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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaaaccaaaacctatgtctgttctccacatttctttcttggttttgtatttgataattagctctgaatagacctggttttccctgtgttttctgggcgtagTTGGGTAATTTCATTCACTACATGGCAACATTTGTGTCTGGATTTGTAGTGGGTTTCACTGCTGTGTGGCAATTGGCACTTGTCACTCTTGCTGTGGTTC

Basic information

species Vitis vinifera
transcript Vv08s0007g05060.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0007g05060.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G20530.1 (Glycine max), 3'ss of exon 3
gtgaaaccaaaacctatgtctgttctcca--catttctttcttggttt-tgtatttgataattagctctgaatagacctggttttc---cctgtgttttctgggcgtagTTGGGTAATTTCATTCACTACATGGCAACATTTGTGTCTGGATTTGTAGTGGGTTTCACTGCTGTGTGGCAATTGGCACTTGTCACTCTTGCTGTGGTTC
         | |    ||| | | |  ||  |||  |   |   |||  | |   |  |  ||||   | ||||    | |||       |||  |  | || |   |||||||||||||||||||||||||||| |||||||| ||||||||||| |||||||||||||| || |||||||||||||| || || || |||||||| |
---------agagacgtgtttatccgtcagccataccacgccaagttggtatgactacttgttagtgtttaatatggttagttactgattctggttgctttgtgttcagTTGGGTAATTTCATTCACTACATGGCTACATTTGTTTCTGGATTTGTTGTGGGTTTCACTGCGGTTTGGCAATTGGCACTGGTTACCCTAGCTGTGGTCC

upper sequence: Vv08s0007g05060.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G06220.1 (Glycine max), 3'ss of exon 4
---------------------------------------------------------------------------------gtgaaaccaaaacctatgtctgttc-tccacatttctttcttggttttgtatttgata--attagctctgaatagacctggttttccctgtgttttctgggcgtagTTGGGTAATTTCATTCACTACATGGCAACATTTGTGTCTGGATTTGTAGTGGGTTTCACTGCTGTGTGGCAATTGGCACTTGTCACTCTTGCTGTGGTTC
                                                                                 |     |||| |   |||  | |   ||  |  | || |  |   || ||| ||| ||   ||||   | ||||    |  |  | |  || || ||||   | |||||||||||||||||||||||||||| |||||||| ||||| ||||| |||||||||||||| || |||||||||||||| || || ||||| |||||||
gtgatctcaaaacacgagcctttgttgttttttgcattagaataatttctcgaatttatgtagtttcattcaagagactgagctctcccaagagacatgcttatcagtcagccatactgtgctatgttggtacttggtattgttagtgtttaatatgattactgattctggt-ttctctgtttgcagTTGGGTAATTTCATTCACTACATGGCTACATTTGTTTCTGGCTTTGTTGTGGGTTTCACTGCGGTTTGGCAATTGGCACTGGTTACCCTTGCCGTGGTTC

upper sequence: Vv08s0007g05060.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA19G36820.1 (Glycine max), 3'ss of exon 3
--gtgaaaccaaaacctatgtctgttctccacatttct-ttcttggttttgtatttgataattagctctgaatagacctggttttccctgtgttttctgggcgtagTTGGGTAATTTCATTCACTACATGGCAACATTTGTGTCTGGATTTGTAGTGGGTTTCACTGCTGTGTGGCAATTGGCACTTGTCACTCTTGCTGTGGTTC
  |     |||||  | |    |    ||    ||||| ||  ||| |||| | | | |  ||   | |    |    |  ||||     || ||  || ||  ||||||| |||||||||||||||||||| || ||||| ||||| ||||| |||||||||||||||||||||||||||||  | |||||||||||||| || |
gtgcagtgccaaattcaacaagttcattctttgtttctgttactggatttggactagtttttttttttttttcatttttcatttttttgatggttcttgtgc--agTTGGGGAATTTCATTCACTACATGGCTACCTTTGTTTCTGGTTTTGTTGTGGGTTTCACTGCTGTGTGGCAATTGGCTTTGGTCACTCTTGCTGTTGTCC

upper sequence: Vv08s0007g05060.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA03G34080.1 (Glycine max), 3'ss of exon 3
--gtgaaaccaaaacctatgtctgttctccacatttctttcttggttttgtatttgataattagctctgaatagacctggttttccctgtgttttctgggcgtagTTGGGTAATTTCATTCACTACATGGCAACATTTGTGTCTGGATTTGTAGTGGGTTTCACTGCTGTGTGGCAATTGGCACTTGTCACTCTTGCTGTGGTTC
  |     |||||  | |    | | ||     |||  ||  || |  |  |||||   | ||| | |    |    |  ||||   | || ||  || ||  ||||||| |||||||||||||||||||| || ||||| ||||| ||||| |||||||||||||||||||||||||||||  | || ||||||||||| || |
gtgcagtgccaaattcaacaagt-tccttttttttttgtttctgttactagatttgg--actagtttttctcaattttcatttttt-tatggttcttgtgc--agTTGGGGAATTTCATTCACTACATGGCCACCTTTGTTTCTGGCTTTGTTGTGGGTTTCACTGCTGTGTGGCAATTGGCTTTGGTGACTCTTGCTGTTGTCC

upper sequence: Vv08s0007g05060.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT2G36910.1 (Arabidopsis thaliana), 3'ss of exon 3
gtgaaaccaaaacctatgtctgttctccacatttctttcttggttttgtatttgataattagctctgaatagacctggttttccctgtgttttctgggcgtagTTGGGTAATTTCATTCACTACATGGCAACATTTGTGTCTGGATTTGTAGTGGGTTTCACTGCTGTGTGGCAATTGGCACTTGTCACTCTTGCTGTGGTTC
                     ||      | |    ||||| || ||   |||| |  ||    || |   || ||| ||||   || |  |         || | ||||||||||| || |||||||| || ||||| ||||||||  | |||||||||||||| ||||||||| | ||  | || ||||| || |||||||
---------------------gtaagaatcttcaaattcttagtctt---tttgtttcttcttccttatctgatctgtttttttttgggaatctc------agCTTGGTAATTTCATCCATTACATGGCGACTTTTGTTTCTGGATTCATCGTGGGTTTCACTGCGGTGTGGCAACTAGCTTTAGTGACTCTCGCGGTGGTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatttgataattagctctgaatagacctggttttccctgtgttttctgggcgtagTTGGGTAATTTCATTCACTACATGGCAACATTTGTGTCTGGATTTGTAGTGGGTTTCACTGCTGTGTGGCAATTGGCACTTGTCACTCTTGCTGTGGTTC
 atttgat  putative branch site (score: 5)
                              ttttccctgtgttttc  putative PPT
      ataatta  TA-rich tract