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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcccagattaagtttttgattcaaattttcgtcctttttaatttttgtttacttactatttccttatgttcccctttttatgctggtctagaaattctttttccacttaatatatgtatctcatgtggctgtgacagATATGATAAGTTCTGCCCCTTCTACAAGTCGGTTTGGATGATGCGCAATATTATCCATTTCTATAATTTGGCCAATCAG

Basic information

species Vitis vinifera
transcript Vv09s0054g00890.t01
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0054g00890.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: LOC_Os06g45120.1 (Oryza sativa), 3'ss of exon 16
gtaagtcccagattaagtttttgattcaaattttcgtcctttttaatttt-tgtttacttactatttccttatgttcccctttttatgctggtctagaaattctttttccacttaatatatgtatctcatgtggctgtgacagATATGATAAGTTCTGCCCCTTCTACAAGTCGGTTTGGATGATGCGCAATATTATCCATTTCTATAATTTGGCCAATCAG
                     ||| ||| |   | ||  ||| | ||||  |    | ||| |  ||      ||  |  |||| ||| |    ||   ||| | |||   || |  || | ||| | |||        |||||||||| |||||||| || ||||||||||| ||||||||||||||||| ||||| |||||| |||  || || ||||||
--------------------gtgagtcataccctagttttttctgatttaatacagatttattggtt------gtctctattttaatgat----taaccattttctttagtctgatcatctctatataatgaa------acagATATGACAAGTTCTGTCCATTCTACAAGTCTGTTTGGATGATGCGCAACATTATTCATTTCAATACATTAGCAAATCAG

upper sequence: Vv09s0054g00890.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: LOC_Os06g45120.2 (Oryza sativa), 3'ss of exon 16
gtaagtcccagattaagtttttgattcaaattttcgtcctttttaatttt-tgtttacttactatttccttatgttcccctttttatgctggtctagaaattctttttccacttaatatatgtatctcatgtggctgtgacagATATGATAAGTTCTGCCCCTTCTACAAGTCGGTTTGGATGATGCGCAATATTATCCATTTCTATAATTTGGCCAATCAG---------------------
                     ||| ||| |   | ||  ||| | ||||  |    | ||| |  ||      ||  |  |||| ||| |    ||   ||| | |||   || |  || | ||| | |||        |||||||||| |||||||| || ||||||||||| ||||||||||||||||| ||||| |||||| |||  || || ||||||                     
--------------------gtgagtcataccctagttttttctgatttaatacagatttattggtt------gtctctattttaatgat----taaccattttctttagtctgatcatctctatataatgaa------acagATATGACAAGTTCTGTCCATTCTACAAGTCTGTTTGGATGATGCGCAACATTATTCATTTCAATACATTAGCAAATCAGGTAAATCTAACGTGTTTTTAC

upper sequence: Vv09s0054g00890.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: LOC_Os02g07870.1 (Oryza sativa), 3'ss of exon 16
gtaagtcccagattaagtttttgattcaaattttcgtcctttttaatttttgtttacttactatttccttatgttcccctttttatgctggtctagaaattctttttccacttaatatatgtatctcatgtggctgtgacagATATGATAAGTTCTGCCCCTTCTACAAGTCGGTTTGGATGATGCGCAATATTATCCATTTCTATAATTTGGCCAATCAG
                                                      |   |  ||   || | || |     |  ||  ||| | |   ||| | | ||  |  ||||  ||  ||    | ||  ||  |||||||||||||||  ||||| |||||||| || ||||||||||||||||| ||||| |||||| | |  ||||| |  |||
-----------------------------------------------------gtgagtgttaaacccatttgatagttctactaacctg-tgtcataatccatatt--aactaattgatcaattctgt-tgcatgaaacagATATGATAAGTATTGCCCATTCTACAAATCTGTTTGGATGATGCGCAACATTATTCATTTCAACACATTGGCAACCCAG

upper sequence: Vv09s0054g00890.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GRMZM2G128877_T03 (Zea mays), 3'ss of exon 13
gtaagtcccagattaagtttttgattcaaattttcgtcctttttaatttttgtttacttactatttccttatgttcccctttttatgctggtctagaaattctttttccacttaatatatgtatctcatgtggctgtgacagATATGATAAGTTCTGCCCCTTCTACAAGTCGGTTTGGATGATGCGCAATATTATCCATTTCTATAATTTGGCCAATCAG
     | | |||  ||       | ||||  ||| |    ||  ||||||    |||| | ||||||   || ||    |||  ||  |  |||   || | || ||     ||||||                      |||||||||||||||||||| |||||||| || ||||||||||||||||||||||| || ||| | |  ||||| ||||||
----atactagaccaaa------aatcaagattttgggtgttacaattttc---tactca-tatttctccattttattttttaaataat--tctgacaagtgttgtt-----taatat---------------------tagATATGATAAGTTCTGCCCATTCTACAAATCCGTTTGGATGATGCGCAATATTATTCACTTCAACACATTGGCAAATCAG

upper sequence: Vv09s0054g00890.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GRMZM2G421857_T02 (Zea mays), 3'ss of exon 16
gtaagtcccagattaagtttttgattcaaattttcgtcctttttaatttttgtttacttactatttccttatgttcccctttttatgctggtctagaaattctttttccacttaatatatgtatctcatgtggctgtgacagATATGATAAGTTCTGCCCCTTCTACAAGTCGGTTTGGATGATGCGCAATATTATCCATTTCTATAATTTGGCCAATCAG
                                         |        |  ||| ||         | ||| ||   ||| |    |    |  || |  |||||     | | |  ||       | |   | | | |||||||||||||||||||| |||||||| || ||||||||||||||||| ||||| || ||| | |  ||||| ||||||
----------------------------------------gtgagtcccctacttatttcaacacatttgatgctcatttttctccattatattttaagtatttttt-----tgacaagtgc----tgtttaattat-atagATATGATAAGTTCTGCCCATTCTACAAATCCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG

upper sequence: Vv09s0054g00890.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA08G23990.1 (Glycine max), 3'ss of exon 17
gtaagtcccagattaagtttttgattcaaattttcgtcctttttaatttttgtttacttactatttccttatgttcccctttttatgctggtctagaaattctttttccacttaatatatgtatctc---atgtggctgtgacagATATGATAAGTTCTGCCCCTTCTACAAGTCGGTTTGGATGATGCGCAATATTATCCATTTCTATAATTTGGCCAATCAG
                                                 |     || |  || ||  |||  |||     | | |  |    ||    || | |||   |||| | |  ||| ||     ||||||||||| |||||||| || |||||||||||||||||||| ||||||||||||||||| |||||||||||||| |||||||| ||||||
------------------------------------------------gtaagggaccttgtaattggttaacttctttaatatgtattatattattgtttttatttgttctta-tgttggtacctttttgtgtggctgtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACATTATCCATTTCTACAATTTGGCAAATCAG

upper sequence: Vv09s0054g00890.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA07G00430.1 (Glycine max), 3'ss of exon 17
gtaagtcccagattaagtttttgattcaaattttcgtcctttttaatttttgtttacttactatttccttatgttcccctttttatgctggtctagaaattctttttccacttaatatatgtatctcatgtggctgtgacagATATGATAAGTTCTGCCCCTTCTACAAGTCGGTTTGGATGATGCGCAATATTATCCATTTCTATAATTTGGCCAATCAG
                                                      ||    |  ||    |  |||  | | ||||   |    || |  || || |     |   |   |   |    ||||||||||| ||||||||||| || ||||||||||||||||| ||||||||||||||||| |||||||||||||| |||||||| ||||||
-----------------------------------------------------gtaagggcccttgtaattggttaacttctttaacatttattata--ttattgtgttcttatgttggtaccttctgtgtggctgtgatagATATGATAAATTTTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACATTATCCATTTCTACAATTTGGCAAATCAG

upper sequence: Vv09s0054g00890.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: AT1G78900.2 (Arabidopsis thaliana), 3'ss of exon 17
gtaagtcccagattaagtttttgattcaaattttcgtcctttttaatttttgtttacttactatttccttatgttcccctttttatgctggtctagaaattctttttccacttaatatatgtatctcatgtggctgtgacagATATGATAAGTTCTGCCCCTTCTACAAGTCGGTTTGGATGATGCGCAATATTATCCATTTCTATAATTTGGCCAATCAG
                        |   | || | | |    ||  |||| ||||| | ||| | || ||        || | |   | |||     | |   | ||  || |  |  ||| || |        | |||||||||||| || ||||| || ||||||||||| || ||||||||||| || |||||||||||||| ||  | ||||| |||
-----------------------gtaagatttgttggctcccttcgttttggtttagt-actctctcttt--------ctctctcaacgggtt----attcactcttgaaccttttggatgaattt--------tttgacagATATGACAAATTCTGTCCTTTCTACAAGTCCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAG

upper sequence: Vv09s0054g00890.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: PP1S10_201V6.1 (Physcomitrella patens), 3'ss of exon 17
gtaagtcccagattaagtttttgattcaaattttcgtcctttttaatttttgtttacttactatttccttatgttcccctttttatgctggtctagaaattctttt-tccacttaatatatgtatctcatgtggctgtgacagATATGATAAGTTCTGCCCCTTCTACAAGTCGGTTTGGATGATGCGCAATATTATCCATTTCTATAATTTGGCCAATCAG
                                        || |   ||| |||    ||   |    || ||     |   ||   ||  ||||   ||  || | ||||  |   || ||  |  |   |||  ||| ||| ||||||||||||||||| ||||| || || || |||||||||||||||||| |||| ||  | | | | |||||||||
----------------------------------------ttatgcatttcgttataatagattgcagttgtggatgacagcttgc-ctaatctatggatgtttctatccaagtctgatgtgggttcctcatgg--gtggcagTTATGATAAGTTCTGCCCATTCTATAAATCAGTATGGATGATGCGCAATATTGTCCACTTTAACACTCTTGCCAATCAG

upper sequence: Vv09s0054g00890.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: PP1S8_312V6.1 (Physcomitrella patens), 3'ss of exon 17
gtaagtcccagattaagtttttgattcaaattttcgtcctttttaatttttgtttacttactatttccttatgttcccctttttatgctggtctagaaattctttttccacttaatatatgtatctcatgtggctgtgacagATATGATAAGTTCTGCCCCTTCTACAAGTCGGTTTGGATGATGCGCAATATTATCCATTTCTATAATTTGGCCAATCAG
             | || |||   || ||||||| ||  | |   || ||||||   |   | |||  | ||  | |  | |   || | | | |     | ||| ||||  |   ||  |   |||   |    ||||||| ||||| || |||||||| ||||||||||| || ||||||||||| |||||| |||| ||| | | | | || ||||||
------------gtgagcttt--gttgaaatttt-gttgtgtaggatgtttgttgggtagatgtttt-tcattattctgtgtccctgttcgacgattgtgtgtttctccatgtctgattcggtcctctcata--cgtgacagTTATGACAAATTCTGCCCATTCTACAAGTCTGTGTGGATGATGCGTAATATTGTCCACTTCAACACTCTTGCAAATCAG

upper sequence: Vv09s0054g00890.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: EFJ33015 (Selaginella moellendorffii), 3'ss of exon 16
gtaagtcccagattaagtttttgattcaaattttcgtcctttttaatttttgtttacttactatttccttatgttcccctttttatgctggtctagaaattctttttccacttaatatatgtatctcatgtggctgtgacagATATGATAAGTTCTGCCCCTTCTACAAGTCGGTTTGGATGATGCGCAATATTATCCATTTCTATAATTTGGCCAATCAG
                                                                                             ||    |||        ||   | | | |  || |     |||   |||||| |||||||| || || ||||||||||| |||||||||||||| || ||  | |||||||   |  || ||| ||||
--------------------------------------------------------------------------------------------gtacgtgttccgggcttgctct-tgtttatcgctaaca-atctgctccagATACGATAAGTTTTGTCCGTTCTACAAGTCCGTTTGGATGATGCGAAACATCGTTCATTTCTGCGACCTGTCCACTCAG

upper sequence: Vv09s0054g00890.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: EFJ30330 (Selaginella moellendorffii), 3'ss of exon 17
gtaagtcccagattaagtttttgattcaaattttcgtcctttttaatttttgtttacttactatttccttatgttcccctttttatgctggtctagaaattctttttccacttaatatatgtatctcatgtggctgtgacagATATGATAAGTTCTGCCCCTTCTACAAGTCGGTTTGGATGATGCGCAATATTATCCATTTCTATAATTTGGCCAATCAG
                                                                                             ||    |||        ||   | | | |  || |     |||   |||||| |||||||| || || ||||||||||| |||||||||||||| || ||  |||||||||   |  || ||| ||||
--------------------------------------------------------------------------------------------gtacgtgttccgggcttgctct-tgtttatcgctaaca-atctgctccagATACGATAAGTTTTGTCCGTTCTACAAGTCCGTTTGGATGATGCGAAACATCGTCCATTTCTGCGACCTGTCCACTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctggtctagaaattctttttccacttaatatatgtatctcatgtggctgtgacagATATGATAAGTTCTGCCCCTTCTACAAGTCGGTTTGGATGATGCGCAATATTATCCATTTCTATAATTTGGCCAATCAG
                      acttaat  putative branch site (score: 4)
                      acttaatatatgtat  TA-rich tract