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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactcgtagttttgtctcatgtatttgtttttctgtttttctgttttactcatgaagatgtgggtagtttaactaatagatgacacatttttcatgcagCAAAAGGAGCTGATTCAATTGAAGCATGAGGCTAAGCTGAAGGGTGGATTTTATGTTGATCCAGAGGTTAAACTTCTATTTGTTATTCGTATCCGTGG

Basic information

species Vitis vinifera
transcript Vv09s0054g00060.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0054g00060.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S163_37V6.1 (Physcomitrella patens), 3'ss of exon 1
gtactcgtagttttgtctcatgtatttgtttttctgtttttctgttttactcat--gaagatgtgggtagtttaactaatag----atgacacatttttcatgcagCAAAAGGAGCTGATTCAATTGAAGCATGAGGCTAAGCTGAAGGGTGGATTTTATGTTGATCCAGAGGTTAAACTTCTATTTGTTATTCGTATCCGTGG
    ||   || | || |  || | |    |||  | ||   ||| || ||  |  |||    ||   | |||   |   |      | || | |||   |||||| | |||||  | |||   ||||||   ||||||||||| ||||||||||| ||||| || |||||   ||||||| | ||||| ||||| ||||||||
----tctctgtatggtgttttggagta--ctttagggttgcatgtcttgcttttcagaaatattgaacatttttttttggacttctgttacccctttcatatgcagGAGAAGGAAATTATTAGTTTGAAGAGGGAGGCTAAGCTCAAGGGTGGATTCTATGTCGAGCCAGAACCTAAACTTATGTTTGTCATTCGAATCCGTGG

upper sequence: Vv09s0054g00060.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S243_40V6.1 (Physcomitrella patens), 3'ss of exon 1
gtactcgtagttttgtctcatgtatttgtttttctgtttttctgttttactcatgaagatgtgggtagttta---actaata-gatgaca--catttttcatgcagCAAAAGGAGCTGATTCAATTGAAGCATGAGGCTAAGCTGAAGGGTGGATTTTATGTTGATCCAGAGGTTAAACTTCTATTTGTTATTCGTATCCGTGG
      |||||||| |    ||  ||  | | |   |    |  ||   ||  ||   |||  | | | |||   |||  |   || |    |||  |   ||||| |||||||  ||||  | ||||||   ||||||||||||||||||||||| ||||| || ||||||  ||| ||| | ||||| || |||||||||||
------gtagtttttttgtgtgcgttaatctgttcatacgacaattgagctgttggctatgatgtttgattatggacttctctaattatgtccatactctctgcagGAAAAGGATTTGATCAATTTGAAGAGGGAGGCTAAGCTGAAGGGTGGATTCTATGTCGAGCCAGAGCCTAAGCTTATGTTTGTCATCCGTATCCGTGG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttactcatgaagatgtgggtagtttaactaatagatgacacatttttcatgcagCAAAAGGAGCTGATTCAATTGAAGCATGAGGCTAAGCTGAAGGGTGGATTTTATGTTGATCCAGAGGTTAAACTTCTATTTGTTATTCGTATCCGTGG
                          aactaat  putative branch site (score: 2)
                                         catttttc  putative PPT
                    tagtttaactaata  TA-rich tract