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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatagaaaatatatatctgttgcatgcatgttaatccagtatgcaccttaattgttccttgacttttggatctctgtggcttcttctgcagAGAATAACTGTTAATGAAGCTCTAAAGCATGATTGGTTCCGCGAAGTCCCTCTGCCAAAATCCAAAGATTTCATGCCTACTTTTCCTGCTCAACATGCCC

Basic information

species Arabidopsis thaliana
transcript AT1G67580.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G67580.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os04g41100.6 (Oryza sativa), 3'ss of exon 6
gtaatagaaaatatatatctgttg---catgcatgttaatccagtatgcaccttaattgttccttgacttttggatctctgtggcttcttctgcagAGAATAACTGTTAATGAAGCTCTAAAGCATGATTGGTTCCGCGAAGTCCCTCTGCCAAAATCCAAAGATTTCATGCCTACTTTTCCTGCTCAACATGCCC
|||||     |    ||| | ||    |||| || |  |||  | || ||  || |   | | |  |  |  | |   ||||     ||| | ||| |  || | |   |||  ||| |  ||||||| |||||||| ||||| ||||| || ||||| || ||||||||||| || || ||||||| | |||   
gtaatgtgctactgctattttttttttcatg-atttatatcatgcattcatatttaa-atacttcaatctgagcacacctgttttggctt-tacagCGGTTATCAGCAGATGCTGCTTTGCAGCATGAGTGGTTCCGTGAAGTTCCTCTACCTAAATCAAAGGATTTCATGCCAACATTCCCTGCTCTAAATGAAT

upper sequence: AT1G67580.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA08G10810.1 (Glycine max), 3'ss of exon 4
gtaatagaaaatatatatctgttgcatgcatgttaatccagtatgcaccttaattgttccttgacttttggatctctgtggcttcttctgcagAGAATAACTGTTAATGAAGCTCTAAAGCATGATTGGTTCCGCGAAGTCCCTCTGCCAAAATCCAAAGATTTCATGCCTACTTTTCCTGCTCAACATGCCC
       |||   || ||  | | |||| ||  ||||   |||   |   || ||||      | |  || |   |  |    | || ||||| | || ||||   | || |||||||| ||||| |||||||| ||||| ||||| || |||   ||||| ||||||||||| ||||||||||||||||| |
-----gtaaaggttacatgagctacatgaat--taatttggtaacaaa--tatttgtctgaatattaatgtaagacc-tactattttatgcagCGGATCACTGCCGAAGATGCTCTAAATCATGAGTGGTTCCGTGAAGTTCCTCTCCCCAAAAGTAAAGAATTCATGCCTACATTTCCTGCTCAACATGCTC

upper sequence: AT1G67580.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA05G27820.1 (Glycine max), 3'ss of exon 7
gtaatagaaaatatatatctgttgcatgcatgttaatccagtatgcaccttaattgttccttgacttttggatctctgtggct-tcttctgcagAGAATAACTGTTAATGAAGCTCTAAAGCATGATTGGTTCCGCGAAGTCCCTCTGCCAAAATCCAAAGATTTCATGCCTACTTTTCCTGCTCAACATGCCC
       |||   || ||  | | |||| ||  ||||   |||   |  |  ||| || ||  |  ||   ||        || | || ||||| | || ||||   | |  |||||||| ||||| ||||| || ||||| ||||| || |||   ||||| ||||||||||| ||||||||||||||||| |
-----gtaaaggctacatgagctacatgaat--taatttggtaaataaat--att-tttctgaatattaatataagacctactattttatgcagCGGATCACTGCCGAAGCTGCTCTAAATCATGAGTGGTTTCGTGAAGTTCCTCTCCCCAAAAGTAAAGAATTCATGCCTACATTTCCTGCTCAACATGCTC

upper sequence: AT1G67580.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA11G37270.1 (Glycine max), 3'ss of exon 4
gtaatagaaaatatatatctgttgcatgcatgtta-atccagtatgcaccttaattgttccttgacttttggatct-ctgtggcttct-tctgcagAGAATAACTGTTAATGAAGCTCTAAAGCATGATTGGTTCCGCGAAGTCCCTCTGCCAAAATCCAAAGATTTCATGCCTACTTTTCCTGCTCAACATGCCC
    || | |||| ||| |  |||  |  || |   |   ||||      || | |||| | | |   |  ||||   | |   |  | |   ||| | || || | | | ||||||||||| ||||| ||||| || ||||| || || || || || ||||| || |||||||| || |||||||||||||| |
---gtaaacaatacataccacttgacttaatttagtaaatagtaatttgtttcagtgtttcataagaatatgatcagttatcattaatatacacagCGGATCACAGCTGAAGAAGCTCTAAACCATGAGTGGTTTCGTGAAGTTCCCCTTCCGAAGTCTAAAGAATTTATGCCTACATTCCCTGCTCAACATGCTC

upper sequence: AT1G67580.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA18G01230.1 (Glycine max), 3'ss of exon 7
gtaatagaaaatatatatctgttgcatgcatgtta-atccagtatgcaccttaattgttccttgacttt-tggatctctgtggcttct-tctgcagAGAATAACTGTTAATGAAGCTCTAAAGCATGATTGGTTCCGCGAAGTCCCTCTGCCAAAATCCAAAGATTTCATGCCTACTTTTCCTGCTCAACATGCCC
    || | |||  ||| |  |||  |  || |   |   ||||      || | ||||  || |   | ||      | |   |  | |   ||| | || || | | | ||||||||||| ||||| ||||| || ||||| || || || || || ||||| || |||||||| || |||||||||||||| |
---gtaaataattcataccacttgacttaatttagtaaatagtaattggtttcagtgtttattaagaatatgagctgttatcattaatatacacagCGGATCACGGCTGAAGAAGCTCTAAACCATGAGTGGTTTCGTGAAGTTCCCCTTCCGAAGTCTAAAGAATTTATGCCTACATTCCCTGCTCAACATGCTC

upper sequence: AT1G67580.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv01s0010g02550.t01 (Vitis vinifera), 3'ss of exon 4
--------gtaatagaaaatatatatctgttgc------atgcatgttaatccagtatgcaccttaattgttccttgacttttggatctctgtggcttcttctgcagAGAATAACTGTTAATGAAGCTCTAAAGCATGATTGGTTCCGCGAAGTCCCTCTGCCAAAATCCAAAGATTTCATGCCTACTTTTCCTGCTCAACATGCCC
         || |  || || ||||  ||||        |||  |  |  || ||  ||    |||  |  |  |     ||  |  || | ||  ||||  | ||||| || || | | | |  ||||| || |||||||||||||||||||| ||||| || ||||| ||||||||||||||||||||||||||||| |||||||
gtgattttttagttcaacatctataaatgttttgaggaaatgttttgttttctaggttggtatttagataatgttgtttattatggcctttatg--ttctattacagAGGATTACAGCTGAAGCTGCTCTTAACCATGATTGGTTCCGCGAAGTTCCTCTTCCCAAATCTAAAGATTTCATGCCTACTTTTCCTGCTCAGCATGCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagtatgcaccttaattgttccttgacttttggatctctgtggcttcttctgcagAGAATAACTGTTAATGAAGCTCTAAAGCATGATTGGTTCCGCGAAGTCCCTCTGCCAAAATCCAAAGATTTCATGCCTACTTTTCCTGCTCAACATGCCC
                    ccttgac  putative branch site (score: 4)
                                           cttcttctgc  putative PPT
           ttaattgtt  TA-rich tract