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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatctaagttttaaagactctaactttatatgacttagttcctgaaaggtggttatgttggttgtcagATAGGTCCTGTTGTTTATCGTAGTCGAACTGTTTTTGAGGATGTAACACCAGACATTGTTAGGGATTTCTTCTGGGACGATGAGTTTCGACCTAAATGGG

Basic information

species Arabidopsis thaliana
transcript AT3G23080.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G23080.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: LOC_Os07g08760.2 (Oryza sativa), 3'ss of exon 1
----------------gtaaatctaagttttaaagactctaact------ttatatgacttagttc-----ctgaaaggtgg---ttatgttggttgtcagATAGGTCCTGTTGTTTATCGTAGTCGAACTGTTTTTGAGGATGTAACACCAGACATTGTTAGGGATTTCTTCTGGGACGATGAGTTTCGACCTAAATGGG
                 | |||||| |||| |      | ||         |||| |   |||| |     || |  |   |   ||   ||| |||| || | || ||| |  | ||  ||||||| ||| ||||||||||||  || || ||  ||||||| |||||||||||||| ||||| ||||| |  || ||||
atttcctgtcttttcaatgaatctacgtttgatgtgaccaaatcaatagcatataggttatagtgcaacatctaatggactgatcttcctttgcttgt-agGTGGGACCTATCATGTACTGTAGTCGCACTATTTTTGAGGATGCTACTCCTGAGCTTGTTAGAGATTTCTTCTGGGATGATGAATTTCGTCTGAAGTGGG

upper sequence: AT3G23080.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA11G01030.1 (Glycine max), 3'ss of exon 2
----------------------------gtaaatctaagttttaaagactctaactttatatgacttagttcctgaaaggtggttatg--ttggttgtcagATAGGTCCTGTTGTTTATCGTAGTCGAACTGTTTTTGAGGATGTAACACCAGACATTGTTAGGGATTTCTTCTGGGACGATGAGTTTCGACCTAAATGGG
                             |   | |  || ||     ||   | |  | ||   | |    ||||  | |||  |||  |  |||  |||| |||||||   ||||| |||||| ||||||| ||||| |||| ||| |||||  | || ||||||||||||||||| ||||| ||||| ||||||||||
accatctatgttgatgattatttgatttatttctttttgtatttccaccttagattagaaatatatcaccatctgat-gttggacatggatctgttaacagACAGGTCCTACAGTTTACCGTAGTAGAACTGTCTTTGATGATGCAACTCCAGAGTTGGTGAGGGATTTCTTCTGGGATGATGACTTTCGTCCTAAATGGG

upper sequence: AT3G23080.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA01G44500.1 (Glycine max), 3'ss of exon 2
----------------------------gtaaatctaagttttaaagactctaactttatatgacttagttcctgaaag-gtggttatgttggttgtcagATAGGTCCTGTTGTTTATCGTAGTCGAACTGTTTTTGAGGATGTAACACCAGACATTGTTAGGGATTTCTTCTGGGACGATGAGTTTCGACCTAAATGGG
                             |   | |  || ||     ||   | |  | ||     |    ||||    |    |   || |||  |||| |||||||  ||||||  ||||| ||||||| || || |||| ||| |||||  | || ||||||||||||||||| ||||| ||||| ||||||||||
accatctatgctgttgattatttgatttatttctttttgtatttccaccttagattagaaatataccatcatctgatgttggacctggatttgttaacagACAGGTCCTACTGTTTACTGTAGTAGAACTGTCTTCGATGATGCAACTCCAGAGTTGGTGAGGGATTTCTTCTGGGATGATGACTTTCGTCCTAAATGGG

upper sequence: AT3G23080.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv05s0020g04870.t01 (Vitis vinifera), 3'ss of exon 2
-----------------------------gtaaatctaagttttaaagactctaactttatatgac-ttagttcctgaaaggtggttatgttggtt-gtcagATAGGTCCTGTTGTTTATCGTAGTCGAACTGTTTTTGAGGATGTAACACCAGACATTGTTAGGGATTTCTTCTGGGACGATGAGTTTCGACCTAAATGGG
                              ||| | | | || | |        |||  | || |  ||  ||  | |  | |  |  ||||  ||  |||||  || ||   ||| ||||||||  ||||||| |||||||||| ||| || ||  | ||||| |||||||||||||| ||||||||| ||||||||||||
gtgtgtgtgtgtgtgtgtgtgtattgtgcataattttcaattctcattgt--agactgaagataaaattcattagtaaccgataatggtgtttctttatcagAATGGCCCCACTGTGTATCGTAGCAGAACTGTATTTGAGGATGCAACTCCCGAGGTGGTTAGAGATTTCTTCTGGGATGATGAGTTTAGACCTAAATGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagactctaactttatatgacttagttcctgaaaggtggttatgttggttgtcagATAGGTCCTGTTGTTTATCGTAGTCGAACTGTTTTTGAGGATGTAACACCAGACATTGTTAGGGATTTCTTCTGGGACGATGAGTTTCGACCTAAATGGG
    ctctaac  putative branch site (score: 2)
       taactttatat  TA-rich tract