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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatctagaaaaagaatatcagcagcttaactctacatgttaggtcctcatttctttttcccttatgcaaacagGACGCACTGAGAGCAGCTGACTTCAAGGAGTTTAGCCCTGAGACTCGAGAGTCTTTATCTTGTTGGTATCCTGATTGCATTGGTTTTAACCTCATAGAAT

Basic information

species Arabidopsis thaliana
transcript AT2G01130.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G01130.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA09G18490.1 (Glycine max), 3'ss of exon 4
gtatctagaaaaa---gaatatcagcagcttaactc--tacatgttaggtcctcatttctttttccctta-tgcaaacagGACGCACTGAGAGCAGCTGACTTCAAGGAGTTTAGCCCTGAGACTCGAGAGTCTTTATCTTGTTGGTATCCTGATTGCATTGGTTTTAACCTCATAGAAT
|||| || | |      |    |||   ||  | ||  | ||   ||  |  | | ||| ||||     | |   | ||||| ||| |  |||| ||||| || |  || | ||| |   | ||  | |||||||| ||||||||||||||||| || |||||||||||||||||  |||
gtatttaaagattctcaagctacagtcactccattccttgcaatgtatttattaagttcattttggaaaaatattaccagGATGCATTACGAGCGGCTGATTTAAGTGATTATAGTCTGCAAACAAGGGAGTCTTTGTCTTGTTGGTATCCTGACTGTATTGGTTTTAACCTCATTCAAT

upper sequence: AT2G01130.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv01s0011g04360.t01 (Vitis vinifera), 3'ss of exon 9
gtatctagaa-----aaagaatatcagcagcttaactctacatgttag--------gtcctcatttctttttcccttatgcaaaca-------gGACGCACTGAGAGCAGCTGACTTCAAGGAGTTTAGCCCTGAGACTCGAGAGTCTTTATCTTGTTGGTATCCTGATTGCATTGGTTTTAACCTCATAGAAT
||||  | ||      ||   | || |   ||| | |  |  |  |||        |||   | || ||| |  ||| | |||| |       ||| ||||| |||||  |||| |||||||| | ||||||  | ||||  || ||||| || |||||| ||||||| |||||||||||||||||||||||| 
gtattcaaaatttttgaaaggtttctgtttcttcattgcattttctagtatcccctgtcactaattttttgtttctttttcaaatattaactagGATGCACTCAGAGCTACTGATTTCAAGGATTATAGCCCACAAACTCAGGAATCTTTGTCCTGTTGGAATCCTGACTGCATTGGTTTTAACCTCATAGAAA


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagcagcttaactctacatgttaggtcctcatttctttttcccttatgcaaacagGACGCACTGAGAGCAGCTGACTTCAAGGAGTTTAGCCCTGAGACTCGAGAGTCTTTATCTTGTTGGTATCCTGATTGCATTGGTTTTAACCTCATAGAAT
     gcttaac  putative branch site (score: 3)
                         tcctcatttctttttc  putative PPT
                              atttcttttt  TA-rich tract