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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagttttttaagtctttttgatttttgtgccttcaagttgtgtgtggattctcatggtttgctgtttttgtttgtgtagTATACAGAGGCTGGAGCTGGGGAAGAAAAGGATTGTCTATGGAGGGAGACGTCGGAATAGGTTTGGTATGCCAGAATACTATGGATGGGAAGGCGAGTAA

Basic information

species Arabidopsis thaliana
transcript AT5G53120.4
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G53120.4 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA06G13210.1 (Glycine max), 3'ss of exon 1
------gtta-gttttttaagtctttttgatttttgtgccttcaagttgtgtgtggattctcatggtttg-ctgtttttgtttgtgtagTATACAGAGGCTGGAGCTGGGGAAGAAAAGGATTGTCTATGGAGGGAGACGTCGGAATAGGTTTGGTATGCCAGAATACTATGGATGGGAAGGCGAGTAA
      | |  | |||||   | ||||| |||| ||  | |  |  | ||| |   ||| || |    || |   |  |||   | |||||||||||| |||||||  | |||||||||||   | ||||||||  | ||  |||| |||||||| ||||| ||| |||||||||||||||||||||||
gtaagtgctgcgatttttttttttttttaatttatgaacttaaagatggtgggataattttcttttcgtgacaactcatgtgcttatagTATACAGAGACTGGAGCCTGAGAAGAAAAGGAGAATTTATGGAGGACGGCGCAGGAAGAGGTTTGGAATGCCCGAAGACTATGGATGGGAAGGCGAGTAA

upper sequence: AT5G53120.4 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA06G13210.3 (Glycine max), 3'ss of exon 1
----------gtta-gttttttaagtctttttgatttttgtgccttcaagttgtgtgtggattctcatggtttg-ctgtttttgtttgtgtagTATACAGAGGCTGGAGCTGGGGAAGAAAAGGATTGTCTATGGAGGGAGACGTCGGAATAGGTTTGGTATGCCAGAATACTATGGATGGGAAGGCGAGTAA-------
          | |  | |||||   | ||||| |||| ||  | |  |  | ||| |   ||| || |    || |   |  |||   | |||||||||||| |||||||  | |||||||||||   | ||||||||  | ||  |||| |||||||| ||||| ||| |||||||||||||||||||||||       
ctctgtaagtgctgcgatttttttttttttttaatttatgaacttaaagatggtgggataattttcttttcgtgacaactcatgtgcttatagtatacagAGACTGGAGCCTGAGAAGAAAAGGAGAATTTATGGAGGACGGCGCAGGAAGAGGTTTGGAATGCCCGAAGACTATGGATGGGAAGGCGAGTAACGGGAAT

upper sequence: AT5G53120.4 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA06G13210.2 (Glycine max), 3'ss of exon 1
-----------------gtta-gttttttaagtctttttgatttttgtgccttcaagttgtgtgtggattctcatggtttg-ctgtttttgtttgtgtagTATACAGAGGCTGGAGCTGGGGAAGAAAAGGATTGTCTATGGAGGGAGACGTCGGAATAGGTTTGGTATGCCAGAATACTATGGATGGGAAGGCGAGTAA
                 | |  | |||||   | ||||| |||| ||  | |  |  | ||| |   ||| || |    || |   |  |||   | |||||||||||| |||||||  | |||||||||||   | ||||||||  | ||  |||| |||||||| ||||| ||| |||||||||||||||||||||||
cactttactctgtaagtgctgcgatttttttttttttttaatttatgaacttaaagatggtgggataattttcttttcgtgacaactcatgtgcttatagTATACAGAGACTGGAGCCTGAGAAGAAAAGGAGAATTTATGGAGGACGGCGCAGGAAGAGGTTTGGAATGCCCGAAGACTATGGATGGGAAGGCGAGTAA

upper sequence: AT5G53120.4 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA04G41600.1 (Glycine max), 3'ss of exon 1
-gttagttttttaagtctttttgatttttgtgccttcaagttgtgtg---tggattctcatggtttgctgtttttg--------tttgtgtagTATACAGAGGCTGGAGCTGGGGAAGAAAAGGATTGTCTATGGAGGGAGACGTCGGAATAGGTTTGGTATGCCAGAATACTATGGATGGGAAGGCGAGTAA-------
   | ||||| |||||  |  |  ||||| |   |    ||| | ||   |    |   || ||||  ||||| ||        | ||  || | ||||||| |||||||  | ||||||||| ||  | ||||||||  | ||  |||| |||||||| ||||||||| |||||||||||||||| ||||||       
gtctggttttgtaagtgctgctattttttatttttatttgttttatgaaatatggtgggatagttttttgtttgtgaccactcatgtgcttattttacagAGACTGGAGCCTGCGAAGAAAAGAATAATTTATGGAGGACGGCGCAGGAAGAGGTTTGGAATGCCAGAAGACTATGGATGGGAAGGTGAGTAACAGTAAT

upper sequence: AT5G53120.4 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv16s0050g02670.t01 (Vitis vinifera), 3'ss of exon 1
---------gttagttttttaagt--------ctttttgatttttgtgccttcaagttgtgtgtggattctcatggtttgctgtttttgtttgtgtagTATACAGAGGCTGGAGCTGGGGAAGAAAAGGATTGTCTATGGAGGGAGACGTCGGAATAGGTTTGGTATGCCAGAATACTATGGATGGGAAGGCGAGTAA-----
          |  | |||| ||||        |  | ||||   |    | |    |  | || | |    |||  | | || | |   | ||| |  | |  |||| ||||||| || |||||||| |||  ||||||||||| | ||  |||| |||||||| ||||| ||| | |||||||||||||||||||||     
catattttgatgggattttgaagtgaaacattcaatatgatggctactgccttttctactatgagaaactccat--tcttct-tataactatgtttgatttctAGAGACTGGAGCCGGAGAAGAAAAAGATAATCTATGGAGGGCGGCGCAGGAAAAGGTTTGGAATGCCCGAAGATTATGGATGGGAAGGCGAGTAACGGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtgccttcaagttgtgtgtggattctcatggtttgctgtttttgtttgtgtagTATACAGAGGCTGGAGCTGGGGAAGAAAAGGATTGTCTATGGAGGGAGACGTCGGAATAGGTTTGGTATGCCAGAATACTATGGATGGGAAGGCGAGTAA
                                        tttttgttt  CT-rich tract
                                        tttttgttt  TA-rich tract