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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgtgtttgttgcaactttttttaatctatcctgttaatgttagatttattggaatcacatagcctgaagtttgcagttaagttggctcaaagcttgatatgttgctacagGGTGAAAAAGAGTGCTCCTACTATGTGAAGACAGGACTTTGCAAGTTTGGTGAAACATGTAAATTCCATCATCCACAGCCAGATAGCATACAACTGTCAA

Basic information

species Vitis vinifera
transcript Vv05s0020g01650.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0020g01650.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G036837_T02 (Zea mays), 3'ss of exon 4
gtctgtgtttgttgcaactttttttaatctatcctgttaatgttagatttattggaatcacatagcctgaagtttgcagttaagttggctcaaagcttgatatgttgctacagGGTGAAAAAGAGTGCTCCTACTATGTGAAGACAGGACTTTGCAAGTTTGGTGAAACATGTAAATTCCATCATCCACAGCCAGATAGCATACAACTGTCAA
                    | |   |  | |||| | | |||    ||| ||||| |     ||  | |   ||| |   ||  |   | | |  || ||    |||   ||||||| ||||| |||||||||||| ||||||| || |  ||||||||||||   ||||||||||| ||||||||| |    | | | || |   || |  
-------------------gtatgagaattctcctatgattgt---gtttcttggattttttaagtatta---ttggaa--aaaataattgaca--ttaatgaagtgc---agGGTGAGAAAGAATGCTCCTACTATATGAAGACTGGGCAATGCAAGTTTGGTTCTACATGTAAATTTCATCATCCAGAATTTGGTGGTATTCCGGTGACCC

upper sequence: Vv05s0020g01650.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G086994_T01 (Zea mays), 3'ss of exon 4
gtctgtgtttgttgcaactttttttaatctatcctgttaatgttagatttattggaatcacatagcctgaagtttgcagttaagttggctcaaagcttgatatgttgctacagGGTGAAAAAGAGTGCTCCTACTATGTGAAGACAGGACTTTGCAAGTTTGGTGAAACATGTAAATTCCATCATCCACAGCCAGATAGCATACAACTGTCAA
                    | |   |  | |||| |  ||||  | ||  ||| ||     |   |||   || | |   || ||   | ||    ||| |||      |||||||| ||||| |||||||||||| ||||||| || |  ||||||||||||   ||||||||||| ||||||||| |    | | | || |   |  |  
-------------------gtatgagaattctcctatggatgt--gcttctttgtaacatttttaactgtttttgggaaaaaatttacattaa----tgaaatg------cagGGTGAGAAAGAATGCTCCTACTATATGAAGACTGGGCAATGCAAGTTTGGTTCTACATGTAAATTTCATCATCCAGAATTTGGTGGTATTCCGGTAACCC

upper sequence: Vv05s0020g01650.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G086994_T03 (Zea mays), 3'ss of exon 4
gtctgtgtttgttgcaactttttttaatctatcctgttaatgttagatttattggaatcacatagcctgaagtttgcagttaagttggctcaaagcttgatatgttgctacagGGTGAAAAAGAGTGCTCCTACTATGTGAAGACAGGACTTTGCAAGTTTGGTGAAACATGTAAATTCCATCATCCACAGCCAGATAGCATACAACTGTCAA
                    | |   |  | |||| |  ||||  | ||  ||| ||     |   |||   || | |   || ||   | ||    ||| |||      |||||||| ||||| |||||||||||| ||||||| || |  ||||||||||||   ||||||||||| ||||||||| |    | | | || |         
-------------------gtatgagaattctcctatggatgt--gcttctttgtaacatttttaactgtttttgggaaaaaatttacattaa----tgaaatg------cagGGTGAGAAAGAATGCTCCTACTATATGAAGACTGGGCAATGCAAGTTTGGTTCTACATGTAAATTTCATCATCCAGAATTTGGTGGTATTCCG-------

upper sequence: Vv05s0020g01650.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G069009_T01 (Zea mays), 3'ss of exon 4
gtctgtgtttgttgcaactttttttaatctatcctgttaatgttagatttattggaatcacatagcctgaagtttgcagttaagttggctcaaagcttgatatgttgctacagGGTGAAAAAGAGTGCTCCTACTATGTGAAGACAGGACTTTGCAAGTTTGGTGAAACATGTAAATTCCATCATCCACAGCCAGATAGCATACAACTGTCAA
    |||  ||||    ||  ||  |||| |    |||  ||||  || ||   | |||            |||||   || | ||     |||  |  || | ||  | ||||||||||| || || ||||| ||  |||| || |||| |||||||||||| |  ||||||||||||||||| ||| | |  | |  | |      | |  
----gtgggtgtt----ctcattgcaatccac---gtttctgtttaatcta---ggatctt----------gtttg---tttattttatgaaaaattccatgt-ttaatgcagGGTGAAAAGGAATGTTCCTATTACATGAAAACTGGACATTGCAAGTTTGGAGCTACATGTAAATTCCATCACCCAGAACTTGGTTTCCTTACGGAGACGC

upper sequence: Vv05s0020g01650.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G10230.1 (Glycine max), 3'ss of exon 4
-------------gtctgtgtttgttgcaactttttttaatctatcctgttaatgttagatttattggaatcacatagcctgaagtttgcagttaagttggct--caaagcttgatatgttgctacagGGTGAAAAAGAGTGCTCCTACTATGTGAAGACAGGACTTTGCAAGTTTGGTGAAACATGTAAATTCCATCATCCACAGCCAGATAGCATACAACTGTCAA
              | ||  |||  |   |      | |   | |  ||| ||||||   |||  |    | |||  |     | ||||   | || |||  |    |    |||||  |    ||||||||| || ||||| ||||| |||||||| |||||||  ||||||||||||| ||| ||||||||||||||||||   || | | || | ||| |  || 
gtctgtgtcacttttttgaatttacttacataaggctaagagtgttttgtgaatgttcagttttgttttctgacagtggaaagattttgatctgaatttgaatgtttataaatgata-atgataacagGGTGAGAAGGAGTGTTCCTATTATGTGAAAACAGGACAATGCAAGTTTGGTGCAACTTGTAAATTCCATCATCCAGTTCCTGCTGGCGTCCAAATTCCAG

upper sequence: Vv05s0020g01650.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G28820.1 (Glycine max), 3'ss of exon 4
------gtctgtgtttgttgcaactttttttaatctatcctgttaatgttagatttattggaatcacatagcctgaag---tttgcagttaagttggctcaaagcttg-atatgttgctacagGGTGAAAAAGAGTGCTCCTACTATGTGAAGACAGGACTTTGCAAGTTTGGTGAAACATGTAAATTCCATCATCCACAGCCAGATAGCATACAACTGTCAA
       ||  | |||||    |||   |         | || |  ||   | | | ||    |  |  | | || |    |||  |    |||| |   || | ||  | || |    ||||||||| || ||||| ||||| |||||||| |||||||  ||||||||||||| ||| ||||||||||||||||||   || | | |||| ||| |  || 
gtctgtatcactttttgtatttactacataaggctaggcatgcttttgaatgttctgttttgttttctgatcatggaaatattttgatccgagtttg---aatgtttataaatatgataacagGGTGAGAAGGAGTGTTCCTATTATGTGAAAACAGGACAATGCAAGTTTGGTGCAACTTGTAAATTCCATCATCCAGTTCCTGCTGGCATCCAAATTCCAC

upper sequence: Vv05s0020g01650.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA17G02720.2 (Glycine max), 3'ss of exon 3
gtctgtgtttgttgcaactttttttaatctatcctgttaatgttagatttattggaatcaca--tagcctgaagtttgcag-----ttaagttggctcaaagcttgatatgttgctacagGGTGAAAAAGAGTGCTCCTACTATGTGAAGACAGGACTTTGCAAGTTTGGTGAAACATGTAAATTCCATCATCCACAGCCAGATAGCATACAACTGTCAA
|||||| |  |||     || ||       ||  ||      || |   | ||||  ||||   |  ||| | | |    |     ||    |  ||  ||  ||  |   |    ||||| ||| |||||||| ||||| |||||||| || ||||  ||||||||||||| ||| ||||||||||| ||||||||||| |   || | |||     | 
gtctgtatcagtttgtgtttattgcgtaaaattatgcgtgctttgggaatgttggtgtcactcttttcctaaggatgatggaagttttgttctaacttgaattttcgtgcatgataacagGCTGAGAAAGAGTGTTCCTATTATGTGAAAACTGGACAGTGCAAGTTTGGTGCAACTTGTAAATTCCACCATCCACAGCCTGCAGGCGTCCAAGCTCTAG

upper sequence: Vv05s0020g01650.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA07G37980.1 (Glycine max), 3'ss of exon 4
gtctgtgtttgttgcaactttttttaatctatcctgttaatgttagatttattggaatcaca--tagcct---gaagtttgcagttaagtt--ggctcaaagcttgatatgttgctacagGGTGAAAAAGAGTGCTCCTACTATGTGAAGACAGGACTTTGCAAGTTTGGTGAAACATGTAAATTCCATCATCCACAGCCAGATAGCATACAACTGTCAA
|||||| |  |||     ||  |       ||  |||     ||     | ||||  ||||   |  |||   || | | | ||||  |||    ||  ||  ||  |   |    ||||||| | |||||||| ||||| || ||||| || ||||  ||||||||||||| ||| ||||||||||||||||||||||| |   || | ||| |   | 
gtctgtatcagtttgtgtttactgcgtaaaattatgtgtgctttgtgaattttggtgtcactcttttcctaacgatgatggaagttttgttcaaacttgaattttcgtgcatgataacagGGTCAGAAAGAGTGTTCCTATTACGTGAAAACTGGACAGTGCAAGTTTGGTGCAACTTGTAAATTCCATCATCCACAGCCTGCAGGCGTCCAAGTTCTAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cacatagcctgaagtttgcagttaagttggctcaaagcttgatatgttgctacagGGTGAAAAAGAGTGCTCCTACTATGTGAAGACAGGACTTTGCAAGTTTGGTGAAACATGTAAATTCCATCATCCACAGCCAGATAGCATACAACTGTCAA
                                    gcttgat  putative branch site (score: 5)
                     ttaagtt  TA-rich tract