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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacaattgggttgtgtgtagattttttttattctatttatatatttaaattatcctcttacatgctctaataatatgattattatttttttggatagACAAACCCAGAGATAGTGAGAAGGTGGAGTAATGAAGTACAGGAAGCTGTTCAATCAAGGGCAGCACTTGTGCAATTTCATGCCCTAGCTCTCCTGCATC

Basic information

species Vitis vinifera
transcript Vv03s0063g02450.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os03g12590.1 (Oryza sativa), 3'ss of exon 5
gtacaattgggttgtgtgtagattttttttattctatttatatatttaaattatcctcttacatgctctaataatatgattattatttttttggatagACAAACCCAGAGATAGTGAGAAGGTGGAGTAATGAAGTACAGGAAGCTGTTCAATCAAGGGCAGCACTTGTGCAATTTCATGCCCTAGCTCTCCTGCATC
                 ||| | || | |  ||||||    | |   | || || || ||      || || | | |  ||||||| |        || |||| ||||| || |||| ||| ||||| || ||||| ||||||||||||||||||||    ||||||||||||||||||| ||||||||| || || |
-----------------gtacacttctatagttctatacgaaaaaaaacataattcttttcggaagtcaaaaactgtacttattatat------gcagGCAAATCCAGAAATCGTGAAAAGATGGAGCAACGAAGTGCAGGAAGCTGTTCAATCAAGATTTGCACTTGTGCAATTTCATGGCCTAGCTCTTCTTCACC

upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os07g10150.1 (Oryza sativa), 3'ss of exon 5
----gtacaattgggtt-gtgtgtagattttttttattctatttatatatttaaatt---atcctcttacatgctctaataatatgattattatttttttggatagACAAACCCAGAGATAGTGAGAAGGTGGAGTAATGAAGTACAGGAAGCTGTTCAATCAAGGGCAGCACTTGTGCAATTTCATGCCCTAGCTCTCCTGCATC
    || |||   | || || | |   ||| |   |||  || | || |   | |     |||||   | ||| | |  |  |||| ||    || || ||   ||||||  |||||  | |||| ||||||||| |||||||| ||||| ||||| || || || || || ||||| |||||||||||||| ||||| || || |
gtatgtgcaaaacgtttagtctttgcctttatgcaattgcatat-tacagccagacccaaatccttacaaatgttttgtttgtatggtt----ttattctgagcagACAAGTCCAGAAGTTGTGAAAAGGTGGAGCAATGAAGTTCAGGAGGCTGTACAGTCGAGAGCTGCTCTTGTTCAATTTCATGCCCTTGCTCTTCTTCACC

upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G012501_T03 (Zea mays), 3'ss of exon 4
gtacaattgggttgtgtgtagattttttttattctatttatatatttaaattatcctcttacatgctctaataatatgattattatttttttggatagACAAACCCAGAGATAGTGAGAAGGTGGAGTAATGAAGTACAGGAAGCTGTTCAATCAAGGGCAGCACTTGTGCAATTTCATGCCCTAGCTCTCCTGCATC
|||| |      | | | |  || | |     |||  || | ||   |  ||       |  ||  | |   | | ||  ||   | |      | || |||||||||| || |||| ||| ||||| || ||||| ||||||||||| |||||||| ||  ||||||| || ||||||| ||| ||||| || || |
gtactagcataat-tctatgcatatataccgatct-cttgttta---aggttggttaactgtatcttttgtgagtttgtctacactct------acagGCAAACCCAGAAATTGTGAAAAGATGGAGCAACGAAGTTCAGGAAGCTGTGCAATCAAGAGCTCCACTTGTCCAGTTTCATGGCCTTGCTCTTCTTCACC

upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G178618_T01 (Zea mays), 3'ss of exon 5
-------gtacaattgggttgtgtgt--agattttttttattctatttatatatttaaattatcctcttacatgctctaataatatgattattatttttttggatagACAAACCCAGAGATAGTGAGAAGGTGGAGTAATGAAGTACAGGAAGCTGTTCAATCAAGGGCAGCACTTGTGCAATTTCATGCCCTAGCTCTCCTGCATC
        | || ||   || ||||      ||   | |||| |   ||  |  |  |  |||     |   |  | |  |      ||  || | || ||||  |||| |  || ||  | || | ||| ||||| |||||||| || || ||||| || ||||| || || |||||||||||||||||||| ||||| || || |
gtatgtcctgcagttatattttgtgctccagttggatatattgttactagttggtgcagctatagatatttttattatgttttccacatgtttgtattattgg-cagACGAGTCCGGAAGTTGTAAAAAGATGGAGCAATGAAGTTCAAGAGGCTGTGCAGTCAAGAGCTGCTCTTGTGCAATTTCATGCCCTTGCTCTTCTTCACC

upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G036034_T01 (Zea mays), 3'ss of exon 5
gtacaat-tgggttgtgtgtagattttttttattctatttata--tatttaaattatcctcttacatgctctaataatatgattattatttttttggatagACAAACCCAGAGATAGTGAGAAGGTGGAGTAATGAAGTACAGGAAGCTGTTCAATCAAGGGCAGCACTTGTGCAATTTCATGCCCTAGCTCTCCTGCATC
|||     || | |     | ||| | || |      ||| |      || | || |  | |   ||| | |    || |   || ||||      |  ||||||  || ||  | || | ||| ||||| |||||||| || || ||||| || ||||| || || |||||||| ||||||||||| |||||||| || |
gtatgtcctgtgctccacttggatatattgttactagtttgtggcagctttagttcttttttattatgttttccacatgtttgtactatt------ggcagACAAGTCCGGAAGTTGTAAAAAGATGGAGCAATGAAGTTCAAGAGGCTGTGCAGTCAAGAGCTGCTCTTGTGCAGTTTCATGCCCTTGCTCTCCTTCACC

upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA12G04820.1 (Glycine max), 3'ss of exon 5
gtacaattgggttgtgtgtagattttttttattctatttata--tatttaaattatcctcttacatgctctaataatatgattattatttttttggat-agACAAACCCAGAGATAGTGAGAAGGTGGAGTAATGAAGTACAGGAAGCTGTTCAATCAAGGGCAGCACTTGTGCAATTTCATGCCCTAGCTCTCCTGCATC
                    |  ||     | ||||||| ||  |  |||  | ||  ||  | |||   |       |  ||  | |        || ||||||| || ||||| || | ||| ||||||||||| || |||||||||||||||||||||||||| |||||||||||||||||||| ||| | |||||||
--------------------gtattaacaaaatctatttgtaattccttatctcatattcc-atatgtgttgcctgcttattttatgtccccccttatcagACAAATCCCGAGATTGTAAAAAGATGGAGTAATGAGGTTCAGGAAGCTGTTCAATCAAGGGCAGCTCTTGTGCAATTTCATGCCCTGGCTTTGCTGCATC

upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G12610.2 (Glycine max), 3'ss of exon 5
gtacaattgggttgtgtgtagattttttttattctatttata--tatttaaattatcctcttacatgctctaataatatgat-tattatttttttggatagACAAACCCAGAGATAGTGAGAAGGTGGAGTAATGAAGTACAGGAAGCTGTTCAATCAAGGGCAGCACTTGTGCAATTTCATGCCCTAGCTCTCCTGCATC
                    |  || ||  | ||||||  ||  |  |||  | ||  ||  |||||   |       |  | |||        |    ||||||| || ||||| || | ||||||||| ||||| || |||||||| ||||||||||||||||| |||||||||||||||||||| ||  | ||||| |
--------------------gtattattaaaatctattggtaattccttatctcatattcc-acatgtgttgcctgcttattctatgtccccccttatcagACAAATCCTGAGATTGTAAAAAGGTGGAGCAATGAGGTTCAGGAAGCGGTTCAATCAAGGGCAGCTCTTGTGCAATTTCATGCCCTGGCATTGCTGCACC

upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA06G01520.1 (Glycine max), 3'ss of exon 5
gtacaattgggttgtgtgtagattttttttattctatttatatatttaaattatcctcttacatgctctaataatatgattattatttttttggatagACAAACCCAGAGATAGTGAGAAGGTGGAGTAATGAAGTACAGGAAGCTGTTCAATCAAGGGCAGCACTTGTGCAATTTCATGCCCTAGCTCTCCTGCATC
                      |  |  | || ||| ||   | ||  ||||  | |  || || |||  ||      ||  || ||  ||   | |||| || || || || || | ||| ||||| |||||||| |||||||||||||||||||| ||||| ||||| ||||||||||| || | | | || ||||
---------------------gtaatagtcatactaatttccttttgtaatt--ctttatatatcctcatattcatctatgcttcttgcttattacagACGAATCCTGAAATTGTAAAAAGATGGAGCAATGAAGTTCAGGAAGCTGTTCAATCAAGAGCAGCCCTTGTACAATTTCATGCACTGGGTTTGCTACATC

upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA04G01470.1 (Glycine max), 3'ss of exon 5
gtacaattgggttgtgtgtagattttttttattctatttatatatttaaattatcctcttacatgctctaat--aatatgattattatttttttggatagACAAACCCAGAGATAGTGAGAAGGTGGAGTAATGAAGTACAGGAAGCTGTTCAATCAAGGGCAGCACTTGTGCAATTTCATGCCCTAGCTCTCCTGCATC
                         |  |  |  || | || |  ||   | |||    || || |||  ||  | || | | |||  || ||   | ||||||| || || || || | ||| ||||| ||||| || |||||||||||||||||||| ||||| ||||| ||||||||||| || | | | |||||||
------------------------gtaatagtcatactaatttccttttgtaatctgtatatatcctcatattcattacgctgattgcttatt---acagACAAATCCTGAAATTGTAAAAAGATGGAGCAATGAGGTTCAGGAAGCTGTTCAATCAAGAGCAGCCCTTGTACAATTTCATGCACTGGGTTTGCTGCATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttaaattatcctcttacatgctctaataatatgattattatttttttggatagACAAACCCAGAGATAGTGAGAAGGTGGAGTAATGAAGTACAGGAAGCTGTTCAATCAAGGGCAGCACTTGTGCAATTTCATGCCCTAGCTCTCCTGCATC
                      ctctaat  putative branch site (score: 3)
                                       ttattttttt  putative PPT
               ttacatgctctaataa  TA-rich tract