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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtttagtgtgcagtaacttggtctatggctttgtaaacttactatactgtatatactttactcaggttctctggatcatttcttttctgaaatggtgaaacctgacagtttcaatgacggtgtagGTAAATTGCATTGTCTTTGACAAGACAGGAACTCTCACGATGGGGAAGCCCGTTGTTGTGAAAACAAAGCTCCTGAAAAACATGGTACTTCGAGAGTTCT

Basic information

species Arabidopsis thaliana
transcript AT1G63440.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G63440.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv02s0025g03640.t01 (Vitis vinifera), 3'ss of exon 2
gttagtttagtgtgcagtaacttggtctatggctttgtaaacttactatactgtatatactttactcaggttctctggatcatttcttttctgaaatggtgaa----acctgacagtttcaatgacggtgtagGTAAATTGCATTGTCTTTGACAAGACAGGAACTCTCACGATGGGGAAGCCCGTTGTTGTGAAAACAAAGCTCCTGAAAAACATGGTACTTCGAGAGTTCT
                               |   ||  |  |  |||| | | |||| |      || |  | | |  || |  |||||  | |    ||||    | ||   ||||      |   ||||||| ||||||||||| |||||||||||||| || |||||  | |||||||| || ||||| || |||| |||| ||||||| |||| ||| | ||| ||||
-----------------------------cagaagtgccagtt--ctat-cagaatattcaaacagcaagcac-cagtgtcttgcctttttaggacctttgaacacaatcttgaagttgattatattttgtagGTGAATTGCATTGTGTTTGACAAGACAGGGACCCTCACAGTTGGGAAGCCGGTAGTTGTTAACACAAGGCTCTTGAAAAATATGGCACTCCAAGAATTCT

upper sequence: AT1G63440.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv02s0025g03630.t01 (Vitis vinifera), 3'ss of exon 9
gttagtttagtgtgcagtaacttggtctatggctttgtaaacttactatactgtatatactttactcaggttctctggatcatttcttttctgaaat---ggtgaaacctgacagtttcaatgacggtgtagGTAAATTGCATTGTCTTTGACAAGACAGGAACTCTCACGATGGGGAAGCCCGTTGTTGTGAAAACAAAGCTCCTGAAAAACATGGTACTTCGAGAGTTCT
                             | |  || |      || | | | |  | ||   |  ||      |||  |    | ||||  ||  |     |  || ||    ||||   |||   || |||| ||||||||||| |||||||||||||| || |||||  | |||||||| || ||||| || |||| ||||  |||||| |||||||| | ||| ||||
-----------------------------tagaattattgttccaccagaatattcaaacagcaagcaaaa---ctgtgttgccttttttaggacctttgaatataatcttgaggtttatttgattttgcagGTGAATTGCATTGTGTTTGACAAGACAGGGACCCTCACAGTTGGGAAGCCTGTAGTTGTTAACACAAGGCTCTGGAAAAATATGGTACTCCAAGAATTCT

upper sequence: AT1G63440.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv02s0025g03630.t01 (Vitis vinifera), 3'ss of exon 3
gttagtttagtgtgcagtaacttggtctatggctttgtaaacttacta-tactgtatatactttactcaggttctctggatcattt--cttttctgaaatggtgaa----acctgacagtttcaatgacggtgtagGTAAATTGCATTGTCTTTGACAAGACAGGAACTCTCACGATGGGGAAGCCCGTTGTTGTGAAAACAAAGCTCCTGAAAAACATGGTACTTCGAGAGTTCT
                                  ||||||  | | || | |||   | | |||| |||     |  |  |  |||  | ||  ||   |    ||    | ||   || |    |||   |||||||  ||||||| || |||||||||||||| || |||||  | |||||||| || ||||| |  |||| |||| |||||||||||||||||| ||| ||||
----------------------------------ttgtaa--taagtactgctgccaacagtttattcaaacaataagactggttttgccttgttggtgtatcaaagataatcttggagctgatttgatcttgtagGTGGATTGCATCGTGTTTGACAAGACAGGTACCCTCACTGTTGGGAAGCCAGTAGTTGTTAGCACAAGGCTCTTGAAAAACATGGTACTTCAAGAATTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctggatcatttcttttctgaaatggtgaaacctgacagtttcaatgacggtgtagGTAAATTGCATTGTCTTTGACAAGACAGGAACTCTCACGATGGGGAAGCCCGTTGTTGTGAAAACAAAGCTCCTGAAAAACATGGTACTTCGAGAGTTCT
                             acctgac  putative branch site (score: 3)
       atttctttt  TA-rich tract