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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtgctcattcctttatatgttttgacataactgttttagagagtactgataaagatttcgtaaaagttggatcttgatatctttctcactatattatgttcccagGTTTCTTCTGAAGAATGATGGGCTCTTTGTTGGAAGCTCCTCGGCTATGAACTGTGTTGGGGCAGTAAGGGTGGCTCAGACCCTTGGTCCTGGTCACACA

Basic information

species Arabidopsis thaliana
transcript AT1G55880.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G55880.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA02G46950.1 (Glycine max), 3'ss of exon 9
----------------------gtagtgctcattcctttatatgttttgacata--actgttttagagagtactgataaagatttcgtaa--aagttggatcttgatatctttctcacta--tattatgttc------ccagGTTTCTTCTGAAGAATGATGGGCTCTTTGTTGGAAGCTCCTCGGCTATGAACTGTGTTGGGGCAGTAAGGGTGGCTCAGACCCTTGGTCCTGGTCACACA
                          | ||  ||   |||| | |   ||  |     | ||||       |||   | | ||   | ||  ||||   | |    |   | | |||| |  | || | ||        |||||||||| ||||||| ||||| |||||  |||| || || || || |||||||||||||| |||||||| || || ||  |  |||| ||||||||||||
gttgttacttactcttttgtaaaccatcctacttttcttatttttagcgattttttgttcttttgtgtcaaacttgaagaaatgatgaaatgaagtgataccagactgaatgtttcaccaactgttgtttttgatgtatcagGTTTCTTTTGAAGAACGATGGTCTCTTCCTTGGGAGTTCTTCTGCAATGAACTGTGTTGGAGCAGTAAGAGTAGCGCAAGCAATTGGCCCTGGTCACACA

upper sequence: AT1G55880.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA14G01780.1 (Glycine max), 3'ss of exon 5
------------------gtagtgctcattcctttatatgttttga------cataactgttttagagagtactgataaagatttcgtaa--aagttggatcttgatatctttctcactatattatgttcc--------cagGTTTCTTCTGAAGAATGATGGGCTCTTTGTTGGAAGCTCCTCGGCTATGAACTGTGTTGGGGCAGTAAGGGTGGCTCAGACCCTTGGTCCTGGTCACACA
                  |||   |    | ||||   | |||| |        |   | ||||       ||||  | | ||   | ||  ||||     |    |   | | |||| |  |  ||||          |||||||||| ||||||| ||||| |||||  |||| || || || || |||||||||||||| ||||| || || || ||  |  ||||  |||||||||||
gttgttgcttactcttttgtaaaccatcctacttttcttatttttagcggttttttgttcttttgtgtcaaactggaagaaatgatgaaatgaagtgatgccagactgaatgtttcaccaactgttgttttggatgtatcagGTTTCTTTTGAAGAACGATGGTCTCTTCCTTGGGAGTTCTTCTGCAATGAACTGTGTTGGAGCAGTTAGAGTAGCGCAAGCAATTGGCACTGGTCACACA


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaagatttcgtaaaagttggatcttgatatctttctcactatattatgttcccagGTTTCTTCTGAAGAATGATGGGCTCTTTGTTGGAAGCTCCTCGGCTATGAACTGTGTTGGGGCAGTAAGGGTGGCTCAGACCCTTGGTCCTGGTCACACA
                                ttctcac  putative branch site (score: 2)
                                              tgttccc  putative PPT
                                       tatattatgtt  TA-rich tract