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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcatttctgaacaacatttaactaacgtcccaagttggctttttccagtacaatgcagatagactttaggtttcatttcagaaaacttatgtacatgttttttgtatctcatcgttgtagGTTATGATTATGAAAACCCTGGAGCATCCTAATATCGTTAATCTCATTGAGGTGATTGATGACCCTGAGTTTGATGATTTTTACATGG

Basic information

species Arabidopsis thaliana
transcript AT3G45240.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G45240.3 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os03g50330.1 (Oryza sativa), 3'ss of exon 5
gtatcatttctgaacaacatttaactaacgtcccaagttggctttttccagtacaatgcagatagactttaggtttcatttcagaaaacttatgtacatgttttttgtatctcatcgttgtagGTTATGATTATGAAAACCCTGGAGCATCCTAATATCGTTAATCTCATTGAGGTGATTGATGACCCTGAGTTTGATGATTTTTACATGG
            || || ||  ||||    |   || || ||||  |  |  |   |  |  ||   ||||     | | |||   | || |          ||||||||    | ||   ||||    || |||||||   |||| ||||||||||| || ||||||||||| ||||||||||||||  |    ||| | || |||||||
-----------caataaaat--aactggaata--aactttgcttgcttaaagaatctctatgtactgtttaa----cgtctcaattatctgacagcatcaccttttgtat----tggtgacagGTATCCATCATGAAAATGTTGGATCATCCTAATATAGTAAATCTCATTGAAGTGATTGATGACCCAAATGCAGATAAATTCTACATGG

upper sequence: AT3G45240.3 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA12G07340.1 (Glycine max), 3'ss of exon 6
gtatcatttctgaacaacatttaacta-acgtcccaagttggctttttccag-tacaatgcagatagactttaggtttcatttcagaaaacttatgtacatgttttttgtatctcatcgttgtagGTTATGATTATGAAAACCCTGGAGCATCCTAATATCGTTAATCTCATTGAGGTGATTGATGACCCTGAGTTTGATGATTTTTACATGG
      |||   |   |   | |||||    | |  | ||   || ||| || ||   |||  || | |  || |||           || |     | |   ||||| | |||||        |||| | ||||||||||  ||||| ||||||||||| || |||||||||||||||||||||||||| |||   ||  | || |||||||
-----gtttggtatttatgataaactatgttttctgactttatttgttcgagctattgtgctaat-gtccctacgtt-----------aaatggccaatactatttttctttctca--------gGTTCTCATTATGAAAATGCTGGAACATCCTAATATAGTCAATCTCATTGAGGTGATTGATGACCCAGAGACGGACAACTTCTACATGG

upper sequence: AT3G45240.3 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA12G29640.4 (Glycine max), 3'ss of exon 4
gtatcatttctgaacaacatttaactaacgtcccaagttggctttttccagtacaatgcagatagactttaggtttcatttcagaaaacttatgtacatgttttttgtatctcatcgttgtagGTTATGATTATGAAAACCCTGGAGCATCCTAATATCGTTAATCTCATTGAGGTGATTGATGACCCTGAGTTTGATGATTTTTACATGG
                   || |  | | |    |   |    |||  |   |   |   |||   |||||   |||  | ||| |   ||||  |||         ||  | ||  ||  ||||  ||||||||||||   |||| ||||||||||| || ||||||||||||||||||||||| || ||||  ||||| || |||||||
--------------ttttgttcattttatgatttattatattgtttaactcaattttttggatgttctttactgttc-ctgcagtat-tttatagacacaa-----atacattat--tttcagGTATTGATTATGAAAATGGTGGAACATCCTAATATAGTCAATCTCATTGAGGTGATTGATGATCCAGAGTCGGATGACTTCTACATGG

upper sequence: AT3G45240.3 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA13G40190.1 (Glycine max), 3'ss of exon 6
gtatcatttctgaacaacatttaactaacgtcccaagttggctttttccagtacaatgcagatagactttaggtttcatttcagaaaacttatgtacatgttttttgtatctcatcgttgtagGTTATGATTATGAAAACCCTGGAGCATCCTAATATCGTTAATCTCATTGAGGTGATTGATGACCCTGAGTTTGATGATTTTTACATGG
        | ||  ||   | | | |   ||  ||   | | ||    || |    ||  |||   |||||    ||  | ||| |   | ||  |||         ||  | ||  ||  ||||  ||||||||||||   |||| ||||||||||| || ||||||||||||||||||||||| || ||||  ||||| || |||||||
--------tttgttcattttatgatt--tgttaca---ttgtttaactcaattttttg--gatgttctttactgatc-ctgcagtattttaatagacacaa-----atacgttat--tttcagGTATTGATTATGAAAATGGTGGAACATCCTAATATAGTCAATCTCATTGAGGTGATTGATGATCCAGAGTCGGATGACTTCTACATGG

upper sequence: AT3G45240.3 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA11G20690.1 (Glycine max), 3'ss of exon 5
-gtatcatttctgaacaacatttaactaacgtcccaagttggctttttccagtacaatgcagatagactttaggtttcatttcagaaaacttatgtacatgttttttgtatctcatcgttgtagGTTATGATTATGAAAACCCTGGAGCATCCTAATATCGTTAATCTCATTGAGGTGATTGATGACCCTGAGTTTGATGATTTTTACATGG
 ||||   |  | ||| |  |||        ||  |  ||   | |||    ||   |||  ||   | |    |   || | | ||  |  ||    || | ||||  |             |||| | ||||||||||  ||||| ||||||||||| ||  |||||||||||||||||||||||||  |||  ||| | || |||||||
ggtatgtatgataaacgatgttt--------tctgacattatttgttttagctattgtgctaatgtccctataat---atgttaaaatgccaataccaatttctttttca-------------gGTTCTCATTATGAAAATGCTGGAACATCCTAATATAGTCGATCTCATTGAGGTGATTGATGACCCACAGTCAGATAACTTCTACATGG

upper sequence: AT3G45240.3 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv06s0004g02990.t01 (Vitis vinifera), 3'ss of exon 6
gtatcatttctgaacaacatttaactaacgtcccaagttggctttttccagtacaatgcagatagactttaggtttcatttcagaaaacttatgtacatgttttttgtatctcat-cgttgtagGTTATGATTATGAAAACCCTGGAGCATCCTAATATCGTTAATCTCATTGAGGTGATTGATGACCCTGAGTTTGATGATTTTTACATGG
                   |||  ||    |     | ||  |    |   |  |||| | ||   |   | |||  |  |     |    | || ||  || ||  ||||   | ||||||||||| |||| |||||||   || | ||||| ||||| || ||||||||||||||||||||||||||       ||| | || || ||||
------------------gtttttcttcgtttattgggtgaatgacactttt-taatg-acatcatcaacaagttctaccttgatga----aggttcaatttattcatatcctttgcgttgtagGTTTTGATCATGAAAATGTTGAACCATCCAAATATAGTCAATCTCATTGAGGTGATTGATGACCCAAGCACAGATCACTTCTATATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaggtttcatttcagaaaacttatgtacatgttttttgtatctcatcgttgtagGTTATGATTATGAAAACCCTGGAGCATCCTAATATCGTTAATCTCATTGAGGTGATTGATGACCCTGAGTTTGATGATTTTTACATGG
                                         tctcatc  CT-rich tract
                                ttttttgtat  TA-rich tract