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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacaaatttatgggacagttgtaaaccctctaacatgtatttagttccccatttgattttgatccaactgtgcataatcttggatatgctctctaaagGTTGTGGACTGTCGCATGTGTGGGGACCCAAATTCAGTCCTTAGGTTTGCTTTCATAGAGTTCACTGATGATG

Basic information

species Zea mays
transcript GRMZM2G349794_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G349794_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os08g02330.1 (Oryza sativa), 3'ss of exon 3
gtacaaatttatgggacagttgtaaaccctctaacatgtatttagttccccatttgattt-tgatccaactgtgcataat---cttgga--tatgctctctaaagGTTGTGGACTGTCGCATGTGTGGGGACCCAAATTCAGTCCTTAGGTTTGCTTTCATAGAGTTCACTGATGATG
                                 |||| | | | | ||| || ||| ||| ||    || ||||||||||   |||| |  | | || ||| ||||||||||||||||| ||||||||||| || ||||| || ||| | |||||||||||||||||||||||||| |
-------------------------------gtacatttttctggctccacacttgctttctgtgataattgtgcataataatcttgaaatttttctttctgaagGTTGTGGACTGTCGTATGTGTGGGGATCCGAATTCTGTTCTTCGTTTTGCTTTCATAGAGTTCACTGATGAGG

upper sequence: GRMZM2G349794_T01 (Zea mays), 3'ss of exon 4
lower sequence: AT4G10610.2 (Arabidopsis thaliana), 3'ss of exon 3
gtacaaatttatgggacagttgtaaaccctctaacatgtatttagttccccatttgattttgatccaactgtgcataatcttggatatgctctctaaagGTTGTGGACTGTCGCATGTGTGGGGACCCAAATTCAGTCCTTAGGTTTGCTTTCATAGAGTTCACTGATGATG
                             |  | ||  |  |||     |   ||  |||   |     | ||        || || || |   | | |||||| |||||||| || ||||| || || || ||||| ||||||||||||||||| |||||||||||||| |
---------------------------gtttaagcaacttcttaaagttcatctttgtttgtgttgtgttatggtgttgactgtatttggttgttta-gGTTGTTGACTGTCGTATATGTGGTGATCCCAACTCAGTACTTAGGTTTGCTTTCATCGAGTTCACTGATGAAG

upper sequence: GRMZM2G349794_T01 (Zea mays), 3'ss of exon 4
lower sequence: AT1G32790.2 (Arabidopsis thaliana), 3'ss of exon 3
gtacaaatttatgggacagttgtaaaccctctaacatgtatttagttccccatttgattttgatccaactgtgcataatcttggatatgctctctaaagGTTGTGGACTGTCGCATGTGTGGGGACCCAAATTCAGTCCTTAGGTTTGCTTTCATAGAGTTCACTGATGATG
       || |    |   |  | || |      ||| |||  | | |  ||||    || |       ||||  |  |  ||  | || | |  | ||||||| ||||||||||| || || |||||||| || |||||| ||||||| |||||||||||||||||||| |
------gttgaaaatattttcttgaagctct---catctatgaactccatcattgtgcttgg------ttgtgtgtcttactgtgtttggttttaacagGTTGTTGACTGTCGCATATGCGGTGACCCAAACTCGGTCCTTCGGTTTGCATTCATAGAGTTCACTGATGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

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