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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttacgtgtttaaattatgtacttgataattcgttgtttttagtctctattttattaatgctcctaatatagttctctttgggctagGTTTCTTATATCTCCCAAAATTGGCCTGTTCAACATGTGGTGGCTAGCAAGGATGGGATGTACTTAGCAGTTGCTGGTCTCCATGGCTTAATCTTATACG

Basic information

species Vitis vinifera
transcript Vv15s0046g01890.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv15s0046g01890.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G475867_T01 (Zea mays), 3'ss of exon 5
-------gtta-cgtgtttaaatt--atgtacttgataattcgttgt-ttttagtctctatt--ttattaatgctcct-------aatatagttctctttgggctagGTTTCTTATATCTCCCAAAATTGGCCTGTTCAACATGTGGTGGCTAGCAAGGATGGGATGTACTTAGCAGTTGCTGGTCTCCATGGCTTAATCTTATACG
       |||| | | |||   ||  || || |||| |  |     |  |  || |||| ||  ||  | ||||   |       |||||| |  | ||||   ||| |||| || || ||||| || ||||| |||| |||||||||||| ||||| |||||||||||||| |||||||||||    || ||  || |  |||| |
gttaagtgttaacttctttgcctttgatttatttgagaggttaaaatgctgcagcctctgttgtttgatgatgcatttttatgacaatata-tattttttgaagtagATTTCATACATTTCCCAGAACTGGCCAGTTCTACATGTGGTGGCAAGCAATGATGGGATGTACTTGGCAGTTGCTGGCTCTCACGGACTAGTGCTATATG

upper sequence: Vv15s0046g01890.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G052750_T01 (Zea mays), 3'ss of exon 5
-------gttacgtgtttaaattatg---tacttgataattcgttgt-ttttagtctctatt--ttattaatgc--tcctaatatagttc----tctttgggctagGTTTCTTATATCTCCCAAAATTGGCCTGTTCAACATGTGGTGGCTAGCAAGGATGGGATGTACTTAGCAGTTGCTGGTCTCCATGGCTTAATCTTATACG
       ||||  |   |    | ||   || |||| |  |     |  |  |  |||| ||  ||  | ||||  |  ||  ||| |      | || |   ||| |||| || || ||||| || |||||  ||| |||||||||||| ||||| |||||||||||||| |||||||||||    || ||  || |  |||| |
gttaagtgttaactcccttgtctttgatttatttgagaggttaaaatgctgcaacctctgttgtttgatgatgcatttttatgataatatatatttttcgaagtagATTTCATACATTTCCCAGAACTGGCCACTTCTACATGTGGTGGCAAGCAATGATGGGATGTACTTGGCAGTTGCTGGCTCTCACGGGCTAGTGCTATATG

upper sequence: Vv15s0046g01890.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA09G39270.1 (Glycine max), 3'ss of exon 6
gttacgtgtttaaattatgtacttgataattcgttgtttttagtctctattttattaatgctcctaatatagttctctttgggctagGTTTCTTATATCTCCCAAAATTGGCCTGTTCAACATGTGGTGGCTAGCAAGGATGGGATGTACTTAGCAGTTGCTGGTCTCCATGGCTTAATCTTATACG
||||||||||| | || |  | ||||  |   ||  |||| |    ||   |   ||   || ||||  |       |||| | |||||||||||||| |||||||| |||||||||||||||||||  |||||| ||||||| ||||||||||||||||||||||| || || || || || || |
gttacgtgtttga-ttgtcaaattgaaca---gtaattttca----ctgaatggatatcccttctaaagtttaaaagtttgtg-tagGTTTCTTATATTTCCCAAAACTGGCCTGTTCAACATGTGGCAGCTAGCCAGGATGGAATGTACTTAGCAGTTGCTGGTCTTCACGGTTTGATATTGTATG

upper sequence: Vv15s0046g01890.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA18G47050.1 (Glycine max), 3'ss of exon 6
gttacgtgtttaaattatgtacttgataattcgttgtttttagtctctattttattaatgctcctaatatagttctc---tttgggctagGTTTCTTATATCTCCCAAAATTGGCCTGTTCAACATGTGGTGGCTAGCAAGGATGGGATGTACTTAGCAGTTGCTGGTCTCCATGGCTTAATCTTATACG
|||| |||||| | ||    | |||  ||  |         | |  | | |  ||  ||   |||  || ||||      |||| || ||||||||||||| |||||||| |||||||||||||||||||  |||||| ||||||| ||||||||||| ||||||||||| ||||| || || || || |
gttatgtgtttga-ttgccaaattgtgaacacagc------aattcccactgaatggatatcccttctaaagtttaaaagtttgtgc-agGTTTCTTATATTTCCCAAAACTGGCCTGTTCAACATGTGGCAGCTAGCCAGGATGGCATGTACTTAGCTGTTGCTGGTCTTCATGGTTTGATATTGTATG

upper sequence: Vv15s0046g01890.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT3G61480.1 (Arabidopsis thaliana), 3'ss of exon 6
gttacgtgtt-taaattatgtacttgataattcgttgtttttagtctctattttattaatgctcctaatatagttctctttgggctagGTTTCTTATATCTCCCAAAATTGGCCTGTTCAACATGTGGTGGCTAGCAAGGATGGGATGTACTTAGCAGTTGCTGGTCTCCATGGCTTAATCTTATACG
|||  || |  | |  |  ||  |      ||  |  ||  | || ||  ||| |   |   | || |||||  | |  |||| | |||||||||||||   ||||||||||||||||||||| ||||  |||||| |||||||||  ||||| || ||||||||| | |||||| | || || || |
gttgagtatcatcatatccgttatccccttttgctcattcatcgtatcactttgaaataaatttcttatatatattttcttggtccagGTTTCTTATATTAGCCAAAATTGGCCTGTTCAACACGTGGCAGCTAGCGAGGATGGGAAATACTTGGCGGTTGCTGGTTTACATGGCCTGATTTTGTATG

upper sequence: Vv15s0046g01890.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT5G28350.2 (Arabidopsis thaliana), 3'ss of exon 6
gttacgtgtt-taaattatgtacttgataattcgttgtttttagtctctattttatta-atgctcctaatatagttctctttgggctagGTTTCTTATATCTCCCAAAATTGGCCTGTTCAACATGTGGTGGCTAGCAAGGATGGGATGTACTTAGCAGTTGCTGGTCTCCATGGCTTAATCTTATACG
|||  || |  | |  |  ||  |      ||  |  ||  | || ||  ||||   | |   | || |||||  | |  |||| | |||||||||||||   ||||||||||||||||||||| ||||  |||||| |||||||||  ||||| ||  |||||||| | |||||| | || || || |
gttgagtatcatcatatccgttatccccttttgctcattcatcgtatcacttttgaaataaatttcttatatatgttttcttggtccagGTTTCTTATATTAGCCAAAATTGGCCTGTTCAACACGTGGCAGCTAGCGAGGATGGGAAATACTTGGCGTTTGCTGGTTTACATGGCCTGATTTTGTATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgtttttagtctctattttattaatgctcctaatatagttctctttgggctagGTTTCTTATATCTCCCAAAATTGGCCTGTTCAACATGTGGTGGCTAGCAAGGATGGGATGTACTTAGCAGTTGCTGGTCTCCATGGCTTAATCTTATACG
                             tcctaat  putative branch site (score: 2)
                                        ttctcttt  putative PPT
     ttttagtctctatttt  TA-rich tract