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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgtacatggcctaaagtggtttggagctcaatattttgtcttctggaactgcttgttttgactgacaatgttttttcttcagATTGTTTTTTTGGGGATAGACAACATACATGCAATGAGAGAGAGCTTTTCCCGCCTTAGGGATTATTTAGATATGCATGGTACAACATCATCCGATGGGA

Basic information

species Arabidopsis thaliana
transcript AT5G04540.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G04540.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA10G34510.1 (Glycine max), 3'ss of exon 5
gtctgtacatggcctaaagtggtttggagctcaatattttgtcttctgg----------------aactgcttgttttgactgacaatgttttttct--------tcagATTGTTTTTTTGGGGATAGACAACATACATGCAATGAGAGAGAGCTTTTCCCGCCTTAGGGATTATTTAGATATGCATGGTACAACATCATCCGATGGGA
|||||||     | | |||||||    || |     |||||| |||  |                 |||   | || | | |  | |  || ||  |        |||||| || |||||||||||||||||||| ||||| |||||||||||||||   || ||  | || ||  | || |  ||||| | ||| ||||| ||||| |
gtctgtaataaacttgaagtggtcc--agttgtgatttttgttttccagttataattataaatttgactttattttctaagtatctaaattcttattttatattatcagATAGTCTTTTTGGGGATAGACAACATCCATGCGATGAGAGAGAGCTTTGTTCGGCTCCGAGAATACATGGACACTCATGGCAGAACGTCATCAGATGGAA

upper sequence: AT5G04540.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA20G33040.1 (Glycine max), 3'ss of exon 5
gtctgtacatggcctaaagtg----gtttggagctcaatattttgtct-----tctgga----actgcttgttttgactgacaatgttttttctt--------cagATTGTTTTTTTGGGGATAGACAACATACATGCAATGAGAGAGAGCTTTTCCCGCCTTAGGGATTATTTAGATATGCATGGTACAACATCATCCGATGGGA
|||||||    || | |||||    |||  ||  |   | ||     |     | |  |    |||   | || | |||  | |  || ||  ||        ||||| || |||||||||||||||||||| ||||| |||||||||||||||   || ||  | || ||  | || |  ||||| | ||| ||||| ||||| |
gtctgtaataagcttgaagtgtccagttgtgatttttgttttccagttataattataaatttgactttattttctaactatctaaattcttattttatattatcagATAGTCTTTTTGGGGATAGACAACATCCATGCGATGAGAGAGAGCTTTGTTCGGCTCCGAGAATACATGGACACTCATGGAAGAACGTCATCAGATGGAA

upper sequence: AT5G04540.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv13s0074g00300.t01 (Vitis vinifera), 3'ss of exon 11
-------------------------------gtctgtacatggcctaaagtggtttggagctcaatattttgtcttctg--gaactgcttgttttgactgacaat---gtttttt-------cttcagATTGTTTTTTTGGGGATAGACAACATACATGCAATGAGAGAGAGCTTTTCCCGCCTTAGGGATTATTTAGATATGCATGGTACAACATCATCCGATGGGA
                                |    | |     | |  |   ||       |||  | |||  | |   |      || ||||   | | | |   |||||||       | |||||| ||||| || ||||||||||| |||||||||||||| ||||| ||| | || || ||||| || ||||| |   |||| ||  | ||||| ||||| |
gtctgtctatggtttgagctattctcctctcttgatcataaaatgtgacattccttacttgctaatgatctgttcttttatgtgtgatttatttttgataagattttcgttttttggtcattcatcagATAGTTTTCTTTGGGATAGACAATATACATGCAATGAGGGAGAGTTTTGCTCGGCTCAGGGACTACTTAGACACTTATGGCACTGCTTCATCAGATGGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaatattttgtcttctggaactgcttgttttgactgacaatgttttttcttcagATTGTTTTTTTGGGGATAGACAACATACATGCAATGAGAGAGAGCTTTTCCCGCCTTAGGGATTATTTAGATATGCATGGTACAACATCATCCGATGGGA
                                gactgac  putative branch site (score: 2)
                                         tgttttttcttc  putative PPT
                                       aatgtttttt  TA-rich tract