays), 3'ss of exon 4
lower sequence: AT4G10610.2 (Arabidopsis thaliana), 3'ss of exon 3
gtacaaatttatgggacagttgtaaaccctcttacatgtatttagttccccatttgattttgatccaactgtgcataatcttggatatgctctctgaagGTTGTGGAGTGTCGCATGTGTGGGGACCCAAATTCAGTCCTTAGGTTTGCTTTCATAGAGTTCACTGATGAGG
                   ||    | | ||||| |    || |  ||    ||||  ||   |     |||  |   | || | | || |      ||||||| || ||||| || ||||| || || || ||||| ||||||||||||||||| |||||||||||||| |
-----------------gtttaagcaacttcttaaa---gttca--tctttgtttgtgttgtgttatggtgttgactgtatttggt-tgttt-----agGTTGTTGACTGTCGTATATGTGGTGATCCCAACTCAGTACTTAGGTTTGCTTTCATCGAGTTCACTGATGAAG

upper sequence: GRMZM2G376619_T01 (Zea mays), 3'ss of exon 4
lower sequence: AT1G32790.2 (Arabidopsis thaliana), 3'ss of exon 3
gtacaaatttatgggacagttgtaaaccctcttacatgtatttagttccccatttgattttgatccaactgtgcataatcttggatatgctctctgaagGTTGTGGAGTGTCGCATGTGTGGGGACCCAAATTCAGTCCTTAGGTTTGCTTTCATAGAGTTCACTGATGAGG
       || |    |   |  | ||    ||  ||| |||  | | |  ||||    || |       ||||  |  |  ||  | || | |    ||||||| || |||||||| || || |||||||| || |||||| ||||||| |||||||||||||||||||| |
------gttgaaaatattttcttgaa---gctctcatctatgaactccatcattgtgcttgg------ttgtgtgtcttactgtgtttggttttaacagGTTGTTGACTGTCGCATATGCGGTGACCCAAACTCGGTCCTTCGGTTTGCATTCATAGAGTTCACTGATGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttccccatttgattttgatccaactgtgcataatcttggatatgctctctgaagGTTGTGGAGTGTCGCATGTGTGGGGACCCAAATTCAGTCCTTAGGTTTGCTTTCATAGAGTTCACTGATGAGG
             ttttgat  putative branch site (score: 4)
                                           tgctctct  putative PPT
       atttgatttt  TA-rich tract