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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctttctctctctccctctttcattttgtacacagatcataagtcattcaatcttctttactgtagttcattttcattttaaaacacacaaacatactcattaatcattgcaatcttatttattgtagTTTGGCAAGGGGGTTTACTTTGCTGACCTGGTCAGTAAGAGTGCTCAGTATTGCTATACTGATAGGAAAAATCCAGTTGGTTTGATGCTTCTGAGTGAAG

Basic information

species Vitis vinifera
transcript Vv07s0005g03040.t01
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0005g03040.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: LOC_Os07g23110.1 (Oryza sativa), 3'ss of exon 17
gtctttctctctctccctctttcattttgtacacagatcataagtcattcaatcttctttactgtagttcattttcattttaaaacacacaaacatactcattaatcattgcaatcttatttattgtagTTTGGCAAGGGGGTTTACTTTGCTGACCTGGTCAGTAAGAGTGCTCAGTATTGCTATACTGATAGGAAAAATCCAGTTGGTTTGATGCTTCTGAGTGAAG
                    ||   | | |   ||  |||||| |  |||||         ||||||  || |  ||    | |       ||  |  | |  |   |||    | | | | |    ||||||| || ||  | |||||||| ||  | || || |||||||| || ||||| ||    |||||||| |||||||||||||||||||||||    || |
-------------------gtttgctctttgttcacttcataaatggttcaa---------ctgtag--cactggcaaa--agattggttgaatttgatta--agctattttcctttcaatca--acagTTTGGGAAAGGCCTCTACTTTGCAGATTTAGTAAGCAAGAGTGCACAATATTGTTACGTGGATAGGAAGAATCCAGTTGGTTTGATGCTTCTTTCCGAGG

upper sequence: Vv07s0005g03040.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA03G31820.1 (Glycine max), 3'ss of exon 18
gtctttctctctctccctctttcattttgtacacagatcataagtcattcaatcttctttactgtagttcattttcattttaaaacacacaaacatactcattaatcattgcaatcttatttattgtagTTTGGCAAGGGGGTTTACTTTGCTGACCTGGTCAGTAAGAGTGCTCAGTATTGCTATACTGATAGGAAAAATCCAGTTGGTTTGATGCTTCTGAGTGAAG
       ||| |||    ||  | | |  | | |   |  |   |   | |  ||| |  |    | | | |  | |  ||      |||| |   ||| |  | ||  || ||| || |  |||| |||||||||| |||||||||||||||||||||||||| || ||||||||||||||||  ||||||| ||||||||| |||||| | |||||| |||||||||
-----gttctatctattactcccctctcatgc-ctcctttttttttgcttatacttttggatacaaatacctaattaactt----tccacagaagcactaa--agtc--tg-aatattttgcattgcagTTTGGCAAAGGGGTTTACTTTGCTGACCTGGTCAGCAAAAGTGCTCAGTATTGCTTCACTGATAAGAAAAATCCTGTTGGTCTAATGCTTTTGAGTGAAG

upper sequence: Vv07s0005g03040.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA19G34580.1 (Glycine max), 3'ss of exon 17
gtctttctctctctccctctttcattttgtacacagatcataagtcattcaatcttctttactgtagttcattttcattttaaaacacacaaacatactcattaatcattgcaatcttatttattgtagTTTGGCAAGGGGGTTTACTTTGCTGACCTGGTCAGTAAGAGTGCTCAGTATTGCTATACTGATAGGAAAAATCCAGTTGGTTTGATGCTTCTGAGTGAAG
             ||  ||| | | |     | ||   |     |  ||     |   ||  || |    | |  |   ||||    |   |||| |   | |||    || ||| || |   ||| |||||||||| |||||||||||||||||||||||||| || ||||||||||||||||  ||||||| ||||||||| |||||| | |||||| |||||||||
-----------gttctatctattactcccctctcatgcctcctttttttttgcttatatttttggatactaatacctaattaactttccacaacaga---actaaagtctg-aatattttgctttgcagTTTGGCAAAGGGGTTTACTTTGCTGACCTGGTCAGCAAAAGTGCTCAGTATTGCTTCACTGATAAGAAAAATCCTGTTGGTCTAATGCTTTTGAGTGAAG

upper sequence: Vv07s0005g03040.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: AT2G31320.1 (Arabidopsis thaliana), 3'ss of exon 16
gtctttctctctctccctctttcattttgtacacagatcataagtcattcaatcttctttactgtagttcattttcattttaaaacacacaaacatactcattaatcattgcaatcttatttattgtagTTTGGCAAGGGGGTTTACTTTGCTGACCTGGTCAGTAAGAGTGCTCAGTATTGCTATACTGATAGGAAAAATCCAGTTGGTTTGATGCTTCTGAGTGAAG
|||  |  |||| ||  | | | |||| ||    |  | || |   ||| |   ||||| ||| |   |  ||  | | ||| |  |    ||| |  |  ||||        | |  ||   ||  ||||||| || ||| | |||||||||||||| |||||||| ||||||||||| ||||| |||  || ||||||||| || ||| | ||||||||||||||||
gtcagta-ctctatctgtgtcttattt-gtggggatcttatca---attgagagttcttcactat--ctagttaacttgttagagaatctgaacttttt--ttaa--------accccat--gtttcagTTTGGAAAAGGGATATACTTTGCTGACCTTGTCAGTAAAAGTGCTCAGTACTGCTACACTTGTAAGAAAAATCCGGTGGGTCTAATGCTTCTGAGTGAAG

upper sequence: Vv07s0005g03040.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: EFJ24836 (Selaginella moellendorffii), 3'ss of exon 17
gtctttctctctctccctctttcattttgtacacagatcataagtcattcaatcttctttactgtagttcattttcattttaaaacacacaaacatactcattaatcattgcaatcttat-ttattgtagTTTGGCAAGGGGGTTTACTTTGCTGACCTGGTCAGTAAGAGTGCTCAGTATTGCTATACTGATAGGAAAAATCCAGTTGGTTTGATGCTTCTGAGTGAAG
                                                                       | | |  | ||  |  | |||||  ||||||| | |  |    | | |  || |||||||||||||| || || |||||||| |||||||| || ||||| || ||||| ||||  ||  | |||   |||||||| ||  ||||||| |||   || |
----------------------------------------------------------------------gtatactgtctagtattc-caaaccgactcatttagctcttatctgtcacgtttttgtagTTTGGCAAAGGTGTGTACTTTGCGGACCTGGTGAGCAAGAGCGCGCAGTACTGCTTCACGAACAGGTCCAATCCAGTGGGGCTGATGCTACTGTCCGAGG

upper sequence: Vv07s0005g03040.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: EFJ30299 (Selaginella moellendorffii), 3'ss of exon 17
gtctttctctctctccctctttcattttgtacacagatcataagtcattcaatcttctttactgtagttcattttcattttaaaacacacaaacatactcattaatcattgcaatcttat-ttattgtagTTTGGCAAGGGGGTTTACTTTGCTGACCTGGTCAGTAAGAGTGCTCAGTATTGCTATACTGATAGGAAAAATCCAGTTGGTTTGATGCTTCTGAGTGAAG
                                                                  || || | ||    ||  |  | |||||  ||||||| | |  |    | | |  || |||||||||||||| || || |||||||| |||||||| |||||||| || ||||| ||||  ||  | |||   |||||||| ||  ||||||| |||   || |
------------------------------------------------------------------gtacactgtc----tagtattc-caaaccgactcatttagctcttatctgtcacgtttttgtagTTTGGCAAAGGTGTGTACTTTGCGGACCTGGTGAGTAAGAGCGCGCAGTACTGCTTCACGAACAGGTCCAATCCAGTGGGGCTGATGCTACTGTCCGAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcattttaaaacacacaaacatactcattaatcattgcaatcttatttattgtagTTTGGCAAGGGGGTTTACTTTGCTGACCTGGTCAGTAAGAGTGCTCAGTATTGCTATACTGATAGGAAAAATCCAGTTGGTTTGATGCTTCTGAGTGAAG
                         cattaat  putative branch site (score: 3)
                                        tcttattt  putative PPT
                                      aatcttatttattgta  TA-rich tract