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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggtagaactctgacaggtgatcccatgtatagattttgaataaccctttgtacattttcataatcagtcattattactggacagGTGAAACAGTTTACAAGCCTAAAGAGACTTCAAGATCATCCTACAGAGACTGCCAAGAATTTTACGATTGATGGGCATTGTGGTACTGTTTCTTTTATTA

Basic information

species Vitis vinifera
transcript Vv13s0156g00170.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0156g00170.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os02g15870.1 (Oryza sativa), 3'ss of exon 4
--------------------------------------------------------------------gtaaggtaga-actctg---acaggtgatcccatgtatagattttgaataaccctttgtacattttcataatcagtcattattactggacagGTGAAACAGTTTACAAGCCTAAAGAGACTTCAAGATCATCCTACAGAGACTGCCAAGAATTTTACGATTGATGGGCATTGTGGTACTGTTTCTTTTATTA
                                                                    | |   |||  | | |    ||| ||| |   ||   ||   ||     | |     |||  ||||| || |    ||   ||   |  |||    |||  |||| | |  || |||||||||||||||||||  ||||||| || |||||||| | ||||||||| |||  ||| ||  |||| |||||||
gtaaggtacacctctgaaaagttcacttcccttatacattttacctttctttcttccgcctgcatctagcatcctagccattttatgtacatgtggttttattattattattatggaagctacaagtaatttttcttacttg--caaccttggggatcagCGCCAACGTTTTAAAGGTGTAGAGAGACTTCAAGATCATCCGTCAGAGACCGCAAAGAATTTCAAGATTGATGGTCATGCTGGAACAATTTCGTTTATTA

upper sequence: Vv13s0156g00170.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os02g15870.4 (Oryza sativa), 3'ss of exon 4
---------------------------------------------------------------gtaaggtaga-actctg---acaggtgatcccatgtatagattttgaataaccctttgtacattttcataatcagtcattattactggacagGTGAAACAGTTTACAAGCCTAAAGAGACTTCAAGATCATCCTACAGAGACTGCCAAGAATTTTACGATTGATGGGCATTGTGGTACTGTTTCTTTTATTA
                                                               | |   |||  | | |    ||| ||| |   ||   ||   ||     | |     |||  ||||| || |    ||   ||   |  |||    |||  |||| | |  || |||||||||||||||||||  ||||||| || |||||||| | ||||||||| |||  ||| ||  |||| |||||||
gtacacctctgaaaagttcacttcccttatacattttacctttctttcttccgcctgcatctagcatcctagccattttatgtacatgtggttttattattattattatggaagctacaagtaatttttcttacttg--caaccttggggatcagCGCCAACGTTTTAAAGGTGTAGAGAGACTTCAAGATCATCCGTCAGAGACCGCAAAGAATTTCAAGATTGATGGTCATGCTGGAACAATTTCGTTTATTA

upper sequence: Vv13s0156g00170.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os12g32230.1 (Oryza sativa), 3'ss of exon 4
-------------------------------------------------------------gtaaggtagaactctgaca--ggtgatcccat---gtatagattttgaata---accctttgtacattttcataatcagtcattattactggacagGTGAAACAGTTTACAAGCCTAAAGAGACTTCAAGATCATCCTACAGAGACTGCCAAGAATTTTACGATTGATGGGCATTGTGGTACTGTTTCTTTTATTA
                                                                |  ||| |  ||  |   |||     |||   ||||  ||||| | ||   |  ||    | | |||  | |     ||   ||   |  |||    |||  ||||   |  || | |||||||||||||||||  ||||||| || |||||||| | ||||||||| |||  ||| ||  |||| |||||||
gtaaggtacacctcggaaaagttcactttccttgtacattatacctttattttcttctgccagcatctagcatcctagccatggtatgtgcatgtggtatttatttttattatgcaagctacaaataatttatttaatttgcacccttgtggatcagCGCCAACGTTTTAACGGTGTAGAAAGACTTCAAGATCATCCGTCAGAGACGGCGAAGAATTTCAAGATTGATGGTCATGCTGGAACAATTTCGTTTATTA

upper sequence: Vv13s0156g00170.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os12g32230.2 (Oryza sativa), 3'ss of exon 4
--------------------------------------------------------gtaaggtagaactctgac--aggtgatcccatgt---atagattttgaataacc---ctttgtacattttcataatcagtcattattactggacagGTGAAACAGTTTACAAGCCTAAAGAGACTTCAAGATCATCCTACAGAGACTGCCAAGAATTTTACGATTGATGGGCATTGTGGTACTGTTTCTTTTATTA
                                                           |  ||| |  ||  |   |||     |||||   ||  ||||| | ||  |   ||    | | |||  | |     ||   ||   |  |||    |||  ||||   |  || | |||||||||||||||||  ||||||| || |||||||| | ||||||||| |||  ||| ||  |||| |||||||
gtacacctcggaaaagttcactttccttgtacattatacctttattttcttctgccagcatctagcatcctagccatggtatgtgcatgtggtatttatttttattatgcaagctacaaataatttatttaatttgcacccttgtggatcagCGCCAACGTTTTAACGGTGTAGAAAGACTTCAAGATCATCCGTCAGAGACGGCGAAGAATTTCAAGATTGATGGTCATGCTGGAACAATTTCGTTTATTA

upper sequence: Vv13s0156g00170.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G135816_T01 (Zea mays), 3'ss of exon 3
-----------------------------------------gtaaggtagaactctgacaggtgatcccatgtatagattttgaataaccctttgtacattttcataatcagt---cattattactggacagGTGAAACAGTTTACAAGCCTAAAGAGACTTCAAGATCATCCTACAGAGACTGCCAAGAATTTTACGATTGATGGGCATTGTGGTACTGTTTCTTTTATTA
                                          ||  ||  | |  || ||  | ||    || ||   || | ||||    || | | | |  | || |   |   ||||  |  ||  |||  | ||   | || | |  || |||||||||||||||| || ||||| ||||| |||||||| | ||||||||| |||  ||| ||| |||| |||||||
gtaaggtacacctgtggaaagtgcactactatattcttctgctagtgtctatccatggca--ttatgtactgaatcctttcttaatatattttggaataataacttatttcattggcattcatgttgatcagCGGCAAAGTTATAAAGGAGTAGAGAGACTTCAAGATCACCCCACAGACACTGCAAAGAATTTCAGGATTGATGGACATGTTGGCACTATTTCATTTATTA

upper sequence: Vv13s0156g00170.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G16780.1 (Glycine max), 3'ss of exon 3
gtaaggtagaactctgacaggtgatccca----tgtatagattttgaataacccttt---gtacattttcataatcagtcattattactggacagGTGAAACAGTTTACAAGCCTAAAGAGACTTCAAGATCATCCTACAGAGACTGCCAAGAATTTTACGATTGATGGGCATTGTGGTACTGTTTCTTTTATTA
||||||||||| || ||| |  || |  |    | || ||  |||  ||   |  ||   ||| |    | | || |  ||| ||||    |||| ||||||||||||||||| |||| ||| |||| ||||| |||||||| || ||||||||||| || || |||||||||   ||||   |||| ||||| |
gtaaggtagaattcggactgaagacctaacttttatacagtgtttttatgttctcttatagtagacgccctttataaa-catcattatcaaacagATGAAACAGTTTACAAGCTTAAAAAGAGTTCAGGATCACCCTACAGATACAGCCAAGAATTTCACAATAGATGGGCATGCAGGTAGAATTTCATTTATCA

upper sequence: Vv13s0156g00170.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT2G31955.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaaggtagaactctgaca--ggtgatcccatgtatagatt-ttgaataaccctttgtacattttcataatcagtc---attattactg-gacagGTGAAACAGTTTACAAGCCTAAAGAGACTTCAAGATCATCCTACAGAGACTGCCAAGAATTTTACGATTGATGGGCATTGTGGTACTGTTTCTTTTATTA
||||||||||| |||  ||  | | | ||  | |  |||||  | ||     | |||  ||||||||| ||  ||     || |||  |  |||||| ||   |||| | ||| ||||  || | |||||||| || || || || || ||||| |||||||| ||||||||||| ||| |||||||||| || |
gtaaggtagaattctctcaatgtttagccttttttgagattactcaacttttccttgagcattttcatgattggtttcagttgttatggtaacagGTCAAGAGGTTTCCGAGCATAAAACGAATGCAAGATCACCCAACTGAAACAGCTAAGAACTTTACGATCGATGGGCATTGCGGTTCTGTTTCTTTCATCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagattttgaataaccctttgtacattttcataatcagtcattattactggacagGTGAAACAGTTTACAAGCCTAAAGAGACTTCAAGATCATCCTACAGAGACTGCCAAGAATTTTACGATTGATGGGCATTGTGGTACTGTTTCTTTTATTA
        gaataac  putative branch site (score: 2)
                     tacattttcataat  TA-rich tract