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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
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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