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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTGGTACAAAGTTCCGTAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAGgtatattgggaagaatattttactatatatttgtaattttactgccttgtttggtgtataaagactttttctgcactgaactagctgttgattgttactg...

Basic information

species Vitis vinifera
transcript Vv19s0085g00880.t01
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0085g00880.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: LOC_Os02g07760.1 (Oryza sativa), 5'ss of exon 12
CTTGGTACAAAGTTCCGTAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAGgtatattgggaagaatattttactatatatttgtaattttactgccttgtttggtgtataaagactttttctgcactgaactagctgttgattgttactg
|||| | | |||||||||||||| ||||| |||||||| |||||||| || ||| | ||||| ||||||| |||    |      | ||  | || ||| |  | |||  ||||  |||| | | | |  |   | | ||         | |||| |          
CTTGCTGCTAAGTTCCGTAACAGCGGACAGACATGTGTATGTGCAAACAGGATATTGGTGCAAGAAGgtagatttttca------tctatgacatgtttatgttgttagggcctattttgctctgttacaatagtgtttgtctc-----atctgtag----------

upper sequence: Vv19s0085g00880.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GRMZM2G128114_T01 (Zea mays), 5'ss of exon 12
CTTGGTACAAAGTTCCGTAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAGgtatattgggaagaatattttactatatatttgtaattttactgccttgtttggtgtataaagactttttctgcactgaactagctgttgattgttactg
|||| | | |||||||||||||||||||| ||||||||||||||||| || ||| | ||||| ||||||||||||   | | ||| | | |  |   ||  ||       || |  |||  |  || || |  || | ||   || |      |             
CTTGCTGCCAAGTTCCGTAACAGTGGACAGACATGTGTTTGTGCAAACAGGATATTGGTGCAAGAAGgtatattgatcata-tatgtgatttgaatgttacaaag-----gcttcttttaatccatcaaaaggttgtatgt--tgcatctatag-------------

upper sequence: Vv19s0085g00880.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GRMZM2G119482_T01 (Zea mays), 5'ss of exon 12
CTTGGTACAAAGTTCCGTAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAGgtatattgggaagaatattttactatatatttgtaattttactgccttgtttggtgtataaagactttttctgcactgaactagctgttgattgttactg
|||| | | ||||| |||||||||||||| ||||||||||||||||| || ||| | ||||| ||||||||||||      ||  | ||    || |   |  |  |   ||||  |||| |  ||||| |  |||  ||   || |      |             
CTTGCTGCCAAGTTTCGTAACAGTGGACAGACATGTGTTTGTGCAAACAGGATATTGGTGCAAGAAGgtatattg------atcatatatctgatttgaatgttactgaggcctcatttgatccataaaaaagtttcatgt--tgcatctaaag-------------

upper sequence: Vv19s0085g00880.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GLYMA08G17450.1 (Glycine max), 5'ss of exon 12
CTTGGTACAAAGTTCCGTAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAGgtatattgggaagaatattttactatatattt-gtaattttactgc-cttgtttggtgtataaagactttttctgcactgaactagctgttgattgttactg
||||   ||||||||||||||||||||||||||||||||||||||||||||||  ||||||| ||||||    ||| ||  ||| |  | |||  ||||   ||||  | |||  || | || | |   |   |||         | |  |   | |    ||||    
CTTGCAGCAAAGTTCCGTAACAGTGGACAAACATGTGTTTGTGCAAATAGAATTATTGTGCAAGAAGgttagatggaaatgatagtaaaatatcaattttacaattacattgcatttatctgatttgccatctcttaaaaacttttcatttgaatataacatgttta--

upper sequence: Vv19s0085g00880.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GLYMA15G41690.1 (Glycine max), 5'ss of exon 12
CTTGGTACAAAGTTCCGTAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAGgt--atattgggaagaatattttactatatattt-gtaattttactgc-cttgtttggtgtataaagactttttctgcactgaactagctgttgattgttactg
||||   ||||||||||||||||||||||||||||||||||||||||||||||  ||||||| ||||||      ||  ||  | | |  | |||  ||||  | |||  | |||  || | || | |   |   |||           |  |   | | |  ||||    
CTTGCAGCAAAGTTCCGTAACAGTGGACAAACATGTGTTTGTGCAAATAGAATTATTGTGCAAGAAGgttagagatgaaaatgacagtaaaatatcgattttatgattacattgcatttatctgatttgccatctcttaaaaactttatatttgaatatagcatgtt----

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|349825250|gb|FQ417971.1|FQ417971
EST:     TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAG                         GTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
genomic: TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAGgtatattggg ... attcttgcagGTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
EST: gi|351040417|gb|FQ434550.1|FQ434550
EST:     TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAG                         GTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
genomic: TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAGgtatattggg ... attcttgcagGTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
EST: gi|110688026|gb|EE066106.1|EE066106
EST:     TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAG                         GTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAGAGTATGC
genomic: TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAGgtatattggg ... attcttgcagGTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
EST: gi|351042224|gb|FQ442691.1|FQ442691
EST:     TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAG                         GTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
genomic: TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAGgtatattggg ... attcttgcagGTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
EST: gi|30302041|gb|CB978835.1|CB978835
EST:     TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAG                         GTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAGAGTATGC
genomic: TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAGgtatattggg ... attcttgcagGTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
EST: gi|351028680|gb|FQ446353.1|FQ446353
EST:     TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAG                         GTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
genomic: TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAGgtatattggg ... attcttgcagGTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
EST: gi|30128391|gb|CB913730.1|CB913730
EST:     AAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAG                         GTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
genomic: AAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAGgtatattggg ... attcttgcagGTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
EST: gi|29785203|gb|CB341997.2|CB341997
EST:     TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAG                         GTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAGAGTATGC
genomic: TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAGgtatattggg ... attcttgcagGTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
EST: gi|351027073|gb|FQ439934.1|FQ439934
EST:     TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAG                         GTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTTCAAAGTATGC
genomic: TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAGgtatattggg ... attcttgcagGTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
EST: gi|349827719|gb|FQ422587.1|FQ422587
EST:     TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAG                         GTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
genomic: TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAGgtatattggg ... attcttgcagGTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
EST: gi|110712816|gb|EE088195.1|EE088195
EST:     TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAG                         GTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAGAGTATGC
genomic: TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAGgtatattggg ... attcttgcagGTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
EST: gi|351018416|gb|FQ439228.1|FQ439228
EST:     TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAG                         GTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
genomic: TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAGgtatattggg ... attcttgcagGTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
EST: gi|349820783|gb|FQ404157.1|FQ404157
EST:     TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAG                         GTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
genomic: TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAGgtatattggg ... attcttgcagGTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
EST: gi|161718701|gb|FC066339.1|FC066339
EST:     TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAG                         GTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAGAGTATGC
genomic: TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAGgtatattggg ... attcttgcagGTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
EST: gi|349832930|gb|FQ423052.1|FQ423052
EST:     TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAG                         GTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATTG
genomic: TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAGgtatattggg ... attcttgcagGTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTAT-G
EST: gi|34543124|gb|CF511356.1|CF511356
EST:     TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAG                         GTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAGAGTATGC
genomic: TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAGgtatattggg ... attcttgcagGTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
EST: gi|110393201|gb|EC958271.1|EC958271
EST:     TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAG                         GTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAGAGTATGC
genomic: TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAGgtatattggg ... attcttgcagGTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
EST: gi|110728458|gb|EE104042.1|EE104042
EST:     AAATAGAATACTTGTGCAGGAAG                         GTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAGAGTATGC
genomic: AAATAGAATACTTGTGCAGGAAGgtatattggg ... attcttgcagGTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
EST: gi|29785173|gb|CB341929.2|CB341929
EST:     TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAG                         GTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAGAGTATGC
genomic: TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAGgtatattggg ... attcttgcagGTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
EST: gi|30134739|gb|CB920077.1|CB920077
EST:     AAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAG                         GTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
genomic: AAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAGgtatattggg ... attcttgcagGTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
EST: gi|351029837|gb|FQ427677.1|FQ427677
EST:     TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAG                         GTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
genomic: TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAGgtatattggg ... attcttgcagGTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
EST: gi|29781739|gb|CB346445.2|CB346445
EST:     TTGTGCAGGAAG                         GTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAGAGTATGT
genomic: TTGTGCAGGAAGgtatattggg ... attcttgcagGTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
EST: gi|30251721|gb|CB969454.1|CB969454
EST:     TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAG                         GTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAGAGTATGC
genomic: TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAGgtatattggg ... attcttgcagGTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
EST: gi|351028364|gb|FQ427260.1|FQ427260
EST:     TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAG                         GTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
genomic: TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAGgtatattggg ... attcttgcagGTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
EST: gi|351040173|gb|FQ425259.1|FQ425259
EST:     TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAG                         GTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
genomic: TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAGgtatattggg ... attcttgcagGTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
EST: gi|351033667|gb|FQ462197.1|FQ462197
EST:     TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAG                         GTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC
genomic: TAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAGgtatattggg ... attcttgcagGTATTTATGAGAAATTTGCAATTGCTTTTTCACAAGCTGTCCAAAGTATGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTTGGTACAAAGTTCCGTAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAGgtatattgggaagaatattttactatatatttgtaattttactgccttgtttggtgtataaagactttttctgcactgaactagctgttgattgttactg

- - - - - - - - - -  AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggaagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ataaaga