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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgctataactgagctgtctcatggaaactcctgcaaaattttgataaaatctttctgatgaaagtactcttgtgtagGTGTGTTGGGGAAGTAAGGCAACTTGCAGCTGGTGGTGGTCATTCGGCTGTCTTGACTGATGCTTGTTCCTTGAAAGAGTTGTGTGAATTTAGGCTTGCA

Basic information

species Vitis vinifera
transcript Vv14s0083g01020.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0083g01020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os03g40260.1 (Oryza sativa), 3'ss of exon 7
-------------------------------gtat-gctataactga-gctgtctcatggaaactcctgcaaaattttgataa-----aatctttctgatgaaagtactctt-------gtgtagGTGTGTTGGGGAAGTAAGGCAACTTGCAGCTGGTGGTGGTCATTCGGCTGTCTTGACTGATGCTTGTTCCTTGAAAGAGTTGTGTGAATTTAGGCTTGCA
                               |||| |||||   ||    |   | |  | |    ||   || |||  | |      |||| |     | ||  |  ||||        | |||||||||||| || ||||||  |||||| || |||||||| ||||| ||||| || |||||||| |||||  | |||||  ||||||| || | ||| |||
gtatgactctcagagtaatattctttcatctgtattgctatttttggtagttaattacagtatgaactttgaactttgcacatttcgcaatcctcagtcttaacctgttctttttaataatatagGTGTGTTGGAGAGGTAAGGAGACTTGCTGCAGGTGGTGGCCATTCAGCTGTTTTAACTGATGCATGTTCTCTAAAAGAACTGTGTGAGTTCAAGCTAGCA

upper sequence: Vv14s0083g01020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G074024_T02 (Zea mays), 3'ss of exon 7
----------------------------------------------gtatgctataactgagctgtctcatggaaac-tcctgcaaaattttgataaaatc---tttctgatgaa-agtactcttgtgtagGTGTGTTGGGGAAGTAAGGCAACTTGCAGCTGGTGGTGGTCATTCGGCTGTCTTGACTGATGCTTGTTCCTTGAAAGAGTTGTGTGAATTTAGGCTTGCA
                                              ||| |      |||      ||| ||  ||| |  ||     | ||   |        |   |||  |  | | ||||  |||||||||||||| ||||| || | ||| || ||||| ||||| ||||| |||||  |||||||||| |||||  |||||||| |||| ||||| | ||| |||
gtaggttttgtagtagcacaatcttgtttcttttgatgggctgaatgtaggactcttctggtgctgctcttgctaacattgtgaggtttgtttgcagcgctaggtccttgactatcatttctctgatgtagGTGTGTTGGTGAAGTGAGACGACTCGCCGCTGGAGGTGGCCATTCTGCTGTTCTGACTGATGCATGTTCGCTGAAAGAGCTGTGCGAATTCAAGCTCGCA

upper sequence: Vv14s0083g01020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA08G27700.1 (Glycine max), 3'ss of exon 7
gtatgctataactgagctgtctcatggaaactcctgcaaaattttgataaaatctttctgatgaaagtactcttgtgtagGTGTGTTGGGGAAGTAAGGCAACTTGCAGCTGGTGGTGGTCATTCGGCTGTCTTGACTGATGCTTGTTCCTTGAAAGAGTTGTGTGAATTTAGGCTTGCA
||||| ||| | | |     || |  || ||| || |   ||       |    ||| || | ||  | ||       |||||||||||||| || ||| |||| || ||||||||||| ||||| ||||| |||||||| |||||||| || || ||||| ||||| |||   ||||||
gtatg-tattagtaa-----cttaaagagacttcttcttgatcacat--aggcttttatgttaaagtttctaaatcacagGTGTGTTGGGGAGGTTAGGAAACTAGCTGCTGGTGGTGGCCATTCAGCTGTGTTGACTGACGCTTGTTCGTTAAAGGAGTTATGTGAGTTTGTACTTGCA

upper sequence: Vv14s0083g01020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA18G50920.1 (Glycine max), 3'ss of exon 6
gtatgctataactgagctgtctcatggaaactcctgcaaaattttgataaaatctttctgatgaaagtactcttgtgtagGTGTGTTGGGGAAGTAAGGCAACTTGCAGCTGGTGGTGGTCATTCGGCTGTCTTGACTGATGCTTGTTCCTTGAAAGAGTTGTGTGAATTTAGGCTTGCA-
      |||   | || |  ||    |  ||| || |   ||            ||| || | ||  ||||       |||||||||||||| ||  || |||| || ||||||||||||||||| ||||| ||||||||||||| ||| || || ||||| || || |||   |||||| 
------tatgtattag-taacttgaagtgacttcttcttgatcacat--gggcttttatgttaaagttactaaatcacaggTGTGTTGGGGAGGTTCGGAAACTAGCTGCTGGTGGTGGTCATTCAGCTGTGTTGACTGATGCTTATTCATTAAAGGAGTTATGCGAGTTTGTACTTGCAG

upper sequence: Vv14s0083g01020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT3G02300.1 (Arabidopsis thaliana), 3'ss of exon 7
------------------------------------gtatgctataactgagctgtctcatggaaactcctgcaaaattttgataaaatctttctgatgaaagtactcttgtgtagGTGTGTTGGGGAAGTAAGGCAACTTGCAGCTGGTGGTGGTCATTCGGCTGTCTTGACTGATGCTTGTTCCTTGAAAGAGTTGTGTGAATTTAGGCTTGCA
                                    |    | | ||| |    |  | |  || | |   | |   ||  | || | |       |     ||  | | ||  |||||||| ||  |||| ||| | || ||||| || ||||||||||| ||||| || || ||||| | ||| ||||| |||||||||||||||    | |||
gtatagctcaaacaagtttgtattgtttattcaattgctaaccaaaacggtatgggat-acagagattgtggtatttttcagttagattaacatgaactctggtgtt-tcgttcagGTGTGTAGGACAAGTGAGGAAGCTAGCAGCAGGAGGTGGTCATTCAGCTGTTTTAACCGATGCATTTTCGTTGAAGGAGTTGTGTGAATTTCAATTAGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggaaactcctgcaaaattttgataaaatctttctgatgaaagtactcttgtgtagGTGTGTTGGGGAAGTAAGGCAACTTGCAGCTGGTGGTGGTCATTCGGCTGTCTTGACTGATGCTTGTTCCTTGAAAGAGTTGTGTGAATTTAGGCTTGCA
                              ttctgat  putative branch site (score: 3)
                                          tactctt  putative PPT
            aaaattttgataaaat  TA-rich tract