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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactcattttatctgttagcctaagttgatgtgccagaacttcttgattcctttttggaaaaaaggatgcttcgactttgcctgatccaatgtggatgtggatgttctatctattgcagACACTTTGCCGTATGTTCATCATTAATGCTGGTTCTGGATTCAGGCTGTTATGGAATACTGTCAAATCTTTCCTTGACCCCAAGACCACTTCAAAGATTC

Basic information

species Vitis vinifera
transcript Vv03s0038g04480.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv03s0038g04480.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA06G01270.1 (Glycine max), 3'ss of exon 5
gtactcattttatctgttagcctaagttgatgtgccagaacttcttgattcctttt--tggaaaaaaggatgcttcgact--ttgcctgatccaatgtggatgtggatgttctatctattgcagACACTTTGCCGTATGTTCATCATTAATGCTGGTTCTGGATTCAGGCTGTTATGGAATACTGTCAAATCTTTCCTTGACCCCAAGACCACTTCAAAGATTC
                                     | ||| | | |||   | |  | |  |     |  ||| || |     ||| |    |     ||     | |||| ||||   ||| ||||   ||||||||||||||| ||||||||||||||||| ||||| || ||||| ||  | || || ||||| || ||||||||||| ||||| || |
-------------------------------------gtactgccttattttatctactaggcatggaaacactttgaatggcctcctaaatttaccctaattgaacttttctttctac-acagTCACTGAACCGTATGTTCATCATCAATGCTGGTTCTGGATTTAGGCTCTTGTGGAACACCATTAAGTCATTCCTAGATCCCAAGACCACCTCAAAAATCC

upper sequence: Vv03s0038g04480.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA04G01230.1 (Glycine max), 3'ss of exon 4
gtactcattttatctgttagcctaagttgatgtgccagaacttcttgattcctttt--tggaaaaaaggatgcttcgact--ttgcctgatccaatgtggatgtggatgttctatctattgcagACACTTTGCCGTATGTTCATCATTAATGCTGGTTCTGGATTCAGGCTGTTATGGAATACTGTCAAATCTTTCCTTGACCCCAAGACCACTTCAAAGATTC
                                     | ||| | | |||   | |  | |  |     |   || || |     ||| |    |     ||     | |||| ||||   ||| ||||   ||||||||||||||| ||||||||||||||||| ||||| || |||||  |  | || || ||||| || ||||||||||| ||||| || |
-------------------------------------gtactgccttattttatctactaggcatggaaacagtttgaatggcctcctaaatttaccctaattgaacttttctttcta---cagTCACTGAACCGTATGTTCATCATCAATGCTGGTTCTGGATTTAGGCTCTTGTGGAACTCCATTAAGTCATTCCTAGATCCCAAGACCACCTCAAAAATCC

upper sequence: Vv03s0038g04480.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G12270.1 (Glycine max), 3'ss of exon 4
gtactcattttatctgttagcctaagttgatgtgccagaacttcttgattcctttttggaaaaaaggatgcttcgactttgcctgatccaatgtggatgtggatgttctatctattgcagACACTTTGCCGTATGTTCATCATTAATGCTGGTTCTGGATTCAGGCTGTTATGGAATACTGTCAAATCTTTCCTTGACCCCAAGACCACTTCAAAGATTC
                                          |  | | | ||  ||   |      ||    | |  |  | | | ||    || |         | |   | |||||| |  |   | ||||||||||||| ||||||||||||||||| ||  |||| ||||| | | | || || |||||||| || |||||||| || || || |
-----------------------------------------gtacttactactcattcacattggccatctccctagctcacattagcctgattgaac--------ttttctttttgcagTCCTTGAACAGTATGTTCATCATCAATGCTGGTTCTGGATTTAGAATGTTGTGGAACAGTATTAAGTCGTTCCTTGATCCTAAGACCACCTCCAAAATCC

upper sequence: Vv03s0038g04480.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT2G18180.1 (Arabidopsis thaliana), 3'ss of exon 5
gtactcattttatctgttagcctaagttgatgtgccagaacttcttgattcctttttggaaaaaaggatgcttcgactttgcctgatccaatgtggatgtggatgttctatctattgcagACACTTTGCCGTATGTTCATCATTAATGCTGGTTCTGGATTCAGGCTGTTATGGAATACTGTCAAATCTTTCCTTGACCCCAAGACCACTTCAAAGATTC
                   |   |  ||    |   |  |    | | ||   ||||      | | ||| |||    |  |   |     | |     |  || |   ||    | |||||  |   | | ||||| ||||| |||||||| || ||||||||| |||| ||||| || || || |||||||||||||| ||||| ||  ||||||| |
-------------------gtgcactttatattattatcatcattggtttatctttt------atgaatgattcttgctctctcaacttttttttttcatttatctgtcattggct-cagACCTTGAACAGGATGTTTATCATCAATGCTGGCTCAGGATTCAGGATGTTGTGGAACACGGTTAAGTCTTTCCTTGACCCAAAGACTACAGCAAAGATCC

upper sequence: Vv03s0038g04480.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: EFJ23906 (Selaginella moellendorffii), 3'ss of exon 4
gtactcattttatctgttagcctaagttgatgtgccagaacttcttgattcctttttggaaaaaaggatgcttcgactttgcctgatccaatg-tggatgtggatgttctatctattgcagACACTTTGCCGTATGTTCATCATTAATGCTGGTTCTGGATTCAGGCTGTTATGGAATACTGTCAAATCTTTCCTTGACCCCAAGACCACTTCAAAGATTC
                                                                    |   ||   |     |  |    || || |     |  || |   | ||||||||  |   |    | || || || ||||||||| |||||||||||||||||||||| || || ||    ||||| || ||||| || ||||| || ||  
-------------------------------------------------------------------gtaagtctgttgcctttagttttgtgctgaaaagaaacattttgattgttgcagACTTTGCACAAGCTTTTTATTATCAATGCTGGTGCTGGATTCAGGCTGTTATGGAACACAGTGAAGGGGTTCCTAGATCCCAAAACGACTTCTAAAATCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggatgcttcgactttgcctgatccaatgtggatgtggatgttctatctattgcagACACTTTGCCGTATGTTCATCATTAATGCTGGTTCTGGATTCAGGCTGTTATGGAATACTGTCAAATCTTTCCTTGACCCCAAGACCACTTCAAAGATTC
               gcctgat  putative branch site (score: 4)
                                        ttctatct  putative PPT
                                           tatctatt  TA-rich tract