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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacatctcaaaaaacattgaaatgtcccaataaattggttttatgttacggtgattaagtctttgggtttgtgtagGCTGCTGAACAAGACTATGAAAAGGAAAAGCTTAATGAGAGAATTGCTAAATTATCAGGCGGTGTTGCTGTAATTCAG

Basic information

species Arabidopsis thaliana
transcript AT5G56500.2
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G56500.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: LOC_Os06g02380.1 (Oryza sativa), 3'ss of exon 8
------------------gtacatctcaaaaaacattgaaatgtcccaataaattggttttatgttacggtgattaagtctttgggttt-----gtgtagGCTGCTGAACAAGACTATGAAAAGGAAAAGCTTAATGAGAGAATTGCTAAATTATCAGGCGGTGTTGCTGTAATTCAG
                  ||| ||   |       ||   |      || |||    |      |     |||||   | |||   | |      || ||||||| |||||||| || || ||||||||||| |||||||| ||||| ||  |  | || |||||||| || ||||||
tttctctattatgaggctgtatattgaatgtgttgtttgtacaagaaaagaaaagcatcagtcctgctcctgattgcttttttatctatccaatttgcagGCTGCCGAACAAGAATACGAGAAGGAAAAGCTCAATGAGAGGATTGCAAAGCTTGCTGGTGGTGTTGCAGTCATTCAG

upper sequence: AT5G56500.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G095252_T02 (Zea mays), 3'ss of exon 2
--------------gtacatctcaaaaaacattgaaatgtcccaataaattggttttatgttacggtgattaagtctttgggtttgtgtagGCTGCTGAACAAGACTATGAAAAGGAAAAGCTTAATGAGAGAATTGCTAAATTATCAGGCGGTGTTGCTGTAATTCAG
                   ||||      || |  | | | |   | |  ||    | ||  |   || ||   ||       || | ||||| || |||||||| ||||||||||||||||| |||||||| || || ||  |  | || ||||||||||| ||||||
gtctctgaccttttcctgttctctttgttcactcgattttactgctcaggtgaaaatctgaaagtctgcttttatcaacctaatttt-tagGCAGCAGAACAAGAATATGAAAAGGAAAAGCTCAATGAGAGGATAGCAAAGCTTGCTGGTGGTGTTGCTGTCATTCAG

upper sequence: AT5G56500.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G083716_T04 (Zea mays), 3'ss of exon 7
----gtacatctcaaaaaacattgaaatgtcccaataaattggttttatgttacggtga----ttaagtctttgggtttg---tgtagGCTGCTGAACAAGACTATGAAAAGGAAAAGCTTAATGAGAGAATTGCTAAATTATCAGGCGGTGTTGCTGTAATTCAG
    |  | | ||       |||          | |  | || |    ||  |   |||     |   | | ||    |    || |||| || |||||||| ||||||||||||||||| |||||||| || || ||  |  | |||||||||||||| ||||||
gtctgaccttttcctgttctatttgctcacttgactttactgctcaggtgaaagtctgaagctctgtttttatgaacctaatttgcagGCAGCAGAACAAGAATATGAAAAGGAAAAGCTCAATGAGAGGATAGCGAAGCTTGCTGGCGGTGTTGCTGTCATTCAG

upper sequence: AT5G56500.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA15G40110.1 (Glycine max), 3'ss of exon 7
---------------------------gtacatctcaaaaaacattgaaatgtcccaataaattggttttatgttacggtgattaagtctttgggtttgtgtagGCTGCTGAACAAGACTATGAAAAGGAAAAGCTTAATGAGAGAATTGCTAAATTATCAGGCGGTGTTGCTGTAATTCAG
                           ||||   |   | |  ||  ||| |   || |    |  |     |||      ||   ||   ||    | |  |||||||||| ||||| ||||| || |||||||| ||||||||||||||||||||||| || ||||| ||||| || |||
cacatgagtagtccaaggagaaattctgtactgatgggagagtatgtaaaagcttcatt---cttctccatggttctaacaatgtggttactgaacat-tacagGCTGCTGAGCAAGAGTATGAGAAAGAAAAGCTGAATGAGAGAATTGCTAAATTATCTGGTGGTGTGGCTGTCATACAG

upper sequence: AT5G56500.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA08G18760.2 (Glycine max), 3'ss of exon 7
--------------------------gtacatctcaaaaaacattgaaatgtcccaataaattggttttatgttacggtgattaagtctttgggtttgtgtagGCTGCTGAACAAGACTATGAAAAGGAAAAGCTTAATGAGAGAATTGCTAAATTATCAGGCGGTGTTGCTGTAATTCAG
                          |||||      | |  ||  ||| |   || |    |   | | | | ||  |||| |   |||    ||     |||||||||| ||||| ||||| || |||||||| |||||||||||||||||||| || || ||||| ||||| || |||
acattagtagacctaggagaaattctgtacagacgggagagtatgtaaaagcttcattcttctccatgt-tctaacaatgatgattacttaacattaac--agGCTGCTGAGCAAGAGTATGAGAAAGAAAAGCTGAATGAGAGAATTGCTAAATTGTCTGGTGGTGTGGCTGTGATACAG

upper sequence: AT5G56500.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv06s0004g00240.t01 (Vitis vinifera), 3'ss of exon 8
------gtacatctcaaaaaacattgaaatgtcccaa---taaattggttttatgttacggtgattaagtctt--------tgggtttgtgtagGCTGCTGAACAAGACTATGAAAAGGAAAAGCTTAATGAGAGAATTGCTAAATTATCAGGCGGTGTTGCTGTAATTCAG
       |   ||     |  || | | |    |  |   |||||  || ||   | |   |  || |   ||        || |||  |  |||| || || ||||| ||||| |||||||| |||||||| |||||||| ||||| ||||| ||||||||||| ||||||
gtatctatctgtcctctcactcactcacacacacagagagtaaatatgtgtttgctgaactttgttgatctttcttacatatgtgttgattcagGCAGCAGAGCAAGAATATGAGAAGGAAAAACTTAATGAAAGAATTGCAAAATTGTCAGGTGGTGTTGCTGTGATTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgtcccaataaattggttttatgttacggtgattaagtctttgggtttgtgtagGCTGCTGAACAAGACTATGAAAAGGAAAAGCTTAATGAGAGAATTGCTAAATTATCAGGCGGTGTTGCTGTAATTCAG
       aataaattggttttat  TA-rich tract