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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacattcgcgacttgctttctctgtaagttgactgtgacgttattctatgccaattgatgttcagtgagcttgttttaagtatatcactttctcttcagGTAGGAGCTCATTATTTTGAAGAGGGAAATGTGGAATTAGATGCAAAAAAAGATTTCCAAGATTCAACAATATTTCAG

Basic information

species Arabidopsis thaliana
transcript AT3G05520.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G05520.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os07g23200.1 (Oryza sativa), 3'ss of exon 6
gtaacattcgcgacttgctttctctgtaagttg-actgtgacgttattctatgccaattgatgttcagtgagcttgttttaagtatatcactttctct-tcagGTAGGAGCTCATTATTTTGAAGAGGGAAATGTGGAATTAGATGCAAAAAAAGATTTCCAAGATTCAACAATATTTCAG
              |||||||  || ||  | |  ||   || |  ||   |     ||  |||      || | ||    |  |||    |   | |  |||||||| ||||||||||||||||||||||||||| |  | ||| | || |  |||| | | ||||| || ||||| |||
------------gtttgcttttact-tagctagcgctaaaacatggttaattattg-ttattgtaattgaagttggtaactaagatacatgtgcatataccagGTAGGTGCTCATTATTTTGAAGAGGGAAATGTGCAGCTGGATACTAACATCGATTGCAAGGATTCCACCATATTGCAG

upper sequence: AT3G05520.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv14s0060g02220.t01 (Vitis vinifera), 3'ss of exon 6
------------------------------------gtaacattcgcgacttgctt------tctctgtaagttgactgtgacgttattc------tatgcca--attgatgttcagtgagcttgttttaagtatatcactttctcttcagGTAGGAGCTCATTATTTTGAAGAGGGAAATGTGGAATTAGATGCAAAAAAAGATTTCCAAGATTCAACAATATTTCAG
                                      ||| ||   |||||  ||      || ||    | |  ||||    || |||      | |||||  ||| || |  |   |  || |   || ||| |   | |   ||||||| || || ||||| |||||||||||||||||| | |||||||||||| | || | | | ||||||||||||||||||
gtatttttctttaactgattctagtgtatatatgatacaacttttaggacttctttattaagtcccttggtgctttctgttttatttttcagtgcatgtgccagaattaatttagacctacattatgccaattattttgttcttctttcagGTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctatgccaattgatgttcagtgagcttgttttaagtatatcactttctcttcagGTAGGAGCTCATTATTTTGAAGAGGGAAATGTGGAATTAGATGCAAAAAAAGATTTCCAAGATTCAACAATATTTCAG
        aattgat  putative branch site (score: 4)
                                      tatcactttctcttc  putative PPT
                          ttgttttaagtatat  TA-rich tract