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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgcattttcctatactttgtgtagctagcaatttttttcctatgtttttttgacatattgttctccttctctttgtatgcccggtactcaacatctaaagGAAGCAACCGAAGCAGCTTTAAGACAATTAAGAAAAAGTTTGAGGTTTAAAGCAAACCCAATGCCAAAATTTTATCATGAAGGGCCTCCCCCAAAGGTTG

Basic information

species Arabidopsis thaliana
transcript AT3G23090.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G23090.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA20G34780.4 (Glycine max), 3'ss of exon 6
-------------------------tgcattttcctatactttgtgtagctagcaatttttttcctatgtttttttgacatattgttctccttctctttgtatgcccggtactcaacatctaaagGAAGCAACCGAAGCAGCTTTAAGACAATTAAGAAAAAGTTTGAGGTTTAAAGCAAACCCAATGCCAAAATTTTATCATGAAGGGCCTCCCCCAAAGGTTG
                           || |     |||  |||     ||   | || ||||  || | |  |  |  |  || |||||  |   |   |    |   | || ||||| ||| |||||  |  || | |||| | |  ||  |||| || ||| | |  |||||||||| ||| |||||||  ||||| |||||||||||||| || |||||||
gtgcaacactttctcaagtatcttcaacactaggaaatatattgcaattctgttacttctttttataagctcataagttagttttttctctctgattcctt-catcaatttctaaacatttaa-gGAAGAGATGGAGGAAGCTATCAAGCAGCTAAGGAAGAGTCTAACTTTTAAAGCAAGCCCTATGCCAAGCTTTTACCATGAAGGGCCTCCTCCTAAGGTTG

upper sequence: AT3G23090.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv05s0020g04880.t01 (Vitis vinifera), 3'ss of exon 6
--------------------------------------------------------------------------tgcattttcctatactttgtgtagctagca-atttttttcctatgtttttttg--------acata-ttgttctccttctctttgt-----atgcccggtac-----------tcaacatctaaagGAAGCAACCGAAGCAGCTTTAAGACAATTAAGAAAAAGTTTGAGGTTTAAAGCAAACCCAATGCCAAAATTTTATCATGAAGGGCCTCCCCCAAAGGTTG
                                                                          ||  |||||| || |||    |      |  | | | ||   ||||||  |||        | ||| || ||  |||| | ||| |     || | |  | |           |  | |  |  ||||||     || |||||  | |  ||||| ||||| ||||||| |||||| |||| |||||||||||  || ||||||||||| || || || |||| ||
gtatattactttgtcaagtatctcttagccaagtgtagtttctcctatgggacattgctcacacagatgtaacttgttttttcccatgcttctcttgcacgccttagtctcttttcatgtttgattgtgtaggccagataattatttcccttttttttttctttgatcctcaattcctgtgttaatcttgaaacttttagGAAGAGCGAGAGGCAGCAATTAAGCAATTGAGAAAGAGTTTGATGTTTAAGGCAAGCCCAATGCCAAGCTTCTATCATGAAGGACCACCACCCAAGGCTG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttttgacatattgttctccttctctttgtatgcccggtactcaacatctaaagGAAGCAACCGAAGCAGCTTTAAGACAATTAAGAAAAAGTTTGAGGTTTAAAGCAAACCCAATGCCAAAATTTTATCATGAAGGGCCTCCCCCAAAGGTTG
  ttttgac  putative branch site (score: 3)
         atattgtt  TA-rich tract