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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtgtaagattttatcatgattgtatgtgggaaccatatgcatgcttctgatcatgacttaagaagcaataaccctctccatatttacttattacagAGATATCAAGCCCGACAATTTACTGCTCGATAGATATGGACATATGAAATTGTCAGATTTTGGATTATGTAAACCATTGGATTGCAGTAATCTTCATGAG

Basic information

species Vitis vinifera
transcript Vv05s0049g01220.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0049g01220.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G32480.1 (Glycine max), 3'ss of exon 4
-------------------gtttgtgtaagattttatcatgattgtatgtgggaaccatatg-catgcttctgatcatg---acttaagaagcaataaccctctccatatt-tacttattacagAGATATCAAGCCCGACAATTTACTGCTCGATAGATATGGACATATGAAATTGTCAGATTTTGGATTATGTAAACCATTGGATTGCAGTAATCTTCATGAG
                     |  ||| | |   |   |   || | | |   || | ||||     ||| |  || ||   |   || |||  ||||   |||   | |  ||   ||| ||||||||||||||| |||||||| ||||| |||||| |||| || |||||||| ||||| |||||||||||||||||| |||| |||||||||||||| || 
gtaagctcaagcttcaaatagtcatgttacaccatgaaaatcttat-tatattaatcttatggtggtctttttttcttgcacatcaaaaaaggtataatattcttattttgatatgcattccagAGATATCAAGCCTGACAATTTGCTGCTAGATAGAAATGGTCACATGAAATTATCAGACTTTGGATTATGTAAACCACTGGACTGCAGTAATCTTCAGGAA

upper sequence: Vv05s0049g01220.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA20G35110.1 (Glycine max), 3'ss of exon 4
-----------------------------gtttgtgtaagattttatcatgattgtatgtgggaaccatatgcatgcttctgatcatgacttaagaagcaataaccctctccatatttacttattacagAGATATCAAGCCCGACAATTTACTGCTCGATAGATATGGACATATGAAATTGTCAGATTTTGGATTATGTAAACCATTGGATTGCAGTAATCTTCATGAG
                                  || || || ||||  | ||  ||||  ||     | | | |||   | |  |  |   ||||   ||||  |   |    || | |  ||| ||||||||||||||| ||||| || ||||| |||||| |||| || |||||||| ||||| |||||||||||||||||| | || |||||||||||||| || 
gtaagctcaagctgcaaatagtcatgttacaccatg-aaaatcttatattaatcttatggtggtcttgttttcttgcacataaaaaaaaa--aagatataatattctaattttgatatgc--attccagAGATATCAAGCCTGACAACTTGCTGCTAGATAGAAATGGTCACATGAAATTATCAGACTTTGGATTATGTAAACCACTAGACTGCAGTAATCTTCAGGAA

upper sequence: Vv05s0049g01220.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G00580.2 (Glycine max), 3'ss of exon 5
-------------------------------gtttgtgtaagattttatcatgattgtatg---tggg--aaccatatgcatgct--tctgatcatgacttaagaagcaa---taaccctctccatatttact-tattacagAGATATCAAGCCCGACAATTTACTGCTCGATAGATATGGACATATGAAATTGTCAGATTTTGGATTATGTAAACCATTGGATTGCAGTAATCTTCATGAG
                                 |  ||  | |||||   ||| || ||||    ||   ||  |||   |||    |||     ||  | || ||  |    |||   |||   | || | |  ||| ||||||||||||||| ||||| || ||||| |||||| |||| || |||||||| |||||||||||||||||||||||  | || |||||||||||||| || 
gtaagctcaaagctgtaaaaaaataacgtcaaatgatggtaaattttggtatgcttttatgacacggatcaatgatacttatggcggtcttcgtctggatcaataaatatttttaataatctgatttttaaatgcattccagAGATATCAAGCCTGACAACTTGCTGCTAGATAGAAATGGCCACATGAAATTATCAGATTTTGGATTATGTAAACCGCTAGACTGCAGTAATCTTCAAGAA

upper sequence: Vv05s0049g01220.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G00830.1 (Glycine max), 3'ss of exon 4
------------------------------gtttgtgtaagattttatcatgattgtatg---tggg--aaccata-----tgcatgcttct----gatcatgacttaagaagcaataaccctctccatatttacttattacagAGATATCAAGCCCGACAATTTACTGCTCGATAGATATGGACATATGAAATTGTCAGATTTTGGATTATGTAAACCATTGGATTGCAGTAATCTTCATGAG
                                |  ||  | |||||   ||  || ||||   |||   ||  |||     |||   |||||    |||||  ||||||    |||||| |   |   ||  | |  ||| ||||||||||||||| ||||| || ||||| |||||| |||| || |||||||| |||||||||||||||||||||||  | || |||||||| ||||| || 
gtaagctcaaagctgtaaaaaataacgtcaaatgatggtaaattttgctatacttttatgacatggatcaatgatacttattgcggtcttcttctggatcaatacttaattt-caataatctgatttttaaatgc--attccagAGATATCAAGCCTGACAACTTGCTGCTAGATAGAAATGGCCACATGAAATTATCAGATTTTGGATTATGTAAACCGCTAGACTGCAGTAACCTTCAAGAA

upper sequence: Vv05s0049g01220.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT4G14350.3 (Arabidopsis thaliana), 3'ss of exon 5
gtttgtgtaagattttatcatgattgtatgtgggaaccatatgcatgcttctgatcatgacttaagaagcaataaccctctccatatttacttattacagAGATATCAAGCCCGACAATTTACTGCTCGATAGATATGGACATATGAAATTGTCAGATTTTGGATTATGTAAACCATTGGATTGCAGTAATCTTCATGAG
              | |        | || |  ||   |  |  | ||| |  ||  | | ||       ||   |  | |   |    |  |  ||||||||||||||||| || ||| | || || || | | | || || ||||||||||||||||||||||||||||||||||| || || ||||||||||| |||
-------------gtcagtgaagcagaatatatgatttagttcta-gctccc-attgttattttgttctaaacgtctttttttct-ccaatgtgatacagAGATATCAAGCCTGATAATCTGCTACTTGACAAAGACGGCCACATGAAATTGTCAGATTTTGGATTATGTAAACCATTAGACTGTAGTAATCTTCAAGAG

upper sequence: Vv05s0049g01220.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G23310.1 (Arabidopsis thaliana), 3'ss of exon 5
gttt-gtgtaagattttatcatgattgtatgtgggaaccatatgcatgcttctgatc--atgacttaagaagcaataaccctctccatatttacttattacagAGATATCAAGCCCGACAATTTACTGCTCGATAGATATGGACATATGAAATTGTCAGATTTTGGATTATGTAAACCATTGGATTGCAGTAATCTTCATGAG
|| | ||| |  | |  |  ||    |||  |  | | | ||| |||  ||||  |    ||   | |  | | ||   | ||||||     | || |||||||||||||||||| || ||| | || ||||| |||   || || ||||| || || ||||||||||||||||| ||||| ||||| |||| ||| || || 
gtctagtgaagcaatcaactatctgagtaaatttgtagcgtat-catttttcttttttggtgttctgaccatccatttacttctcca-----atttgttacagAGATATCAAGCCTGATAATCTGCTACTCGACAGAAGCGGTCACATGAAGTTATCCGATTTTGGATTATGTAAGCCATTAGATTGTAGTATTCTCCAGGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcttctgatcatgacttaagaagcaataaccctctccatatttacttattacagAGATATCAAGCCCGACAATTTACTGCTCGATAGATATGGACATATGAAATTGTCAGATTTTGGATTATGTAAACCATTGGATTGCAGTAATCTTCATGAG
                        caataac  putative branch site (score: 2)
                                         tttactt  putative PPT
                                      atatttacttattaca  TA-rich tract