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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCTGCACATGGATAGAAATGACTATTATGGAGGAGAGTCAAGTTCACTCAATCTTATTCAGgtcctcaaatgcacagttttgttaaagtgttttgggactatttgcaaattcctattattcttctaaatgtattgatttaacactttttatttacag

Basic information

species Vitis vinifera
transcript Vv05s0094g01550.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0094g01550.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA08G13300.3 (Glycine max), 5'ss of exon 2
GTTCTGCACATGGATAGAAATGACTATTATGGAGGAGAGTCAAGTTCACTCAATCTTATTCAGgtcctcaaatgcacagttttgttaaagt---gttttgggactatttgcaaattcctat---tattcttcta-aatgtattgatttaacactttttatttacag
|||||||||||||| || ||||||||||| |||||||| || | ||| |||||||||||||||||| |       |   | ||  | |  |    |||  | |  |     ||| |   ||   ||||  |||   |  |  ||||||  |  |  |  | | |||
GTTCTGCACATGGACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAGgtcttttttcatattttctttcttatctttcatttctgcaaaagaaataaaataaaataaatatttgtctgcgaaatgatgatttctctgtcctcttcttcag

upper sequence: Vv05s0094g01550.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA05G30140.3 (Glycine max), 5'ss of exon 2
GTTCTGCACATGGATAGAAATGACTATTATGGAGGAGAGTCAAGTTCACTCAATCTTATTCAGgtcctcaaatgcacagttttgttaaagtgtt-ttgggactatttgcaaat-tcctattattcttcta--aatgtattgatttaacactttttatttacag-----------------------------
|||||||| |||||||| || |||||||| |||||||| || | ||| |||||||||||||||||  |    |    |   |  ||    |  | ||   | |   ||||||  |  || ||||    ||  ||| | ||  | |   | |||  | |   |                              
GTTCTGCATATGGATAGGAACGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAGgtttttttttttttataataatttctttactattttcatttcctgcaaaaataataatattagattaacaatatgttattattgaagtttgaactgcgaaatgatgattttctctgtcctcctcttcag
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|110707813|gb|EE084638.1|EE084638
EST:     ATAGAAATGACTATTATGGAGGAGAGTCAAGTTCACTCAATCTTATTCAG                         CTGTGGAAGAGATTTAAGGGTAATGATAAACCTCCAGCAAGTTTGGGCTCT
genomic: ATAGAAATGACTATTATGGAGGAGAGTCAAGTTCACTCAATCTTATTCAGgtcctcaaat ... ttatttacagCTGTGGAAGAGATTTAAGGGTAATGATAAACCTCCAGCAAGTTTGGGCTCT
EST: gi|110732501|gb|EE107845.1|EE107845
EST:     AGTCAAGTTCACTCAATCTTATTCAG                         CTGTGGAAGAGATTTAAGGGTAATGATAAACCTCCAGCAAGTTTGGGCTCT
genomic: AGTCAAGTTCACTCAATCTTATTCAGgtcctcaaat ... ttatttacagCTGTGGAAGAGATTTAAGGGTAATGATAAACCTCCAGCAAGTTTGGGCTCT
EST: gi|27584731|gb|CB007426.1|CB007426
EST:     GAAATGACTATTATGGAGGAGAGTCAAGTTCACTCAATCTTATTCAG                         CTGTGGAAGAGATTTAAGGGTAATGATAAACCTCCAGCAAGTTTGGGCTCT
genomic: GAAATGACTATTATGGAGGAGAGTCAAGTTCACTCAATCTTATTCAGgtcctcaaat ... ttatttacagCTGTGGAAGAGATTTAAGGGTAATGATAAACCTCCAGCAAGTTTGGGCTCT
EST: gi|27582507|gb|CB005202.1|CB005202
EST:     GAAATGACTATTATGGAGGAGAGTCAAGTTCACTCAATCTTATTCAG                         CTGTGGAAGAGATTTAAGGGTAATGATAAACCTCCAGCAAGTTTGGGCTCT
genomic: GAAATGACTATTATGGAGGAGAGTCAAGTTCACTCAATCTTATTCAGgtcctcaaat ... ttatttacagCTGTGGAAGAGATTTAAGGGTAATGATAAACCTCCAGCAAGTTTGGGCTCT
EST: gi|110687677|gb|EE065357.1|EE065357
EST:     ATAGAAATGACTATTATGGAGGAGAGTCAAGTTCACTCAATCTTATTCAG                         CTGTGGAAGAGATTTAAGGGTAATGATAAACCTCCAGCAAGTTTGGGCTCT
genomic: ATAGAAATGACTATTATGGAGGAGAGTCAAGTTCACTCAATCTTATTCAGgtcctcaaat ... ttatttacagCTGTGGAAGAGATTTAAGGGTAATGATAAACCTCCAGCAAGTTTGGGCTCT
EST: gi|110724401|gb|EE100197.1|EE100197
EST:     ATAGAAATGACTATTATGGAGGAGAGTCAAGTTCACTCAATCTTATTCAG                         CTGTGGAAGAGATTTAAGGGTAATGATAAACCTCCAGCAAGTTTGGGCTCT
genomic: ATAGAAATGACTATTATGGAGGAGAGTCAAGTTCACTCAATCTTATTCAGgtcctcaaat ... ttatttacagCTGTGGAAGAGATTTAAGGGTAATGATAAACCTCCAGCAAGTTTGGGCTCT
EST: gi|110685725|gb|EE062694.1|EE062694
EST:     ATAGAAATGACTATTATGGAGGAGAGTCAAGTTCACTCAATCTTATTCAG                         CTGTGGAAGAGATTTAAGGGTAATGATAAACCTCCAGCAAGTTTGGGCTCT
genomic: ATAGAAATGACTATTATGGAGGAGAGTCAAGTTCACTCAATCTTATTCAGgtcctcaaat ... ttatttacagCTGTGGAAGAGATTTAAGGGTAATGATAAACCTCCAGCAAGTTTGGGCTCT
EST: gi|110687369|gb|EE064718.1|EE064718
EST:     ATAGAAATGACTATTATGGAGGAGAGTCAAGTTCACTCAATCTTATTCAG                         CTGTGGAAGAGATTTAAGGGTAATGATAAACCTCCAGCAAGTTTGGGCTCT
genomic: ATAGAAATGACTATTATGGAGGAGAGTCAAGTTCACTCAATCTTATTCAGgtcctcaaat ... ttatttacagCTGTGGAAGAGATTTAAGGGTAATGATAAACCTCCAGCAAGTTTGGGCTCT
EST: gi|110701029|gb|EE078211.1|EE078211
EST:     ATAGAAATGACTATTATGGAGGAGAGTCAAGTTCACTCAATCTTATTCAG                         CTGTGGAAGAGATTTAAGGGTAATGATAAACCTCCAGCAAGTTTGGGCTCT
genomic: ATAGAAATGACTATTATGGAGGAGAGTCAAGTTCACTCAATCTTATTCAGgtcctcaaat ... ttatttacagCTGTGGAAGAGATTTAAGGGTAATGATAAACCTCCAGCAAGTTTGGGCTCT
EST: gi|110687516|gb|EE065012.1|EE065012
EST:     ATAGAAATGACTATTATGGAGGAGAGTCAAGTTCACTCAATCTTATTCAG                         CTGTGGAAGAGATTTAAGGGTAATGATAAACCTCCAGCAAGTTTGGGCTCT
genomic: ATAGAAATGACTATTATGGAGGAGAGTCAAGTTCACTCAATCTTATTCAGgtcctcaaat ... ttatttacagCTGTGGAAGAGATTTAAGGGTAATGATAAACCTCCAGCAAGTTTGGGCTCT
EST: gi|161719051|gb|FC065697.1|FC065697
EST:     ATAGAAATGACTATTATGGAGGAGAGTCAAGTTCACTCAATCTTATTCAG                         CTGTGGAAGAGATTTAAGGGTAATGATAAACCTCCAGCAAGTTTGGGCTCT
genomic: ATAGAAATGACTATTATGGAGGAGAGTCAAGTTCACTCAATCTTATTCAGgtcctcaaat ... ttatttacagCTGTGGAAGAGATTTAAGGGTAATGATAAACCTCCAGCAAGTTTGGGCTCT
EST: gi|71873208|gb|DT022263.1|DT022263
EST:     ATAGAAATGACTATTATGGAGGAGAGTCAAGTTCACTCAATCTTATTCAG                         CTGTGGAAGAGATTTAAGGGTAATGATAAACCTCCAGCAAGTTTGGGCTCT
genomic: ATAGAAATGACTATTATGGAGGAGAGTCAAGTTCACTCAATCTTATTCAGgtcctcaaat ... ttatttacagCTGTGGAAGAGATTTAAGGGTAATGATAAACCTCCAGCAAGTTTGGGCTCT
EST: gi|161715281|gb|FC064588.1|FC064588
EST:     ATAGAAATGACTATTATGGAGGAGAGTCAAGTTCACTCAATCTTATTCAG                         CTGTGGAAGAGATTTAAGGGTAATGATAAACCTCCAGCAAGTTTGGGCTCT
genomic: ATAGAAATGACTATTATGGAGGAGAGTCAAGTTCACTCAATCTTATTCAGgtcctcaaat ... ttatttacagCTGTGGAAGAGATTTAAGGGTAATGATAAACCTCCAGCAAGTTTGGGCTCT
EST: gi|110690999|gb|EE068597.1|EE068597
EST:     ATAGAAATGACTATTATGGAGGAGAGTCAAGTTCACTCAATCTTATTCAG                         CTGTGGAAGAGATTTAAGGGTAATGATAAACCTCCAGCAAGTTTGGGCTCT
genomic: ATAGAAATGACTATTATGGAGGAGAGTCAAGTTCACTCAATCTTATTCAGgtcctcaaat ... ttatttacagCTGTGGAAGAGATTTAAGGGTAATGATAAACCTCCAGCAAGTTTGGGCTCT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTCTGCACATGGATAGAAATGACTATTATGGAGGAGAGTCAAGTTCACTCAATCTTATTCAGgtcctcaaatgcacagttttgttaaagtgttttgggactatttgcaaattcctattattcttctaaatgtattgatttaacactttttatttacag

- - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - AGGAGA