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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttatgagctgcactctttgcaatttttgtttctaaactatactttgatgattttcaattttggcactctgatatatcatacttgtcttcagATACTGTGAGGAAAGAGGCAGCTACAATAACGGCTGTCTTTCCTTCTCCGAATGAGGTCATGGCAATTCTTGTCCAG

Basic information

species Zea mays
transcript GRMZM2G316815_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G316815_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os12g13590.1 (Oryza sativa), 3'ss of exon 9
gtatttatgagctgcactctttgcaatttttgtttctaaact-atactttgatgattttcaattttggcactctgatatatcatacttgt-cttcagATACTGTGAGGAAAGAGGCAGCTACAATAACGGCTGTCTTTCCTTCTCCGAATGAGGTCATGGCAATTCTTGTCCAG
         ||    |   ||    ||| ||||||  ||  | ||| ||  | ||| | || || | | | ||||| | ||||||||  | |||||||||||||||||| ||| ||| ||||||||| |||||| ||||||||||| |||||||||||| |||||||||| |||
-------gtagtgaaaagtttgatgattattgtttacaagttgatagttcaaagatatacatttatagtaatctgaca-atcatactgctgcttcagATACTGTGAGGAGAGAAGCAACTACAATAATGGCTGTATTTCCTTCTCCAAATGAGGTCATGTCAATTCTTGTGCAG

upper sequence: GRMZM2G316815_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv15s0046g02200.t01 (Vitis vinifera), 3'ss of exon 9
gtatttatgagctgcactctttgcaatttttgtttctaaactatactttgatgattttcaattttggcactctgatatatcatacttgtcttcagATACTGTGAGGAAAGAGGCAGCTACAATAACGGCTGTCTTTCCTTCTCCGAATGAGGTCATGGCAATTCTTGTCCAG
     | |||     |    |||  || || ||  ||    |   ||| ||||  |||||  |           || | |  |  |||| ||||||||||||| | ||||| ||||| ||||||| |||||| || || ||||| ||||| |||||||||||| | || |||
----gtttgaagaataggtattg--atcttagtaactgggtt---cttggatggatttcatat-----------atttgttttgtttgt-ttcagATACTGTGCGAAAAGAAGCAGCCACAATAATGGCTGTATTCCCCTCTCCTAATGATGTCATGGCAATTTTGGTTCAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatactttgatgattttcaattttggcactctgatatatcatacttgtcttcagATACTGTGAGGAAAGAGGCAGCTACAATAACGGCTGTCTTTCCTTCTCCGAATGAGGTCATGGCAATTCTTGTCCAG
                             ctctgat  putative branch site (score: 4)
                                            cttgtcttc  putative PPT
          atgattttcaatttt  TA-rich tract