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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcatgaggttttttatgttacagtggtgatgatgttgatgggaaatattctcattctgttataacttatcaaccaaatgctgaataatgaatcaatcattggtttttctttgaatacagTAATTGGAACAGCATTTGCTTTAAACATGCTATTCAATATCCCGGTTTGGATTGGTGTTCTTCTCACAGGACTTAGTACATTGATTCTTCTAGCACTTCA

Basic information

species Arabidopsis thaliana
transcript AT1G15960.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G15960.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA13G44710.1 (Glycine max), 3'ss of exon 4
gcatgaggttttttatgttacagtggtgatga-tgttgatgggaaatattctcattctgttataacttatcaaccaaatgctgaataatgaatcaatcattggtttttctttgaatacagTAATTGGAACAGCATTTGCTTTAAACATGCTATTCAATATCCCGGTTTGGATTGGTGTTCTTCTCACAGGACTTAGTACATTGATTCTTCTAGCACTTCA
           |   | ||| |      || | | |  ||      | |   |||||| || |||||| | |   |    || |||  |||||      ||  |  || |    ||||||||||||| ||||| ||||| || |||||||| ||||| || || |||||||||||||||||||| |||||||| || |||||||| ||  ||||| | ||
----------ctaggttttaaaacaaacataactttccatttcttttttctgcattctctt-taactt-ttatttat---cttaatcttgaatt-----tttttcattgtacacatacagTAATTGGGACAGCCTTTGCATTGAACATGCTCTTCAACATACCTGTTTGGATTGGTGTTCTTCTGACAGGACTCAGCACATTGATGCTCTTAGCATTGCA

upper sequence: AT1G15960.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA15G00590.1 (Glycine max), 3'ss of exon 5
gcatgaggttttttatgttacagtggtgatgatgttgatgggaaatattctcattctgttataacttatcaaccaaatgctgaataatgaatcaatcattggtttttctttgaatacagTAATTGGAACAGCATTTGCTTTAAACATGCTATTCAATATCCCGGTTTGGATTGGTGTTCTTCTCACAGGACTTAGTACATTGATTCTTCTAGCACTTCA
         ||||||    | |    | |   | |  ||      | |   |||||| || |||||| | |   |    || |||  ||||      |||  || || |    || |||||||||| ||||| ||||| || |||||||| ||||| || || |||||||||||||||||||| |||||||| || |||||||| ||  ||||| | ||
-----ctagtttttaaaaca-aaccataac--tttccatttcttttttctgcattctctt-taacttct-atttat---cttaatcttgaa------attttttattgtacacatgcagTAATTGGGACAGCCTTTGCATTGAACATGCTCTTCAACATACCTGTTTGGATTGGTGTTCTTCTGACAGGACTCAGCACATTGATCCTCTTAGCATTACA

upper sequence: AT1G15960.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA08G23320.1 (Glycine max), 3'ss of exon 6
gcatgaggttttttatgttacagtggtgatgatgttgatgggaaatattctcattctgttataacttatcaaccaaatgctgaataatgaatcaatcattggtttttctttgaatacagTAATTGGAACAGCATTTGCTTTAAACATGCTATTCAATATCCCGGTTTGGATTGGTGTTCTTCTCACAGGACTTAGTACATTGATTCTTCTAGCACTTCA
                |  | | |    | | | |  |    |||   |    | || || |   || ||    || |  |   || |  |||  | | |   |   ||     | |||||||||| ||||| ||||| || |||||||| ||||| || || |||||||||||||||||||| ||||||   ||||||||||| ||  ||||| | ||
----------------ggcaaactatcaa-gttctaaaacacaaaccgttagttacttttttgggttttct-ttaacttttatttattttatct-tgactttctggcctgcatgtgcagTAATTGGGACAGCCTTTGCATTGAACATGCTCTTCAACATACCAGTTTGGATTGGTGTTCTTCTGACAGGATCCAGTACATTGATCCTCTTAGCATTACA

upper sequence: AT1G15960.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA07G02680.1 (Glycine max), 3'ss of exon 4
gcatgaggttttttatgttacagtggtgatgatgttgatgggaaatattctcattctgttataacttatcaaccaaatgctgaataatgaatcaatcattggtttttctt---tgaatacagTAATTGGAACAGCATTTGCTTTAAACATGCTATTCAATATCCCGGTTTGGATTGGTGTTCTTCTCACAGGACTTAGTACATTGATTCTTCTAGCACTTCA
                   ||    | |||||   | |||  |   || | |||  |||| |    |       || | ||   | ||   |  ||| |   ||| |       | || |||||||||| ||||| ||||| || |||||||| ||||| || || |||||| ||||||||||||| |||||| | ||||||||||| ||  ||||| | ||
------------------cactactg-gatgacaataatgaaagtcat-cacataatgtttttgggttctctttaacttctattttatt--tttatcttgactttctgccatgcgtatgcagTAATTGGGACAGCCTTTGCATTGAACATGCTCTTCAACATACCAGTTTGGGTTGGTGTTCTTCTGACAGGATTCAGTACATTGATCCTCTTAGCATTACA

upper sequence: AT1G15960.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv09s0070g00210.t01 (Vitis vinifera), 3'ss of exon 6
gcatgaggttttttatgttacagtggtgatgatgttgatgggaaatattctcatt-ctgtta---taacttatcaaccaaatgctgaataatgaatcaatcattggtttttctttgaatacagTAATTGGAACAGCATTTGCTTTAAACATGCTATTCAATATCCCGGTTTGGATTGGTGTTCTTCTCACAGGACTTAGTACATTGATTCTTCTAGCACTTCA
                       |  || |    |   ||     | |  |||||  | |||   | |  | |||  || ||       |   | ||     |  |  | | | |   | |||| ||||||||||| ||||| || |||||||| |||||||| || || |||  |||||||||||| ||||| |||||||||||| ||||||||||  | ||
-----------------------taatggtttcttaagtgcatcctctcttcattattattaacttgatgtgtcatgcacatttcttcaacctattctgatttctgcatgtttctttttccagTGATTGGAACAGCCTTTGCATTGAACATGCTCTTCAATATTCCTGTGTGGTGTGGTGTTCTTCTTACAGGGCTTAGTACATTGGTTCTTCTAGCTTTACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttatcaaccaaatgctgaataatgaatcaatcattggtttttctttgaatacagTAATTGGAACAGCATTTGCTTTAAACATGCTATTCAATATCCCGGTTTGGATTGGTGTTCTTCTCACAGGACTTAGTACATTGATTCTTCTAGCACTTCA
                                      tttttcttt  CT-rich tract
                  aataatgaatcaat  TA-rich tract