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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtttttaattaataaaaggttacatgcctttctttaacatatctttcgtttctgagttcttttctttttgcgggtagCTTCGTTGCAGATTCCCTAACCTATATGTATATGCCTATGGACCTCTCCCATGTGTAGATTCGGATGTGGCAGAGGCATGTTCAGAATTTGTTACAAG

Basic information

species Arabidopsis thaliana
transcript AT1G05790.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G05790.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA20G39210.1 (Glycine max), 3'ss of exon 9
------------gtacgtttttaattaataaaaggttacatgcc----tttctttaacatatc-tttcgtttctgagttcttttctt--tttgcgggtagCTTCGTTGCAGATTCCCTAACCTATATGTATATGCCTATGGACCTCTCCCATGTGTAGATTCGGATGTGGCAGAGGCATGTTCAGAATTTGTTACAAG
             | | | |||  ||  |      || |||||     | | || | ||| |  |||  ||| | | |   || ||    ||      |||||  |  | | | |||||| ||  |||| ||  | ||||| || ||||||||| | ||||  | ||||||| | |||||||||||||||||||||||
cttttcgtccattttcatgtttttttttttcgttctttcatgctgcagtcttttaagcatttgatttgatttttaaataaattgctgagcttttccacagCTTTATAACCGCTACCCTAATCTGCATGTTTACTCATATGGGCCACTCCCATGTCTGGATTTAGTTGTGGCAAATGCATGTTCAGAATTTGTTACAAG

upper sequence: AT1G05790.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA10G44440.1 (Glycine max), 3'ss of exon 8
-----------gtacgttttta-attaataaaaggttacatgcc----tttctttaacatatc-tttcgtttctgagttcttttctt--tttgcgggtagCTTCGTTGCAGATTCCCTAACCTATATGTATATGCCTATGGACCTCTCCCATGTGTAGATTCGGATGTGGCAGAGGCATGTTCAGAATTTGTTACAAG
            | | |||| |  |   |      || |||||     | | || | ||| |  |||  ||| | | |   || ||    ||      |||||  |  | | | |||||| ||  |||| ||  | ||||| || ||||||||| | ||||  | ||||||| | |||||||||||||||||||||||
aagaacttttcattcattttcatgtcttttctttctttcatgctgtagtcttttaagcatttgatttgatttttaaataaattgctgagcttttccacagCTTTATAACCGCTACCCTAATCTTCATGTTTACTCATATGGGCCACTCCCATGTCTGGATTTAGTTGTGGCAAATGCATGTTCAGAATTTGTTACAAG

upper sequence: AT1G05790.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv05s0124g00200.t01 (Vitis vinifera), 3'ss of exon 4
------------------gtac-gtttttaattaataaaaggttacatgcctttctttaacatatctttcgtttctgagttcttttctttttgcgggtagCTTCGTTGCAGATTCCCTAACCTATATGTATATGCCTATGGACCTCTCCCATGTGTAGATTCGGATGTGGCAGAGGCATGTTCAGAATTTGTTACAAG
                   | |  ||||| |||  |     |||   | | ||| |||     ||  |     |   |   | |||  ||||   |  || |   | || ||| ||| ||  || |||| ||| |||||||  | || |||||||| ||||| | ||| ||||| ||||||||||||||||| |||||
aaatgctgtcaagattggatgctatttttcatttttcttttgtttttttcttttatttttgtcatgatgaaaatgcaatgcccttttctttttttgtcagTTGTATGGCCGATACCCAAATTTACATGTCTATTCCTATGGGACCCTTCCATGTGTGGATTCAGTTGTAGCAGATGCATGTTCAGAATTTGTCACAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catgcctttctttaacatatctttcgtttctgagttcttttctttttgcgggtagCTTCGTTGCAGATTCCCTAACCTATATGTATATGCCTATGGACCTCTCCCATGTGTAGATTCGGATGTGGCAGAGGCATGTTCAGAATTTGTTACAAG
         ctttaac  putative branch site (score: 3)
                   tctttcgtttctgagt  putative PPT
      tttctttaacatat  TA-rich tract