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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactaagatactagttcttctgtatttcattgcttctgctttctgaatgatgtagtgtcaactaaaaaatttgactgttcaaagaattttggttcattcatttatctatttataatttttgtatccaggtacagatgccagaatttgatctccatgtttttttctgtccagAAAATCTGTATCTCTTCCATTGAAATGGTTTGCTGTAGGACAGTGTTGGCGTTATGAGAGAATGACAAGGGGACGCCGTCGTGAGCACTACCAATGGAAT

Basic information

species Vitis vinifera
transcript Vv08s0040g01360.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0040g01360.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os02g51830.1 (Oryza sativa), 3'ss of exon 3
gtactaagatactagttcttctgtatttcattgcttctgctttctgaatgatgtagtgtcaactaaaaaatttgactgttcaaagaattttggttcattcat--ttatctatttataatttttgtatccaggtacagatgccagaatttgatctccatgtttttttctgtccagAAAATCTGTATCTCTTCCATTGAAATGGTTTGCTGTAGGACAGTGTTGGCGTTATGAGAGAATGACAAGGGGACGCCGTCGTGAGCACTACCAATGGAAT
                | | |  | ||  | || || || ||   | ||| |  | |  ||   |      | |  | ||| |  |||||  ||| | | |   ||   | |||   || ||   |    | |            ||||       |  |||| | ||||| |||||||| || || |||||| ||||||||||| || ||||||| || ||||| |||||| | |||||||| ||| | || ||||| || || |||||||| 
---------------gtatgcctttttcaactggtt-tgtttgtggcatgcttgacttacattcatgtttgtggcattttccattaatttctgttgagtgaccgtttcatctttgccatattatgagtttgttctttgaaatgtgatttttcgcttactttttctcctgtctagAAAATCAGTCTCCCTTCCACTGAAATGGTTTACTATAGGACAATGCTGGCGATATGAGCGTATGACAAGAGGAAGACGGCGTGAACATTATCAATGGAAC

upper sequence: Vv08s0040g01360.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G158228_T01 (Zea mays), 3'ss of exon 2
gtactaagatactagttcttctgtatttcattgcttctgctttctgaatgatgtagtgtcaactaaaaaatttgactgttcaaagaattttggttcattcatttatctatttataatttttgtatccaggtacagatgccagaatttgatctccatg--tttttttctgtccagAAAATCTGTATCTCTTCCATTGAAATGGTTTGCTGTAGGACAGTGTTGGCGTTATGAGAGAATGACAAGGGGACGCCGTCGTGAGCACTACCAATGGAAT
                                                                                       | |   | | ||   | ||| |   ||    | | ||||||  | |    | |||||| |||| | ||    | || ||||||| |||||||| || || |||||| ||||||||||| || ||||||| || ||||| |||||| | ||||| || ||| |  | || || || ||||||||||||
--------------------------------------------------------------------------------------gtatgtatgcctttcctaatcgaacaatctagtatatatcca--tgcctccgtcagaatgtgattttcactgctcttcttctgtctagAAAATCAGTCTCCCTTCCACTGAAATGGTTTACTATAGGACAATGCTGGCGATATGAGCGCATGACCAGAGGAAGAAGGCGGGAACATTACCAATGGAAT

upper sequence: Vv08s0040g01360.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA03G34050.1 (Glycine max), 3'ss of exon 3
gtactaagatactagttcttctgtatttcattgcttctgctttctgaatgatgtagtgtcaactaaaaaatttgactgttcaaagaattttggttcattcatttatctatttataatttttgtatccaggtacagatgccagaatttgatctccatgtttttttctgtccagAAAATCTGTATCTCTTCCATTGAAATGGTTTGCTGTAGGACAGTGTTGGCGTTATGAGAGAATGACAAGGGGACGCCGTCGTGAGCACTACCAATGGAAT
        | | |  || || || || |  | | || | || | |  |   | | |    |  ||||   | || ||  |     || |||  |  |  |||      |||      ||||||||     | |  |   |  | ||| || ||  |||| |||  | |  || || || || ||  | ||| | || |||||  |||| ||||| |||||||| || ||||||||||||||||| || ||||||||||||||||||||||| 
-----gtaaaattcatttttatgcatattttagattttcctatatttacagttttg----atgtaaagtctatgtctaatagttaaactttaatcta--cataagataattc-----ttttgtatgtgaatgccaaattctcattttcatgtc--tgttctttaatttttagGAAGTCCGTGTCATTACCAATAAAGTGGTTCACTGTTGGACAATGTTGGCGGTACGAGAGAATGACAAGGGGGCGTCGTCGTGAGCACTACCAATGGAAC

upper sequence: Vv08s0040g01360.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G46100.1 (Arabidopsis thaliana), 3'ss of exon 3
gtactaagatactagttcttctgtatttcattgcttctgctttctgaatgatgtagtgtcaactaaaaaatttgactgttcaaagaattttggttcattcatttatctatttataa---tttttgtatccaggtacagatgccagaat-----ttgatctccatgtttttttctgtccagAAAATCTGTATCTCTTCCATTGAAATGGTTTGCTGTAGGACAGTGTTGGCGTTATGAGAGAATGACAAGGGGACGCCGTCGTGAGCACTACCAATGGAAT
                           | ||    || |||  |  | |  || ||  |   | |  |||| |     ||| ||| |    | || |||  ||| |   | || ||   |  |||||||||||||  ||||  ||| |     |||||  |||| || ||||  ||||||||||||||| || ||||||||||| ||||||||  | || ||||||||||| ||||||||||||||||| ||| | || |||||||| ||||||||||||
--------------------------gtaataaactcagct--ccaagtcttg-agaattgtccatgaaatct-----ttctaaggacg--gatttatttgtttttgcttgtaaaacattccttgtatccaggtatggatgtgagagtgttggttgattcccatattctttttggtccagAAAATCTGTTTCCCTTCCATTGAAGTGGTTTGCAATTGGGCAGTGTTGGCGATATGAGAGAATGACAAGAGGAAGGCGACGTGAGCATTACCAATGGAAT

upper sequence: Vv08s0040g01360.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G03406.1 (Arabidopsis thaliana), 3'ss of exon 3
gtactaagatactagttcttctgtatttcattgcttctgctttctgaatgatgtagtgtcaactaaaaaatttgactgttcaaagaattttggttcattcatttatctatttataatttttgtatccaggtacagatgccagaat-ttgatctccatgtttttttctgtccagAAAATCTGTATCTCTTCCATTGAAATGGTTTGCTGTAGGACAGTGTTGGCGTTATGAGAGAATGACAAGGGGACGCCGTCGTGAGCACTACCAATGGAAT
                           | | |  | | |  || |   | | |   ||  || |        | | | ||||| ||     |||| ||| |||| | | | || || || |||||| |||||  ||||  ||||| |||||  |||| || ||||  ||||||||||||||| || ||||||||||| ||||||||||| || ||||||||| | ||||||||||||||| | ||| | || |||||||| ||||| ||||||
--------------------------gtaactaatgcagaattttctctcaagccttgagaattgt----ccttattcttcaatgagc---ggtttatttatttttgtttgtaaaaattctgtatc-aggtaaggatgtgagaatgttgattcccatattctttttggtccagAAAATCTGTTTCCCTTCCATTGAAGTGGTTTGCTGTTGGGCAGTGTTGGAGATATGAGAGAATGACACGAGGAAGGCGACGTGAGCATTACCAGTGGAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttgtatccaggtacagatgccagaatttgatctccatgtttttttctgtccagAAAATCTGTATCTCTTCCATTGAAATGGTTTGCTGTAGGACAGTGTTGGCGTTATGAGAGAATGACAAGGGGACGCCGTCGTGAGCACTACCAATGGAAT
                          atttgat  putative branch site (score: 5)
                                tctccatgtttttttc  CT-rich tract
                                     atgttttttt  TA-rich tract