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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aagctgatttgggtttatcgattgtctcattcctctggcttcacttagtttctagttgagagtttttcatttgactctttcgttgtacatattcttgcagACTCAAGGACGTGAATCTATTGCAGCCAAGCTTGTGGCCAATTTGATTACACAGTCTGGTGCAGACCGTGTCCTTGCTTGTGATCTTCACTCCGGACAGT

Basic information

species Arabidopsis thaliana
transcript AT2G44530.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G44530.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: LOC_Os02g03540.1 (Oryza sativa), 3'ss of exon 3
--aagctgat-ttgggtttatcgatt-gtctcattcctctggcttcacttagtttctagttgagagtttttcatttgactctttcgttgtacatattcttgcagACTCAAGGACGTGAATCTATTGCAGCCAAGCTTGTGGCCAATTTGATTACACAGTCTGGTGCAGACCGTGTCCTTGCTTGTGATCTTCACTCCGGACAGT
  ||  |  | | |   || || ||| ||   |  | | ||   |  |  ||      |   ||  | |   |  | ||     | ||         ||| ||| ||||||| ||||||||||| || || || ||||| || ||| |||||||| |  |||||||  ||||||||||||  ||||||||||| ||| | ||  
agaatatattgtcgaagttctcaatttgttgaagacttgtgttatggcacagcactctggctagcatgtcaaaactaacaaaagcatttcctg----ctttcagTCTCAAGGCCGTGAATCTATAGCTGCAAAACTTGTAGCTAATATGATTACAGAAGCTGGTGCGAACCGTGTCCTTGTATGTGATCTTCATTCCAGTCAAG

upper sequence: AT2G44530.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA07G12660.1 (Glycine max), 3'ss of exon 3
aagctgatttgggtttatcgattgtctcattcctc-tggcttcacttagtttctagttgagagtttttcatttgactctttcgttgtacatattcttgcagACTCAAGGACGTGAATCTATTGCAGCCAAGCTTGTGGCCAATTTGATTACACAGTCTGGTGCAGACCGTGTCCTTGCTTGTGATCTTCACTCCGGACAGT
  |||         || ||     |    ||| |  |    | |   | |      |  | | |   | | || | || ||   |  |  || | ||||||||||||||||||||||| ||||| ||||||||||| || ||||| |||||| |  | |||||| | ||||| ||||||||||| || || || || ||||
-tgctataaaaaagttgtcacaactaaggttcatgattaacttaaaaaatccaacatccaaattcagtaagtttaatcattatcttcatctactgttgcagACTCAAGGACGTGAATCCATTGCTGCCAAGCTTGTCGCAAATTTAATTACAGAAGCAGGTGCAAATCGTGTACTTGCTTGTGACCTCCATTCTGGGCAGT

upper sequence: AT2G44530.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA03G24280.2 (Glycine max), 3'ss of exon 3
----aagctgatttgggtttatcgattgtc-tcattcctctggcttcacttagtttctagttgagagtttttcatttgactctttcgttgtacatattcttgcagACTCAAGGACGTGAATCTATTGCAGCCAAGCTTGTGGCCAATTTGATTACACAGTCTGGTGCAGACCGTGTCCTTGCTTGTGATCTTCACTCCGGACAGT
     ||   | |||     |   |   || | |||    |    |  |  |  | | | || ||     || | || | || ||   || |  || | || ||||| |||||||||||||| ||||| ||||||||||| || ||||| |||||| |  | |||||| | ||||| ||||||||||| || || || || ||||
gctatagaaaaattgtcacaactaaggttcattatttacttaaaatatccaacatccaaattaag-----ttgagtttaatcattatctgcatctactgtttcagACCCAAGGACGTGAATCCATTGCTGCCAAGCTTGTAGCAAATTTAATTACAGAAGCAGGTGCAAATCGTGTACTTGCTTGTGACCTCCATTCTGGGCAGT

upper sequence: AT2G44530.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: EFJ12994 (Selaginella moellendorffii), 3'ss of exon 2
aagctgatttgggtttatcgattgtctcattcctctggcttcacttagtttcta-gttgagagtttttcatttgactctttcgttgtacatattcttgcagACTCAAGGACGTGAATCTATTGCAGCCAAGCTTGTGGCCAATTTGATTACACAGTCTGGTGCAGACCGTGTCCTTGCTTGTGATCTTCACTCCGGACAGT
                                             ||||  ||  | |     |||||| ||  |      ||| ||      | || |||||||||||||||||||| |||||||| |||||||| || ||| |  | ||| |  | |||||  ||||||| ||||| || ||  | ||||| || ||| 
--------------------------------------------gtagtcactgtgatccagctttttctttcaatctacacgtcgtgtgatgtttttcagACTCAAGGACGTGAATCGATTGCAGCAAAGCTTGTAGCAAATCTTTTGACAGAAGCCGGTGCGAACCGTGTTCTTGCATGCGACTTACACTCGGGGCAGG

upper sequence: AT2G44530.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: EFJ14005 (Selaginella moellendorffii), 3'ss of exon 2
aagctgatttgggtttatcgattgtctcattcctctggcttcacttagtttcta-gttgagagtttttcatttgactctttcgttgtacatattcttgcagACTCAAGGACGTGAATCTATTGCAGCCAAGCTTGTGGCCAATTTGATTACACAGTCTGGTGCAGACCGTGTCCTTGCTTGTGATCTTCACTCCGGACAGT
                                             ||||  ||  | |     |||||| ||  |      ||| ||      | || |||||||||||||||||||| |||||||| |||||||| || ||| |  | ||| |  | |||||  ||||||| ||||| || ||  | ||||| || ||| 
--------------------------------------------gtagtcactgtgatccagctttttctttcaatctacacgtcgtgtgatgtttttcagACTCAAGGACGTGAATCGATTGCAGCAAAGCTTGTTGCAAATCTTTTGACAGAAGCCGGTGCGAACCGTGTTCTTGCATGCGACTTACACTCGGGGCAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagtttctagttgagagtttttcatttgactctttcgttgtacatattcttgcagACTCAAGGACGTGAATCTATTGCAGCCAAGCTTGTGGCCAATTTGATTACACAGTCTGGTGCAGACCGTGTCCTTGCTTGTGATCTTCACTCCGGACAGT
                       atttgac  putative branch site (score: 4)
                                            tattctt  putative PPT
                 tttttcattt  TA-rich tract