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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgagacttgaatttttataggttccatttttttgcgcactagtttctaatagaggacatgggcttttatgtagGGAAATGGAAGAGATAACTGCATTTATAAAAGGTGCCATCTGCAATGATCAATGTTTGGGACGTTGCCTGTACATTCATGGTGTTCCTGGAACTGGCAAG

Basic information

species Vitis vinifera
transcript Vv06s0004g02050.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g02050.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os06g08790.1 (Oryza sativa), 3'ss of exon 5
gtatgtgaga-----cttg-aatttttataggttccatttttttgcgcactagtttctaatagaggacatgggcttttatgt-agGGAAATGGAAGAGATAACTGCATTTATAAAAGGTGCCATCTGCAATGATCAATGTTTGGGACGTTGCCTGTACATTCATGGTGTTCCTGGAACTGGCAAG
|||||| ||       ||| |  || | |      | || ||||||  |||  |||  | | || |        | | |||| || |||||||| |||||| |||||||| | || | ||| || ||||||||||||||| | ||||| ||||| || ||||||||||| || || |||||||||
gtatgttagtacatttttgcagcttgtttcaaccactttcttttgcaaactgcttttgagttgaag--------tctcatgtcagAGAAATGGAGGAGATATCTGCATTTGTGAAGGATGCAATTTGCAATGATCAATGTCTAGGACGCTGCCTTTATATTCATGGTGTACCAGGCACTGGCAAG

upper sequence: Vv06s0004g02050.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA13G41490.1 (Glycine max), 3'ss of exon 5
gtatgt-gagacttgaattt--ttataggttccatttttttgcgcactagtttctaatagaggacatgggcttttatgtagGGAAATGGAAGAGATAACTGCATTTATAAAAGGTGCCATCTGCAATGATCAATGTTTGGGACGTTGCCTGTACATTCATGGTGTTCCTGGAACTGGCAAG
|||||| ||   |||||  |  || ||  |    | | | |       |  || |||||    | |   |||||||| ||| |||||||| ||||||||| |||| || |||||||| || |  |||||||||||| |||| |||||||| ||||||||||||||||| ||||||||||||
gtatgttgaagtttgaacatgattttaaatattttgtatatctctctgaacttttaataatcaaaacttgcttttatttagAGAAATGGAGGAGATAACTACATTCATCAAAGGTGCTATTTCTAATGATCAATGTCTGGGGCGTTGCCTCTACATTCATGGTGTTCCGGGAACTGGCAAG

upper sequence: Vv06s0004g02050.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA15G03900.1 (Glycine max), 3'ss of exon 7
gtatgt-gagacttgaat----ttttataggttccatttttttgcgcactagtttctaatagaggacatgggcttttatgtagGGAAATGGAAGAGATAACTGCATTTATAAAAGGTGCCATCTGCAATGATCAATGTTTGGGACGTTGCCTGTACATTCATGGTGTTCCTGGAACTGGCAAG
|||||| ||   |||||     ||||| |  ||   | | | |   | ||    | |||||    | |   |||||||| ||| |||||||| |||||||||||||| || || |||||  | |   |  |||||||| ||||||||||||| ||||||||||||||||| ||||||||||||
gtatgttgaagtttgaaaatgattttaaatattttgtatatct---ctctgaagtttaataatcaaaacatgcttttatttagAGAAATGGAGGAGATAACTGCATTCATCAATGGTGCTCTTTCTGACAATCAATGTCTGGGACGTTGCCTCTACATTCATGGTGTTCCGGGAACTGGCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aggttccatttttttgcgcactagtttctaatagaggacatgggcttttatgtagGGAAATGGAAGAGATAACTGCATTTATAAAAGGTGCCATCTGCAATGATCAATGTTTGGGACGTTGCCTGTACATTCATGGTGTTCCTGGAACTGGCAAG
                         ttctaat  putative branch site (score: 2)
                                            cttttat  putative PPT
       attttttt  TA-rich tract