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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgttgttacttgaggcatgagacttgatacaaacatcacccatttgaccaaattaaatggatcctgtatttcagGATGCTTTGAGGAACATATTGATTGTGTTTGCAAAGTTGAATCCGGGTATAAGATATGTGCAAGGGATGAATGAAATTTTGGCGCCTCTATTCTATGTAT

Basic information

species Vitis vinifera
transcript Vv05s0029g01350.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0029g01350.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os04g30880.1 (Oryza sativa), 3'ss of exon 5
----gtatgtgttgttacttgaggcatgaga----cttgatacaaacatcacccattt-gaccaaattaaatggatcctgtatttcagGATGCTTTGAGGAACATATTGATTGTGTTTGCAAAGTTGAATCCGGGTATAAGATATGTGCAAGGGATGAATGAAATTTTGGCGCCTCTATTCTATGTAT
    | || | || |    |  |     ||      |||        |    ||| || | | ||||   ||  ||  |    |||||||  |  | | |   ||| | |   | |||||||| || |||||||||||||||||||| ||||| ||||||||| ||||||| || || | |||||| |
gtaagcatttattatctgatatgatgccagttctttttgtcttttgtaatgtccagttaggctaaatgtgatatatgtttgtcttcagGAGTCGCTAAAGCGTATACTTACCATATTTGCAAAATTAAATCCGGGTATAAGATATGTACAAGGAATGAATGAAGTTTTGGCACCACTCTACTATGTTT

upper sequence: Vv05s0029g01350.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os11g28990.1 (Oryza sativa), 3'ss of exon 5
---------gtatgtgttgttacttgaggcatgagacttga-tacaaacatcacccatttg-accaaattaaatggatcctgtatttcagGATGCTTTGAGGAACATATTGATTGTGTTTGCAAAGTTGAATCCGGGTATAAGATATGTGCAAGGGATGAATGAAATTTTGGCGCCTCTATTCTATGTAT
            ||  |||  | |       |     |  | |||||  |     |||||| || |||||      |  |   |||||||||  || | |||    |  | ||| | ||  |||| || |||||    ||||||||||||||||||||||||||| ||||||| ||||| || ||||| |
gtttcacttcagtgccttggaattccttatttccatttaaactacaagtaattgtcatttggactaaatttttcaaacac---atttcagGAATCTCTAAGGCGTGTTCTCATTATCTTCTCAAAATTAAATCCTACCATAAGATATGTGCAAGGGATGAATGAAGTTTTGGCACCTCTTTTTTATGTGT

upper sequence: Vv05s0029g01350.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g68010.3 (Oryza sativa), 3'ss of exon 5
gtatgtgttgttacttgaggcatgagacttgatacaaacatcacccatttgaccaaattaa--atggatcctgtatttcagGATGCTTTGAGGAACATATTGATTGTGTTTGCAAAGTTGAATCCGGGTATAAGATATGTGCAAGGGATGAATGAAATTTTGGCGCCTCTATTCTATGTAT
         || |  |     ||   | |  | ||| |  ||  |      |||  | | |  || | || |   |  |||||  || |||  || ||| ||||| | ||||||||| ||||| | || ||| | ||||| ||||||||||||||||||||||| ||||| |||| ||| |
---------gtgaactccactatctaagtctaaacagagttctgctcagaaacctgactgatcataggtcatccttaccagGAATCTCTGAAAAATATACTGATTATCTTTGCAAAGCTGAATGCCGGAATACGTTATGTACAAGGGATGAATGAAATTTTGGCACCTCTCTTCTTTGTGT

upper sequence: Vv05s0029g01350.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G122935_T01 (Zea mays), 3'ss of exon 5
gtatgtgtt-gttacttgaggcatgagacttgatacaaacatcacccatttgaccaaattaaatggatcctgtatttcagGATGCTTTGAGGAACATATTGATTGTGTTTGCAAAGTTGAATCCGGGTATAAGATATGTGCAAGGGATGAATGAAATTTTGGCGCCTCTATTCTATGTAT
|| ||| ||   |  ||   |  |  |   |||||| ||    ||| || ||||   ||||        |  |||  |||||  | |||||||  || || ||| | ||| |||| ||||| ||  ||||||||||||||||||||||||||||| ||||||| ||| |||| |||||||
gtttgtattcagtgtttacagtgttcgtactgataccaattgtaccaatatgacttgattattctctgaccctat--cagGAATCCTTGAGGAGAATTTTAATTATATTTTCAAAATTGAACCCCAGTATAAGATATGTGCAAGGGATGAATGAAGTTTTGGCACCTTTATTTTATGTAT

upper sequence: Vv05s0029g01350.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G022308_T02 (Zea mays), 3'ss of exon 6
----gtatgtgttgttacttgaggca------tgagacttgatacaaacatcacccatttgaccaaattaaatggatcctgtatttcagGATGCTTTGAGGAACATATTGATTGTGTTTGCAAAGTTGAATCCGGGTATAAGATATGTGCAAGGGATGAATGAAATTTTGGCGCCTCTATTCTATGTAT
    || |||    | || || |         |     |||  |  |||||    || ||   | |||  |||   |  ||| ||  ||||  |  | | |   ||| | |   | |||||||| ||||||||||||||||||||||| ||||| ||||||||  ||||||| ||||| |  ||||| |
gtaggtgtgttccctgacatgggatcactttttttttgttgtcagtaacattgttcagtttttctaatgcaatatgttttgt-ttctagGAGTCACTAAAGCGTATACTTACAATATTTGCAAAATTGAATCCGGGTATAAGATATGTACAAGGAATGAATGAGGTTTTGGCACCTCTCTATTATGTTT

upper sequence: Vv05s0029g01350.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G068392_T02 (Zea mays), 3'ss of exon 5
--gtatgtgttgttacttgaggcatgagacttgatacaaacatcacccatttgaccaaattaaatggatcctgtattt--cagGATGCTTTGAGGAACATATTGATTGTGTTTGCAAAGTTGAATCCGGGTATAAGATATGTGCAAGGGATGAATGAAATTTTGGCGCCTCTATTCTATGTAT
    || |      |||    |    |    || |   |  ||| ||  | ||| |   |||  |   |  | |  |   |||||  ||||||  ||  || || |  | ||||| ||| ||||| | || ||||||||||| ||||||||||||||| ||||||| || || |||| |||||
gtaaatctccacgcactctgagttcaaacagtgttgtcag-atc-cctgtctgatctt-ttacctttttattattctcaccagGAATCTTTGAAAAATGTACTGTTAATCTTTGCCAAGCTGAATGCTGGAATAAGATATGTACAAGGGATGAATGAAGTTTTGGCACCCCTCTTCTTTGTAT

upper sequence: Vv05s0029g01350.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G11760.1 (Glycine max), 3'ss of exon 5
---------------------------gtatgtgttgttacttgaggcatgagacttgatacaaacatcacccatttgaccaaattaaatggatcctgtatttcagGATGCTTTGAGGAACATATTGATTGTGTTTGCAAAGTTGAATCCGGGTATAAGATATGTGCAAGGGATGAATGAAATTTTGGCGCCTCTATTCTATGTAT
                            ||     |   | || | |  |    |||||   || | |     | ||      |||    ||      | |||||||| ||||||| ||| ||||| ||| | ||||||||||| || |||||| |||||||||||||||| |||||||| || ||||| ||||||||||| || |
gtttttcctttatttgtcttgaaatttatacaaactccaagttcaagtctttttcttgagtgaacccttgattaattattactatttttcgggggggat-tttcagGAGGCTTTGAAGAATATATTAATTATTTTTGCAAAGTTAAACCCGGGTGTAAGATATGTGCAAGGAATGAATGAGATATTGGCTCCTCTATTCTACGTGT

upper sequence: Vv05s0029g01350.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA18G00430.2 (Glycine max), 3'ss of exon 5
---------gtatgtgttgttacttgagg---catga-gacttgatacaaacatcacccatttgaccaaattaaatggatcctgtatttcagGATGCTTTGAGGAACATATTGATTGTGTTTGCAAAGTTGAATCCGGGTATAAGATATGTGCAAGGGATGAATGAAATTTTGGCGCCTCTATTCTATGTAT
          ||| | || ||| ||  |    ||||   ||| | | |         ||||||   |   | || |    |   | || ||||| ||||| | || |||||| ||||| ||||||||||||||  |||||||||||||| | ||||||||||||||| | ||||| ||||| |||||||| |
gttcttcctctatttatttttattttcgaattcatgccaactcggtcctttttcttgccattttgactt-tcaacttttccggattttgcagGAGGCTTTAAAGACCATATTAATTGTTTTTGCAAAGTTGAACTCGGGTATAAGATATTTTCAAGGGATGAATGAAGTATTGGCTCCTCTCTTCTATGTGT

upper sequence: Vv05s0029g01350.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G36520.1 (Glycine max), 3'ss of exon 5
---------------gtatgtgttgttacttgaggcatga-gacttgatacaaacatcacccatttgaccaaattaaatggatcctgtatttcagGATGCTTTGAGGAACATATTGATTGTGTTTGCAAAGTTGAATCCGGGTATAAGATATGTGCAAGGGATGAATGAAATTTTGGCGCCTCTATTCTATGTAT
                |   | || ||     |  |||    |||  || |         ||||||   |   | || |    |   | |||||||| ||||| | || |||||| ||| | ||||||||||||||  | |||||||||||||| ||||||||||||||| | ||||| ||||| |||||||| |
gttcttcctctattttttaattttattttcaaattcataccaactcaatcctttttcttgccattttgactt-tcaacttttccggatttttcagGAGGCTTTAAAGACCATATTAATTATTTTTGCAAAGTTGAACTCAGGTATAAGATATGTTCAAGGGATGAATGAAGTATTGGCTCCTCTCTTCTATGTGT

upper sequence: Vv05s0029g01350.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G28660.1 (Glycine max), 3'ss of exon 5
-----------------gtatgtgttgttacttgaggcatgagacttgatacaaacatcacccatttgaccaaat-taaatggatcctgta---------tttcagGATGCTTTGAGGAACATATTGATTGTGTTTGCAAAGTTGAATCCGGGTATAAGATATGTGCAAGGGATGAATGAAATTTTGGCGCCTCTATTCTATGTAT
                   ||   |    |||  |      || |||  | |   ||| | || |||||   | | | | |   |   |           |||||||| ||||||| ||| ||||| ||| | ||||||||||| || || ||  ||  |||||||||||| |||||||| || ||||| |||||||||||||| |
gtcctttatttgtcttgaaattcatccaaactccaaattcaagtctt--ttctgccatgaaccctttgatttattattactatttttcgcgggggggcattttcagGAGGCTTTGAAGAATATATTAATTATTTTTGCAAAGTTAAACCCAGGCGTACAATATGTGCAAGGAATGAATGAGATATTGGCTCCTCTATTCTATGTGT

upper sequence: Vv05s0029g01350.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT4G13730.2 (Arabidopsis thaliana), 3'ss of exon 5
----------gtatgtgttgttacttgaggcatgagacttgatacaaacatca------------cccatttgaccaaattaaatggatcctgtat-ttcagGATGCTTTGAGGAACATATTGATTGTGTTTGCAAAGTTGAATCCGGGTATAAGATATGTGCAAGGGATGAATGAAATTTTGGCGCCTCTATTCTATGTAT
          |  | || | |   || | || |  |   ||||  ||||||||                | |   |   ||| |    |  || || |  |||||||||||| |||||| |||| | | || |||||||||||||| || || |||||||| |||||||||||||| || ||||| ||| | |||||  | |
gttgggtgttggttttgctatagtttaaagcctttgggatgattaaaacatcagtatactgatagtttttcttgtctttttatacatgttttgcatgtctagGATGCTTTGAAGAACATTTTGACTATTTTCGCAAAGTTGAATCCTGGCATCAGATATGTACAAGGGATGAATGAGATATTGGCACCTATTTTCTACATCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agacttgatacaaacatcacccatttgaccaaattaaatggatcctgtatttcagGATGCTTTGAGGAACATATTGATTGTGTTTGCAAAGTTGAATCCGGGTATAAGATATGTGCAAGGGATGAATGAAATTTTGGCGCCTCTATTCTATGTAT
                      atttgac  putative branch site (score: 4)
                              aaattaaat  TA-rich tract