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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttgcttatttagtttctttacttaaccatgtgattcacttctctttacgatatttaaagttggatccttatcgttagGGATTTTGGTTCCATCTTTTCAACTCTACTACCTGGCACCATGTCAAAATTAGAACCTCCAGAGGGAGGTACTTTCCTTGATGGTCTTGAGGTCCGTGTT

Basic information

species Arabidopsis thaliana
transcript AT3G47460.1
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G47460.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: GLYMA13G27210.1 (Glycine max), 3'ss of exon 18
-----gtgagttgctta---tttagtttctttacttaaccatgtgattc----acttctctttacgatatttaaa-gttggatccttatcgt-------tagGGATTTTGGTTCCATCTTTTCAACTCTACTACCTGGCACCATGTCAAAATTAGAACCTCCAGAGGGAGGTACTTTCCTTGATGGTCTTGAGGTCCGTGTT
      | |||| || |   | |  |||  | |||  ||| | | |||     | |||  || |  ||  || |   |    | ||||| ||        || || ||||| ||||||||||| || |||||||| || || ||| | || |||||||||||||| ||| | |  |||||||||||||||||||| ||||||
gaagaattagttcctaacagtgtgatttactgact--accctattattttataatttcatttgataatggttgagtatcatgttcttattgtgttcatccagTGACTTTGGATCCATCTTTTCTACGCTACTACCGGGAACAATGGCCAAGTTAGAACCTCCAGAAGGATGCAGCTTCCTTGATGGTCTTGAGGTTCGTGTT

upper sequence: AT3G47460.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: GLYMA12G36520.1 (Glycine max), 3'ss of exon 18
----gtgagttgcttatttagtttct--ttacttaaccatgtgatt----cacttctctttacgatatttaaa-gttggatccttatcgt-------tagGGATTTTGGTTCCATCTTTTCAACTCTACTACCTGGCACCATGTCAAAATTAGAACCTCCAGAGGGAGGTACTTTCCTTGATGGTCTTGAGGTCCGTGTT
    ||  ||  |  | | | || ||   |||   |  || | |||     | |||  || |  ||  || |   ||   |  ||||  |        || || ||||| ||||||||||| |  |||||||| || || ||| | || |||||||||||||| ||| | |  |||||||||||||||||||| ||||||
attagtttgtaacagactgaattactgactacccgattattttattgttctatttcatttgataatggttgagtattatgtttttattttgttcatccagTGACTTTGGATCCATCTTTTCTATGCTACTACCGGGAACAATGGCCAAGTTAGAACCTCCAGAAGGATGCAGCTTCCTTGATGGTCTTGAGGTTCGTGTT

upper sequence: AT3G47460.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: Vv16s0022g00060.t01 (Vitis vinifera), 3'ss of exon 17
----------------------------------------------------gtgagttgcttatttagtttctttacttaa---ccatgtgattcacttctctttacgatatttaaagttggatccttatcgttagGGATTTTGGTTCCATCTTTTCAACTCTACTACCTGGCACCATGTCAAAATTAGAACCTCCAGAGGGAGGTACTTTCCTTGATGGTCTTGAGGTCCGTGTT
                                                     | | |   |||||| |||  |   |||       ||   | |   |     |||| ||   |||  |||  || |  |  | ||||| ||||| ||||||||||| |||||| |||| ||||| ||| ||||  | |||||||| || ||| | | |||| | |||||||||||||| ||||||
gtgagtctattgcatcatgctagattacatggttcttttaattgatactaaaattaatcatttatttggttattgatctttgattttatagaacttgatgaagcttactattcataattttgtgtc-tcgttttcagGGACTTTGGATCCATCTTTTCTACTCTATTACCAGGCACAATGGCAAAGCTGGAACCTCCTGAAGGATGCAGTTTCTTGGATGGTCTTGAGGTTCGTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaccatgtgattcacttctctttacgatatttaaagttggatccttatcgttagGGATTTTGGTTCCATCTTTTCAACTCTACTACCTGGCACCATGTCAAAATTAGAACCTCCAGAGGGAGGTACTTTCCTTGATGGTCTTGAGGTCCGTGTT
 acttaac  putative branch site (score: 3)
                                          tccttatc  putative PPT
                     tttacgatatttaaa  TA-rich tract