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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAGATTGAGAAGTTGAAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagcattcttttactgttataatattgcctgttacgttttgtgacactgatcatgtctatattttactgtttttcacttttgtttaatatataaa...

Basic information

species Vitis vinifera
transcript Vv08s0040g00410.t01
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0040g00410.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA05G14330.2 (Glycine max), 5'ss of exon 8
AGAGATTGAGAAGTTGAAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagcat--tcttttactgttataatattgcctgttacgttttgtgacac-tgatcatgtctatattttactgtttttcacttttgtttaatatataaa
||||||||| ||||| |||||| ||||  || | ||||||||||||||||||||||| || || |||| |||||| |  |  ||  || |  |  | |||    ||||        |||  |  | |  || | | ||  |   | |  |  ||||  |  | | | | 
AGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGGTTATTGAAGTGGCTAAAATgtaagtagcctgattgttggctatagtttttttgtagtttacacacacacacatattcttaaatcgagagttgcccagtctgta--tttggatgctttgtca-

upper sequence: Vv08s0040g00410.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA19G17920.1 (Glycine max), 5'ss of exon 8
AGAGATTGAGAAGTTGAAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagcattcttttactgttataatattgcctgttacgttttgtgacactgatcatgtctatattttactgtttttcacttttgtttaatatataaa------
||||||||| ||||| |||||| ||||  || | |||||||||||| |||||||||| || || |||| |||||| |  || |   | |||| | ||    |||    ||| | | | |  | |  || | ||||| || |  |  | |||   |  ||   ||        
AGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTATTGAAGTGGCTAAAATgtaagtagcctgattat-tggctatagtttttgtagtt----tttataatattc-ttaaatcgagattttcctatgctgtattttgaatgtattgttatgtctctt
















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|34545358|gb|CF513590.1|CF513590
EST:     AGGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGAT                         CATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
genomic: AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
EST: gi|110712939|gb|EE088423.1|EE088423
EST:     AAGCTTTCTGAATTGTCTTGTCGGCAAGGGGTTATTGAAGTAGCCAAGAT                         CATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
genomic: AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
EST: gi|351026032|gb|FQ428044.1|FQ428044
EST:     AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGAT                         CATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
genomic: AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
EST: gi|26267610|gb|CA818673.1|CA818673
EST:     AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGAT                         CATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
genomic: AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
EST: gi|351016637|gb|FQ424064.1|FQ424064
EST:     AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGAT                         CATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAA
genomic: AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
EST: gi|110689940|gb|EE066605.1|EE066605
EST:     AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGAT                         CATTTATGGGGTACACGATGAGGCCAAGGGACA-GGCATTTGAGTTGGAAA
genomic: AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGG-ACAAGGCATTTGAGTTGGAAA
EST: gi|110405352|gb|EC970893.1|EC970893
EST:     AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGAT                         CATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
genomic: AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
EST: gi|110719773|gb|EE095192.1|EE095192
EST:     AAGCTTTCTGAATTGTCTTGTCGGCAAGGGGTTATTGAAGTAGCCAAGAT                         CATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
genomic: AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
EST: gi|110720841|gb|EE097126.1|EE097126
EST:     AAGCTTTCTGAATTGTCTTGTCGGCAAGGGGTTATTGAAGTAGCCNAGAT                         CATTTATGGGGTACACGATGAGGCCNAGGACAAGGCATTTGAGTTGGAAAT
genomic: AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
EST: gi|34545280|gb|CF513512.1|CF513512
EST:     AGGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGAT                         CATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
genomic: AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
EST: gi|161715533|gb|FC069462.1|FC069462
EST:     AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGAT                         CATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATT
genomic: AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATT
EST: gi|349829839|gb|FQ422152.1|FQ422152
EST:     AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGAT                         CATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
genomic: AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
EST: gi|351012831|gb|FQ430394.1|FQ430394
EST:     AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGAT                         CATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
genomic: AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
EST: gi|110428341|gb|EC994810.1|EC994810
EST:     AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGAT                         CATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
genomic: AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
EST: gi|110702145|gb|EE080525.1|EE080525
EST:     AAGCTTTCTGAATTGTCTTGTCGGCAAGGGGTTATTGAAGTAGCCAAGAT                         CATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
genomic: AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
EST: gi|351017561|gb|FQ435914.1|FQ435914
EST:     AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGAT                         CATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
genomic: AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
EST: gi|34543966|gb|CF512198.1|CF512198
EST:     AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGAT                         CATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
genomic: AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
EST: gi|34362721|gb|CF404306.1|CF404306
EST:     AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGAT                         CATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
genomic: AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
EST: gi|110720821|gb|EE097078.1|EE097078
EST:     AGCTTTCTGAATTGTCTTGTCNG-CAAGGGGTTATTGAAGTAGCCAAGAT                         CATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAA
genomic: AGCTTTCTGAATTGTCTTGTC-GACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAA
EST: gi|110718292|gb|EE094957.1|EE094957
EST:     AAGCTTTCTGAATTGTCTTGTCGGCAAGGGGTTATTGAAGTAGCCAAGAT                         CATTTATGGGGTACACGATGAGGCCAAGGACNAGGCATTTGAGTTGGAAAT
genomic: AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
EST: gi|351033938|gb|FQ462993.1|FQ462993
EST:     AAGCTTTCTGAATTGTCTTGTCGACTAGGGGTTATTGAAGTAGCCAAGAT                         CATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
genomic: AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
EST: gi|110727594|gb|EE104529.1|EE104529
EST:     AAGCTTTCTGAATTGTCTTGTCGGCAAGGGGTTATTGAAGTAGCCAAGAT                         CATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
genomic: AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
EST: gi|110707900|gb|EE084829.1|EE084829
EST:     AAGCTTTCTGAATTGTCTTGTCGGCGAGGGGTTATTGAAGTAACCAAGAT                         CATTTATGGGGTACACGATGAGGCCNAGGACAAGGCATTTG-GNTTTGGAA
genomic: AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAG-TT-GGAA
EST: gi|351023141|gb|FQ432524.1|FQ432524
EST:     AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGAT                         CATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
genomic: AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
EST: gi|349823527|gb|FQ414937.1|FQ414937
EST:     AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGAT                         CATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
genomic: AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
EST: gi|161719434|gb|FC067375.1|FC067375
EST:     AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGAT                         CATTTATGGGGTACACGATGAGGCCAAGGGACA-GGCATTTGAGTTGGAAA
genomic: AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGG-ACAAGGCATTTGAGTTGGAAA
EST: gi|351029065|gb|FQ435265.1|FQ435265
EST:     AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGAT                         CATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
genomic: AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
EST: gi|22010249|gb|BQ795283.1|BQ795283
EST:     AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGAT                         CATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
genomic: AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
EST: gi|110428899|gb|EC995383.1|EC995383
EST:     AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAATTAGCCAAGAT                         CATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
genomic: AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
EST: gi|110713723|gb|EE089893.1|EE089893
EST:     AAGCTTTCTGAATTGTCTTGTCGGCAAGGGGTTATTGAAGTAGCCAAGAT                         CATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
genomic: AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
EST: gi|34415870|gb|CF414624.1|CF414624
EST:     GGGTTATTGAAGTAGCCAAGAT                         CATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
genomic: GGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
EST: gi|110686023|gb|EE063265.1|EE063265
EST:     AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGAT                         CATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
genomic: AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
EST: gi|30253109|gb|CB970660.1|CB970660
EST:     AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGAT                         CATCTATGGGGTACACGATGAGANCAAGGACAAGGCATTTGAGTTGGAAAT
genomic: AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
EST: gi|351021754|gb|FQ437139.1|FQ437139
EST:     AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGAT                         CATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT
genomic: AAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagca ... tggtaagcagCATTTATGGGGTACACGATGAGGCCAAGGACAAGGCATTTGAGTTGGAAAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGAGATTGAGAAGTTGAAGCTTTCTGAATTGTCTTGTCGACAAGGGGTTATTGAAGTAGCCAAGATgtgagtagcattcttttactgttataatattgcctgttacgttttgtgacactgatcatgtctatattttactgtttttcacttttgtttaatatataaa

- - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG