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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttaaactcgatgatggatttcatctcatctgtatattaattactcttctcctgatctgaacttttcatgtccaatgtctttggaatttgtctttgatagGTTATTCGATCTTATCATGGTCATTTGCATGGCGTTTACTGTTTAGCTCTTCATCCTACTCTTGATGTTGTACTAACCGGAGGGCGAGACTCTGTCTGCA

Basic information

species Arabidopsis thaliana
transcript AT3G16650.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G16650.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv05s0077g02310.t01 (Vitis vinifera), 3'ss of exon 9
gtttaaactcgatgatggatttcatctcatctgtatattaattactcttctcctgatctgaacttttcatgtccaatgtctttggaatttgtctttgat-agGTTATTCGATCTTATCATGGTCATTTGCATGGCGTTTACTGTTTAGCTCTTCATCCTACTCTTGATGTTGTACTAACCGGAGGGCGAGACTCTGTCTGCA
                    ||     | | | || | | |   ||     |   |    || |    |  | || | |  |    |||| |||||| | |||||||||| ||||||||||||||| ||  ||| ||||| ||||| || |||||||| ||  ||||  || | || || || || || || ||||||||| 
-------------------gttagaaccttttttaaactcaccgctgaatcctgtactacaagtgactaaattca-tatgctatatatttttctttgttcagGTTATTCGGTCTTATCATGGTCATCTGAGTGGGGTTTATTGTTTGGCACTTCATCCCACAATTGACATTTTGCTTACTGGGGGACGTGATTCTGTCTGCC

upper sequence: AT3G16650.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: PP1S169_73V6.2 (Physcomitrella patens), 3'ss of exon 8
---------------gtttaaactcgatgatggatttcatctcatctgtatattaattactcttctcctgatctgaacttttcatgtccaatgtctttggaatttgtctttgat-agGTTATTCGATCTTATCATGGTCATTTGCATGGCGTTTACTGTTTAGCTCTTCATCCTACTCTTGATGTTGTACTAACCGGAGGGCGAGACTCTGTCTGCA
                ||||| |    | |||  |  | | | |  ||  | | | | |    ||   | |  ||   |||||     |  |  || ||| || ||  |||| | ||||||| || || |||||||| || |||  ||| |||||||||||||| ||||||||||| |||||| || |  | || || || |||||||| || ||  
gtgtgttctggctccttttaagcatattaatgcgtagcct-ttacttggctctgagtcagaggtcatttcaaatgtcattttctgagactcta-ctctgggatatgggtttgctcagGTTATACGTTCATATCATGGACACTTGAGTGGAGTTTACTGTTTAGCGCTTCATCCTACACTTGATATTCTTATGACTGGTGGTCGAGACTCAGTGTGTC

upper sequence: AT3G16650.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: PP1S402_49V6.1 (Physcomitrella patens), 3'ss of exon 8
-----------------------------gtttaaac-tcgatgatggatttcatctcatctgtatattaattactcttctcctgatctgaacttttcatgtccaatgtctttggaatttgtctttgatagGTTATTCGATCTTATCATGGTCATTTGCATGGCGTTTACTGTTTAGCTCTTCATCCTACTCTTGATGTTGTACTAACCGGAGGGCGAGACTCTGTCTGCA
                             |||  | | ||  | ||  | |||||   || ||| ||| |||   | | ||     | |  |    | | |  |  ||   | |    |||  ||    |||||||||| || |||||||||||||||  ||| ||||| || ||||||||||||||||| |||||| || |  | || || || ||||| || || ||| 
gtgtgtccaggcttttacgacgcttgttggttgtagcatccgtaatt-agttcatga-atgtgtctatgaatccatgtactatatgtatttatcgctgaggatctttgctctggtgtattggtttgtgcagGTTATTCGGTCATATCATGGTCATTTGAGTGGAGTTTATTGCTTAGCTCTTCATCCTACACTTGATATTCTCATGACTGGGGGTCGAGATTCAGTGTGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttctcctgatctgaacttttcatgtccaatgtctttggaatttgtctttgatagGTTATTCGATCTTATCATGGTCATTTGCATGGCGTTTACTGTTTAGCTCTTCATCCTACTCTTGATGTTGTACTAACCGGAGGGCGAGACTCTGTCTGCA
    tcctgat  putative branch site (score: 3)
                                         tttgtcttt  putative PPT
              aactttt  TA-rich tract