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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacaaatttatgggacagttgtaaacccttttatatgtatttagttccccatttgattttgatccaactgtgcataatcttggatatgctctctgaagGTTGTGGACTGTCGCATGTGTGGGGACCCAAATTCAGTCCTTAGGTTTGCTTTCATAGAGTTCACTGATGAGG

Basic information

species Zea mays
transcript GRMZM2G044246_T02
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G044246_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os08g02330.1 (Oryza sativa), 3'ss of exon 3
gtacaaatttatgggacagttgtaaacccttttatatgtatttagttccccatttgattt-tgatccaactgtgcataat---cttgga--tatgctctctgaagGTTGTGGACTGTCGCATGTGTGGGGACCCAAATTCAGTCCTTAGGTTTGCTTTCATAGAGTTCACTGATGAGG
                                || || | | | | ||| || ||| ||| ||    || ||||||||||   |||| |  | | || ||||||||||||||||||||| ||||||||||| || ||||| || ||| | ||||||||||||||||||||||||||||
-------------------------------gtacatttttctggctccacacttgctttctgtgataattgtgcataataatcttgaaatttttctttctgaagGTTGTGGACTGTCGTATGTGTGGGGATCCGAATTCTGTTCTTCGTTTTGCTTTCATAGAGTTCACTGATGAGG

upper sequence: GRMZM2G044246_T02 (Zea mays), 3'ss of exon 3
lower sequence: AT4G10610.2 (Arabidopsis thaliana), 3'ss of exon 3
gtacaaatttatgggacagttgtaaacccttttatatgtatttagttccccatttgattttgatccaactgtgcataatcttggatatgctctctgaagGTTGTGGACTGTCGCATGTGTGGGGACCCAAATTCAGTCCTTAGGTTTGCTTTCATAGAGTTCACTGATGAGG
                  ||| ||| |   ||  ||    || |  ||    ||||  ||   |     |||  |   | || | | || |      ||||||| |||||||| || ||||| || || || ||||| ||||||||||||||||| |||||||||||||| |
------------------gtt-taagcaacttctta-aagttca--tctttgtttgtgttgtgttatggtgttgactgtatttggt-tgttt-----agGTTGTTGACTGTCGTATATGTGGTGATCCCAACTCAGTACTTAGGTTTGCTTTCATCGAGTTCACTGATGAAG

upper sequence: GRMZM2G044246_T02 (Zea mays), 3'ss of exon 3
lower sequence: AT1G32790.2 (Arabidopsis thaliana), 3'ss of exon 3
gtacaaatttatgggacagttgtaaacccttttat-atgtatttagttccccatttgattttgatcc--aactgtgcataatcttggatatgctctctgaagGTTGTGGACTGTCGCATGTGTGGGGACCCAAATTCAGTCCTTAGGTTTGCTTTCATAGAGTTCACTGATGAGG
                  |||| |||   |||  | | |   | |  |    | |  ||  |  | |     ||||  |  |  ||  | || | |    ||||||| ||||||||||| || || |||||||| || |||||| ||||||| |||||||||||||||||||| |
------------------gttgaaaatattttcttgaagctctcatctatgaactccatcattgtgcttggttgtgtgtcttactgtgtttggttttaacagGTTGTTGACTGTCGCATATGCGGTGACCCAAACTCGGTCCTTCGGTTTGCATTCATAGAGTTCACTGATGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

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