Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTTTTTCCTGGAACTTCTGACAGGATCATTATGATATCTGGAGCAACAAATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttcatgattctgcttttactcagttaaaatttatcattaatttgcctattgaaaaggaaaaagaattgattagttgtattctggtcttgaggct...

Basic information

species Vitis vinifera
transcript Vv13s0019g05360.t01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0019g05360.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA20G33330.1 (Glycine max), 5'ss of exon 2
ATTTTTTCCTGGAACTTCTGACAGGATCATTATGATATCTGGAGCAACAAATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttcatgattctgcttttactcagtta--aaatttatcattaatttgcctattgaaaaggaaaaagaattgattagttgtattctggtcttgaggct
||| |||||||||||| |||| ||||| || ||| ||||||| |||| ||||||||||   |  ||  | |||||||| ||  |||| ||  | |||||||| ||||  |||||  || ||| | | |||||    |   |    |   || | |  |    |    ||     |   |  ||                   
ATTCTTTCCTGGAACTACTGATAGGATTATCATGGTATCTGGTGCAATAAATGAAATACAAAGGGCTGTAGAACTTATCCTTTCTAAGTTGCTCAGTGAGgtaatctctatgatgttgatttgatt-agttattggaagaacagatgtcttacatgcttctgaacttaatttgctacctgattag-----------------

upper sequence: Vv13s0019g05360.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA10G34220.1 (Glycine max), 5'ss of exon 2
ATTTTTTCCTGGAACTTCTGACAGGATCATTATGATATCTGGAGCAACAAATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttcatgattctgcttttactcagtta------aaatttatcattaatttgcctattgaaaaggaaaaagaattgattagttgtattctggtcttgaggct
||| |||||||||||| |||| ||||| || ||| ||||||| |||| ||||||||||   |  ||  | |||||||| ||  |||| ||  | |||||||| ||||  ||||   |  ||| | | |||||       ||  |||   | |  ||| | |  |           |  |||||||                     
ATTCTTTCCTGGAACTACTGATAGGATTATCATGGTATCTGGCGCAATAAATGAAATACAGAGGGCTGTAGAACTTATCCTTTCTAAGTTGCTCAGTGAGgtaatctctatgacattaatttaatt-agttattggaagaacatatgtcttacatgcttctgaacttaatttgctatctgattag---------------------
















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|351046365|gb|FQ452981.1|FQ452981
EST:     ATGAAATAATTAAAGCAATGAAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGGCGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|352785971|gb|FQ481765.1|FQ481765
EST:     ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGGCGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|351057061|gb|FQ448578.1|FQ448578
EST:     ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGGCGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|349823219|gb|FQ400198.1|FQ400198
EST:     ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGGCGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|351055155|gb|FQ440494.1|FQ440494
EST:     ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGGCGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|351043628|gb|FQ451559.1|FQ451559
EST:     ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGGCGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|351037387|gb|FQ460586.1|FQ460586
EST:     ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGGCGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|349820040|gb|FQ404762.1|FQ404762
EST:     ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGGCGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|349827032|gb|FQ421305.1|FQ421305
EST:     ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGGCGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|351052907|gb|FQ453894.1|FQ453894
EST:     ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGGCGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|351047124|gb|FQ454734.1|FQ454734
EST:     ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGGCGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|351047391|gb|FQ451903.1|FQ451903
EST:     ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGGCGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|351038420|gb|FQ461112.1|FQ461112
EST:     ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGGCGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|351031620|gb|FQ459877.1|FQ459877
EST:     ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGGCGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|161713236|gb|FC063668.1|FC063668
EST:     TTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: TTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|351047415|gb|FQ451927.1|FQ451927
EST:     ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGGCGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|77585763|gb|DV221978.1|DV221978
EST:     ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|351052809|gb|FQ456536.1|FQ456536
EST:     ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGGCGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|352793787|gb|FQ481941.1|FQ481941
EST:     ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGGCGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|351052237|gb|FQ452391.1|FQ452391
EST:     ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGGCGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|351053072|gb|FQ456679.1|FQ456679
EST:     ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGGCGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|351056381|gb|FQ454242.1|FQ454242
EST:     ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGGCGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|349833330|gb|FQ416708.1|FQ416708
EST:     ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGGCGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|351054352|gb|FQ450435.1|FQ450435
EST:     ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGGCGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|351046045|gb|FQ441428.1|FQ441428
EST:     ATGAAATAATTAAAGCAATGAAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGGCGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|352791390|gb|FQ480969.1|FQ480969
EST:     ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGGCGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|351031627|gb|FQ459884.1|FQ459884
EST:     ATGAAATAATTAAAGCAATGAAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGGCGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|352793790|gb|FQ481944.1|FQ481944
EST:     ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGGCGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|110731764|gb|EE106471.1|EE106471
EST:     ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|352786092|gb|FQ481887.1|FQ481887
EST:     ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGGCGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|351035492|gb|FQ463337.1|FQ463337
EST:     ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGGCGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|352790487|gb|FQ478127.1|FQ478127
EST:     ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGGCGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|351029639|gb|FQ427479.1|FQ427479
EST:     ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGGCGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|351032704|gb|FQ462418.1|FQ462418
EST:     ATGAAATAATTAAAGCAATGAAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGGCGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA
EST: gi|352786228|gb|FQ478839.1|FQ478839
EST:     ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAG                         ATGCATACAGAAGATGGTGGCGAAGCAGACCCAAGATCAAAAGTAAGATTA
genomic: ATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttca ... ctttttatagATGCATACAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTTTTTCCTGGAACTTCTGACAGGATCATTATGATATCTGGAGCAACAAATGAAATAATTAAAGCAATGGAACTTATTCTGGCTAAATTATTGAGTGAGgtgatcttcatgattctgcttttactcagttaaaatttatcattaatttgcctattgaaaaggaaaaagaattgattagttgtattctggtcttgaggct

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -attgaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaagaa