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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttcacttttgtggtagcgattagaagtagcaatgcttgattttaattagtcacaatatagaatagcttactaaagccacaaaattttctgcgttttgcagGAACGTTCAGCTGCTTTTGTGTTTTTTAAGACTCGCTATGATGCTCTTGTTGTTTCGGAGGTTCTACAATCATCAAATCCTATGTTATGGGTGACAGACT

Basic information

species Arabidopsis thaliana
transcript AT1G58520.2
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G58520.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA0041S00290.1 (Glycine max), 3'ss of exon 6
ttcacttttgtggtagcgattagaagtagcaatgcttgattttaattagtcacaatatagaata---gcttactaaagccacaaaattttctgcgttttgcagGAACGTTCAGCTGCTTTTGTGTTTTTTAAGACTCGCTATGATGCTCTTGTTGTTTCGGAGGTTCTACAATCATCAAATCCTATGTTATGGGTGACAGACT
    ||| |    |    || |  | |    ||||  | || |     ||||  | ||    |     || | |   ||  ||   ||   |   |  | |||||| ||||  ||||||||||||| ||||| | ||| |||| |||||||   | | |  |||| || ||  ||||||||||||||||||||||||||||  
---gcttatagtattattatcattatttattatgccaggttgtgtgatgtcaacaaattttgtgtccactaatttgtgcttcatgtttggatttctgatacagGAATGTTCCTCTGCTTTTGTGTTCTTTAAAAGTCGGTATGCTGCTCTTACGGCTGCACAGGTACTGCAGACATCAAATCCTATGTTATGGGTGACAGATG

upper sequence: AT1G58520.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA14G10320.1 (Glycine max), 3'ss of exon 6
ttcacttttgtggtagcgat-tagaagtagcaatgcttgattttaattagtcacaatatagaatagcttactaaagccacaaaattttctgcgttttgcagGAACGTTCAGCTGCTTTTGTGTTTTTTAAGACTCGCTATGATGCTCTTGTTGTTTCGGAGGTTCTACAATCATCAAATCCTATGTTATGGGTGACAGACT
|| | |||| |      | | ||||| ||     | |||  |    | |  || | | |       || | |   ||  ||   ||   |   |  | |||||| || | |||||||||||||| ||||| | ||| |||| |||||||   | | |  |||| || ||  ||||||| ||||||||||||||||||||| 
tttatttttatttagttgctgtagaaatatttcaggttgtgtgatgtcaa-caaattttgtgtccactaatttgtgcttcatgtttggatttctgatacagGAATGTCCCGCTGCTTTTGTGTTCTTTAAAAGTCGGTATGCTGCTCTTACGGCTGCACAGGTACTGCAGACATCAAACCCTATGTTATGGGTGACAGACG

upper sequence: AT1G58520.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv18s0001g08490.t01 (Vitis vinifera), 3'ss of exon 2
---ttcacttttgtggtagcgattagaagtagcaatgcttgattttaattagtcacaatatagaatagcttactaaagccacaaaattttctgcgtttt---gcagGAACGTTCAGCTGCTTTTGTGTTTTTTAAGACTCGCTATGATGCTCTTGTTGTTTCGGAGGTTCTACAATCATCAAATCCTATGTTATGGGTGACAGACT
   ||| |||||    |         ||||| ||     |     ||   ||      || | |  | | | ||  ||||  ||| || |  |   |||    |||||  || || |||| ||||| ||||| ||||||||||||| |||| ||||||  ||  ||||||| |||||||||||||| ||||||||||| |||||||
ttgttctctttttctttgttctcatcaagtaaca-----tagagataccaaggtttggtaaaaaccaccatcctgtagcc-taaagttcttagttctttcatacagGAGGGTGCATCTGCCTTTGTTTTTTTCAAGACTCGCTATGCTGCTGTTGTTGCCTCCCAGGTTCTTCAATCATCAAATCCCATGTTATGGGTCACAGACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttagtcacaatatagaatagcttactaaagccacaaaattttctgcgttttgcagGAACGTTCAGCTGCTTTTGTGTTTTTTAAGACTCGCTATGATGCTCTTGTTGTTTCGGAGGTTCTACAATCATCAAATCCTATGTTATGGGTGACAGACT
                      tactaaa  putative branch site (score: 1)
                                      ttttctgc  putative PPT
        aatatagaata  TA-rich tract