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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtgattttccgatcttcttctccgatttagatctcctctacattgttgcttaatctcagaaccttttttcgttgttcctggatctgaatgtgtttgtttgcaatttcacgatcttaaaaggttagatctcgattggtattgacgattggaatctttacgatttcagGATGTTTATTTGCGTTGTCCTCTGCAATAGAAGAGGCTACGAAGTTAGGATCAGTGATAGGGATAGATCTTGGTACTACTTACTCTTGTGTTGGTGTTTA

Basic information

species Arabidopsis thaliana
transcript AT5G28540.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G28540.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv16s0098g01580.t01 (Vitis vinifera), 3'ss of exon 1
gtgagtgattttccgatcttcttctccgatttagatctcctctacattgttgcttaatctcagaaccttttttcgttgttcctggatctgaatgtgtttgtttgcaatttcacgatcttaaaaggttagatctcgattggtattgacgattggaatctttacgatttcagGATGTTTATTTGCGTTGTCCTCTGCAATAGAAGAGGCTACGAAGTTAGGATCAGTGATAGGGATAGATCTTGGTACTACTTACTCTTGTGTTGGTGTTTA
                                                                      |||   | |   ||  |   | | | |   |  |   |||    |  ||   ||  |  ||     |   | |||| ||    |||||  || ||  ||||||||||  ||||| | ||    |||| ||| ||  | |  || || ||| |||| || || || |||||||| || |||||||||||||||||||||||
----------------------------------------------------------------------tttaactatgtttgagttaaactttatccctgagttctttaggtaagttttcagaatcaatggaattgaatgttgatgaggttaatctacactatggcagGATGTTTGGTTGCGATCTCTATCGCAAAAGAGGAATCCAACAAATTGGGAACAGTTATTGGTATTGATCTTGGAACAACTTACTCTTGTGTTGGTGTTTA

upper sequence: AT5G28540.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv02s0025g02140.t01 (Vitis vinifera), 3'ss of exon 1
gtgagtgattttccgatcttcttctccgatttagatctcctctacattgttgcttaatctcagaaccttttttcgttgttcctggatctgaatgtgtttgtttgcaatttcacgatcttaaaaggttagatctcgattggtattgacgattggaatctttacgatttcagGATGTTTATTTGCGTTGTCCTCTGCAATAGAAGAGGCTACGAAGTTAGGATCAGTGATAGGGATAGATCTTGGTACTACTTACTCTTGTGTTGGTGTTTA
                                                             |||||       |    |  |  || |||||  ||           ||  | |  ||      || || | |   |  || || |   ||  || || |   ||| |||||| | ||  |||  | |||  ||||| ||| || || || ||||| ||| | || || |||||||||||||| || || ||||| ||||||||||||||
---------------------------------------------------------agaaagaactgacaagctggatcacctgaactgaaaatg----------gttctaagtgctggctgtgtgagctttatttgagtcttaatatttccaaactgt---attgcagGATTTCTAGCTGCAATTTCCATTGCAAAAGAGGAAGCAACCAAGTTGGGAACTGTCATCGGGATAGATCTTGGAACAACCTACTCATGTGTTGGTGTTTA


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttaaaaggttagatctcgattggtattgacgattggaatctttacgatttcagGATGTTTATTTGCGTTGTCCTCTGCAATAGAAGAGGCTACGAAGTTAGGATCAGTGATAGGGATAGATCTTGGTACTACTTACTCTTGTGTTGGTGTTTA
                         tattgac  putative branch site (score: 2)
                                        tctttac  putative PPT
                                      aatcttta  TA-rich tract