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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttctcacatttggttgtatatgtttacacataactctgctctccggattgctcaatgtttggaattttctctattccttatctttcccaacacatgaaaattgccatatccagctatttaagttgagaagaattgttgcggtcttgtggtttaactttgtactcatgtcgagcctatatttcccttgtcagGGTACTTGCTGAAAAATTGAATCTGAACTATGAGGAGGCCGAGAGATGGATTGTGAACCTAATCCGCACCTCAAAGCTTGATGCCAAGATTGATTCTGAG

Basic information

species Arabidopsis thaliana
transcript AT3G57290.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G57290.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA10G16090.1 (Glycine max), 3'ss of exon 6
gtaagttctcacatttggttgtatatgtttacacataactctgctctccggattgctcaatgtttggaattttctctattccttatctttcccaacacatgaaaattgccatatccagctatttaagttgagaagaattgttgcggtcttgtggtttaactttgtactcatgtcgagcctatatttcccttgtcagGGTACTTGCTGAAAAATTGAATCTGAACTATGAGGAGGCCGAGAGATGGATTGTGAACCTAATCCGCACCTCAAAGCTTGATGCCAAGATTGATTCTGAG
                                                                                          |    |   |  | ||  |  |   |  || || | ||  |  | |     ||   |   | || ||   || |||   |     | | | || ||   || |||| || |||||||| || || ||| |||| ||||||||||| |||||||||||||| || || ||||| | |||||||||||||||||| ||||| || || 
-----------------------------------------------------------------------------------------gcttctcttgttgatatc-cggtggtctacttttcatgt--aacacaccaaatgacataccgaggatttttttagtaaaaac-caaaacttctaatt---ttttcagAGTGCTTGCTGAGAAGTTAAATTTGAATTATGAGGAGGCTGAGAGATGGATTGTTAATCTCATCCGGAGCTCAAAGCTTGATGCCAAAATTGACTCCGAA

upper sequence: AT3G57290.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA02G33770.1 (Glycine max), 3'ss of exon 6
gtaagttctcacatttggttgtatatgtttacacataactctgctctccggattgctcaatgtttggaattttctctattccttatctttcccaacacatgaaaattgccatatccagctatttaagttgagaagaattgttgcggtcttgtggtttaactttgtactcatgtcgagcctatatttcccttgtcagGGTACTTGCTGAAAAATTGAATCTGAACTATGAGGAGGCCGAGAGATGGATTGTGAACCTAATCCGCACCTCAAAGCTTGATGCCAAGATTGATTCTGAG
                                                                               | ||| ||||    |  || ||     | |  | | ||  ||    |  | | | ||  |  || ||  |||| ||  |||     |  ||     | | | || ||   || |||| || |||||||| || || ||| |||| ||||||||||| |||||||||||||| || || ||||| | |||||||||||||||||| ||||| || || 
-------------------------------------------------------------------------------tgcttctcttgttgattacctgtggtctac--ttttcatgtaacacacctaa-atgacgtactggggatttgtagt--aac-----aacca----aaacttctaatt---ttttcagAGTGCTTGCTGAGAAGTTAAATTTGAATTATGAGGAGGCTGAGAGATGGATTGTTAATCTCATCCGTAGCTCAAAGCTTGATGCCAAAATTGACTCCGAA

upper sequence: AT3G57290.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv00s0252g00070.t01 (Vitis vinifera), 3'ss of exon 6
gtaagttctcacatttggttgtatatgtttacacataactctgctctccggattgctcaatgtttggaattttctctattccttatctttcccaacacatgaaaattgccatatccagctatttaagttgagaagaattgttgcggtcttgtggtttaactttgtactcatgtcgagcctatatttcccttgtcagGGTACTTGCTGAAAAATTGAATCTGAACTATGAGGAGGCCGAGAGATGGATTGTGAACCTAATCCGCACCTCAAAGCTTGATGCCAAGATTGATTCTGAG
                                                                                                   |     || | |    |    |||| | | |  | ||| | ||  || |||||   | |||| ||| |   ||| |    | | |  |   || ||| || ||| |||| ||| ||||| |||| |||||||| || || |||||||||||||| || ||    ||||||||||||||||| || ||||||||  ||
------------------------------------------------------------------------------------------tggtgggttttggcttttcaagcagcgttaatttgattagttatgaaattttaaggccttgtt-ctcaactatgtgc---tgttgg--ttttctggcatctggcagAGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGATTGTGAATCTTATAACGACCTCAAAGCTTGATGCTAAAATTGATTCAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcggtcttgtggtttaactttgtactcatgtcgagcctatatttcccttgtcagGGTACTTGCTGAAAAATTGAATCTGAACTATGAGGAGGCCGAGAGATGGATTGTGAACCTAATCCGCACCTCAAAGCTTGATGCCAAGATTGATTCTGAG
            gtttaac  putative branch site (score: 3)
                                    cctatatttccctt  putative PPT
             tttaacttt  TA-rich tract