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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttaaccattgtactctccttgtattagaacgagtgaacggtgattaccaatgtacatcaactttttcttctgttcctcttttttgcagGTTCCTTTTGCCCGCTCATCACTGAATCATGATGATGTATTTATCTTGGACACCGAGGAAAAGATCTATCAGTTCAATGGTGCAAATTCAAACATTCAGG

Basic information

species Arabidopsis thaliana
transcript AT2G41740.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G41740.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: LOC_Os03g24220.2 (Oryza sativa), 3'ss of exon 5
gttttaaccattgtactctccttgtattagaacgagtgaacggtgattaccaatgtacatcaactttttcttctgttcctcttttttgcagGTTCCTTTTGCCCGCTCATCACTGAATCATGATGATGTATTTATCTTGGACACCGAGGAAAAGATCTATCAGTTCAATGGTGCAAATTCAAACATTCAGG
||    || |||  ||   |||  |  |   || | |         ||| |     |  | |    | |   ||     || | | | |||||||| ||||| ||||| ||| |||||||||||||||||||||||||||| || ||  | || || ||||| |||||||||||||| || || ||||| |
gtgactactatttcacctccctgtttcttagactact---------ttatctcctcatgtta----tatacactaaatgtcctatattcagGTTCCATTTGCTCGCTCGTCATTGAATCATGATGATGTATTTATCTTGGATACGGAAAAGAAAATATATCAATTCAATGGTGCAAACTCCAATATTCAAG

upper sequence: AT2G41740.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G323479_T01 (Zea mays), 3'ss of exon 10
gttttaaccattgtactctccttgtattagaacgagtgaacggtgattaccaatgtacatcaactttttctt--ctgttcctcttttttgcagGTTCCTTTTGCCCGCTCATCACTGAATCATGATGATGTATTTATCTTGGACACCGAGGAAAAGATCTATCAGTTCAATGGTGCAAATTCAAACATTCAGG
           || |      ||  |       |  |      || ||    | |||  | || |   || |     |  ||  ||    |||||||| ||||| ||||| ||  |||| ||||| ||||| |||||||||||||| ||  | ||||| ||||| ||||| || || || || ||||||||||
----------gtgcatcggtgttccacctccttgcttcctatatgtttcatcaagtatttaaagtcaatcctaatgatggcttcttcactcagGTTCCCTTTGCTCGCTCGTCGTTGAACCATGACGATGTCTTTATCTTGGACACTGAAAATAAGATATATCAATTCAACGGCGCCAACTCCAACATTCAGG

upper sequence: AT2G41740.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G081322_T01 (Zea mays), 3'ss of exon 5
gttttaaccattgtactct-ccttgtattagaacgagtgaacggtgattaccaatgtacatcaactttttcttctgttcctcttttttgcagGTTCCTTTTGCCCGCTCATCACTGAATCATGATGATGTATTTATCTTGGACACCGAGGAAAAGATCTATCAGTTCAATGGTGCAAATTCAAACATTCAGG
        ||||||  ||  ||   |  | |        |    | || | |  | ||   ||| |  |  | ||||  ||  |||   |||||||| ||| | || |||||  |||| ||||||||||| ||||||||||| || ||| | || || ||||| ||||| |||||||| || ||||| || |
-----gtgcattgtgttccaccacatcctcgcttcctgtatgtttcatcagctgtttaagccaa-tcctaatgctgt--cttctttgctcagGTTCCATTTTCTCGTTCATCGTTGAACCATGATGATGTCTTTATCTTGGATACTGAGAACAAAATATATCAATTCAACGGTGCAAACTCCAACATCCAAG

upper sequence: AT2G41740.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA03G29280.1 (Glycine max), 3'ss of exon 4
gttttaaccattgtactctccttgtat-tagaacgagtgaacggtgattaccaatgtacatcaactttttcttctgttcctcttttttgcagGTTCCTTTTGCCCGCTCATCACTGAATCATGATGATGTATTTATCTTGGACACCGAGGAAAAGATCTATCAGTTCAATGGTGCAAATTCAAACATTCAGG
        ||| ||  ||||  |  || ||           | |||   |   ||  || | ||  | |  | |      |   || |||||||||||||||| || || ||||||||||||||||||||||| ||| | |||||  || | ||||| ||||| |||||||||||||| || || || ||||
-------gcatagtgttctctattcatgtacttttcaaatgcagtgcacattcattgac-taaaaatgtgatacaaagttttccttatgcagGTTCCTTTTGCACGGTCTTCACTGAATCATGATGATGTATTCATCCTAGACACTCAGAATAAGATTTATCAATTCAATGGTGCAAACTCCAATATCCAGG

upper sequence: AT2G41740.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA19G32010.1 (Glycine max), 3'ss of exon 5
--------gttttaaccattgtactctccttgtat-tagaacgagtgaacggtgattaccaatgtacatcaactttttcttctgttcctcttttttgcagGTTCCTTTTGCCCGCTCATCACTGAATCATGATGATGTATTTATCTTGGACACCGAGGAAAAGATCTATCAGTTCAATGGTGCAAATTCAAACATTCAGG
             |  ||   |  ||||  |  || ||           | |||   |    | | | | ||  | |  | |      |   || ||||||| |||||||| || || ||| ||||||||||||||||||| ||| | |||||  || | ||||| ||||| |||||||||||||| || || || ||||
gtcagaataaaacaggcacaatgttctctattcatgtacttttcaaattcagtgcacattcgt-tgcctaaaaatgtgatacaaagttttgcttatgcagGTCCCTTTTGCACGGTCTTCATTGAATCATGATGATGTATTCATCCTAGACACTCAGAATAAGATTTATCAATTCAATGGTGCAAACTCCAATATCCAGG

upper sequence: AT2G41740.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 4
gttttaaccattgtactctccttgtattagaacgagtgaacggtgattaccaatgtacatcaactttttcttctgttcctcttttttgcagGTTCCTTTTGCCCGCTCATCACTGAATCATGATGATGTATTTATCTTGGACACCGAGGAAAAGATCTATCAGTTCAATGGTGCAAATTCAAACATTCAGG
         | | || |||||    ||       |        | |    || ||| |  || ||  | |  |||    |   || ||||||| || ||||| || || ||||| ||||| |||||||| |||||| ||||||| ||  | || || ||||||||||||||||||||||| || || ||||
-------gtagtatattctcccaacatgtatttcatgatctaatcacgttcactgtgctgcagctggt-cacctgcattttggttgtgcagGTCCCCTTTGCTCGGTCTTCACTAAATCACGATGATGTGTTTATCCTGGACACAGAAAATAAAATTTATCAGTTCAATGGTGCAAATTCCAATATCCAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaacggtgattaccaatgtacatcaactttttcttctgttcctcttttttgcagGTTCCTTTTGCCCGCTCATCACTGAATCATGATGATGTATTTATCTTGGACACCGAGGAAAAGATCTATCAGTTCAATGGTGCAAATTCAAACATTCAGG
                     catcaactttttcttc  CT-rich tract
                         aacttttt  TA-rich tract