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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacagaggatctattgactttgatctgtactaaacttagctctctgccaatttgtgcacttctttcagttaatccatgcgtttctttttgtgtcaatctttaattgacattctcaactctctgtcagCTTCTTTTGAGTTGTTGAGGAAGGAACATCAAAAAGCATTCCAGGAGAGACAAAAATCAAACCCAGACTTACGCAAAAACGACTTTGATTTTACTGAACT

Basic information

species Arabidopsis thaliana
transcript AT4G01290.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G01290.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv15s0046g02270.t01 (Vitis vinifera), 3'ss of exon 5
gtacagaggatctattgactttgatctgtactaaacttagctctctgccaatttgtgcacttct--ttcagttaatccatgcgtttctttttgtgtcaatctttaattgacattc--tcaactctctgtcagCTTCTTTTGAGTTGTTGAGGAAGGAACATCAAAAAGCATTCCAGGAGAGACAAAAATCAAACCCAGACTTACGCAAAAACGACTTTGATTTTACTGAACT
      |   | | | | ||   |  | | ||    |    |    |||    | |||   |||  ||| || | |  |||  |||    | |  | ||  |    || |||||   | |  |  || ||||  || ||||||||| ||||||||||||| |||||||||||||||||||  || || |  || ||||||   |  |||   || | ||       ||    
----gtaatgtgtgtcgtctcctagatttcctgg--tagaatgcaagccttcctttgcttctctagttcggtcagtg-atgattttgcactggattgaacttgcttttaacatttaataactttcctctcagTATCCTTTGAGTTGATGAGGAAGGAACAACAAAAAGCATTCCAGGAGAAGCAGAATTTGAATCCAGACAAGCATAAAGGTGATTCTGTCCCGGATGTTAC


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccatgcgtttctttttgtgtcaatctttaattgacattctcaactctctgtcagCTTCTTTTGAGTTGTTGAGGAAGGAACATCAAAAAGCATTCCAGGAGAGACAAAAATCAAACCCAGACTTACGCAAAAACGACTTTGATTTTACTGAACT
                             aattgac  putative branch site (score: 3)
                                            ctctctgtc  putative PPT
                      aatctttaatt  TA-rich tract