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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgttgggtattcatctgtaattctcggtttcatagagttttgtgatgtttttggatcttttttttgtttatgaagtttggatttttttttatttggtcagGTATTTACATAATCAATCTTGGAAAGACATGGGACAAGCTTCAGATGGCTGCTAGGGTTATTGTAGCAATCGAAAACCCAAAAGACATAATTGTTCAATC

Basic information

species Arabidopsis thaliana
transcript AT3G04770.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G04770.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GRMZM2G159237_T02 (Zea mays), 3'ss of exon 1
---tgttgggtattcatctgtaattctcggtttcatagagttttgtgatgtttttggatct--tttttttgtttatgaagtttggatttttttttatttggtcagGTATTTACATAATCAATCTTGGAAAGACATGGGACAAGCTTCAGATGGCTGCTAGGGTTATTGTAGCAATCGAAAACCCAAAAGACATAATTGTTCAATC
    | | |   ||||    ||| ||   ||| | ||   |  ||  |  || ||  | ||     |  || || || |  ||    |  |  |||| |  |||||||| ||||| || || ||||||||||| ||||||||||||||| |||| || ||||| || || || || || || ||  | ||||| || || || ||
aatggctcgtagttcagtgctaactcg-agttgctta---tgctggcaatttcttatacctaacagtagtgcttttgtatattattatcatcattatctt-tcagGTATCTACATTATTAACCTTGGAAAGACCTGGGACAAGCTTCAGTTGGCCGCCAGGGTCATCGTTGCCATTGAGAATCCGCAGGACATTATCGTGCAGTC

upper sequence: AT3G04770.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA08G17000.1 (Glycine max), 3'ss of exon 1
----------tgttgggtattcatctgtaattctcggtttcatagagttttgtgatgtttttggatcttttttttgtttatgaagtttggatttttttttatttggtcagGTATTTACATAATCAATCTTGGAAAGACATGGGACAAGCTTCAGATGGCTGCTAGGGTTATTGTAGCAATCGAAAACCCAAAAGACATAATTGTTCAATC
          |||   |   | ||    | |||    |   |  ||  |  | ||  |||| |  | ||| ||   ||| ||  ||||   |||||||         |||||||||||||||| || ||||||||||||||||| ||||||||| | ||||||||| |||| || || || || |||||| | || || || ||||| ||
tttttttttttgtaccgctgttatgaagatttcctcttgctactgaaata-gagacattttggagtttttgttgaatttttgtggtttatgttttttt---------cagGTATTTACATAATTAACCTTGGAAAGACATGGGAGAAGCTTCAGCTTGCTGCTAGGATTATAGTCGCCATTGAGAACCCACAGGATATCATCGTTCAGTC

upper sequence: AT3G04770.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA15G42150.1 (Glycine max), 3'ss of exon 1
tgttgggtattcatctgtaattctcggtttcat-agagttttgtgatgtttttg-----gatcttttttttgtttatgaagtttggatttttt---tttatttggtcagGTATTTACATAATCAATCTTGGAAAGACATGGGACAAGCTTCAGATGGCTGCTAGGGTTATTGTAGCAATCGAAAACCCAAAAGACATAATTGTTCAATC
     ||  ||    | |      || |  ||| |  ||||  |  || |  ||     || | ||||   |||| ||    ||| ||||||    ||||| |  ||||||||||||||||| || ||||| ||||||||||| ||||| ||| | ||||||||| ||||||| || || || |||||| | || || |||||||| ||
-----ggcgtttgcttttttgcaccgctaccatgaaggtttcctcttgctactgaaatagaacattttggagtttttg----ttgaatttttgtggtttatgttttcagGTATTTACATAATTAACCTTGGCAAGACATGGGAGAAGCTCCAGCTCGCTGCTAGGATTATTGTTGCCATTGAGAACCCACAGGATATCATTGTTCAGTC

upper sequence: AT3G04770.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA16G01460.1 (Glycine max), 3'ss of exon 1
-------------------------tgttgggtattcatctgtaattctcggtttcatagagt-------tttgtgatgtttttg---gatcttttttttgtttatgaagtttggatttttttttatttgg---tcagGTATTTACATAATCAATCTTGGAAAGACATGGGACAAGCTTCAGATGGCTGCTAGGGTTATTGTAGCAATCGAAAACCCAAAAGACATAATTGTTCAATC
                         | ||      || |    ||   |   |||||  |  |       | ||  ||   | |    ||    ||   | || ||    |||||  |  |||  ||||||   | ||| |||||||| || || ||||| ||||||||||| ||||||||| | || |||||||||||||| ||||| || |||||  | || || |||||||||||
gtaactgaacttttctcgttctctcttttatcatctcgttaaaaaaattaaatttcaatggatgtttgaatctgcaatagctgtaatagaggaattgaattttgatttgatttggtgtggtttggatttgggaattagGGATTTACATTATTAACCTTGGGAAGACATGGGAGAAGCTTCAGTTAGCAGCTAGGGTTATTGTTGCAATTGAGAACCCTCAGGATATCATTGTTCAATC

upper sequence: AT3G04770.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA07G04890.1 (Glycine max), 3'ss of exon 1
----------------------------------------------------tgttgggta-ttcatctgtaattctcggtttcatagagttttgtgatgttttt-------ggatcttttttttgtttatgaagtttggatttttttttatttggtcagGTATTTACATAATCAATCTTGGAAAGACATGGGACAAGCTTCAGATGGCTGCTAGGGTTATTGTAGCAATCGAAAACCCAAAAGACATAATTGTTCAATC
                                                    ||||    | || |  |   | |    ||||  | ||   | |  ||  || |       |||| |  |||||| ||       |||   | |   || |    | ||| |||||||| || || ||||| ||||| ||||| ||||||||| | || ||||||||||| || ||||| || |||||  | || || |||||||||||
gtaactaaaaccctagctcatcctctcttttcatcgatctctgacaatcgcatgttaaacaatttaaattccaatggatgtttgtttgaacct-gcaatagttgtaatagacggatttgatttttgatttgctgtgttgtgctgtggattttggaattagGGATTTACATTATTAACCTTGGGAAGACGTGGGAGAAGCTTCAGCTAGCAGCTAGGGTTATAGTTGCAATTGAGAACCCCCAGGATATCATTGTTCAATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtttttggatcttttttttgtttatgaagtttggatttttttttatttggtcagGTATTTACATAATCAATCTTGGAAAGACATGGGACAAGCTTCAGATGGCTGCTAGGGTTATTGTAGCAATCGAAAACCCAAAAGACATAATTGTTCAATC
                                    tttttttttattt  CT-rich tract
            ttttttttgtttatga  TA-rich tract