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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTAATTGTTCCAAATAGCTCTTGTGGTGGCATAATTGGGAAAGGAGGATCTACCATAAAgtatgaccatttctcctttgtctttctgttcatgaaatctttttaagtttatatgaattatactgatagaataaacatctgatatcttcaaattttcttt...

Basic information

species Vitis vinifera
transcript Vv13s0019g05360.t01
intron # 5
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 5
lower sequence: GRMZM2G008410_T01 (Zea mays), 5'ss of exon 3
CAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTAATTGTTCCAAATAGCTCTTGTGGTGGCATAATTGGGAAAGGAGGATCTACCATAAAgtatgaccatttctcctttgtctttctgttcatgaaatctttttaagtttatatgaattatactgatagaataaacat-ctgatatcttcaaattttcttt
  |||||     ||||||||||  | ||| | ||||| ||| |  | ||||| ||||||||||||||||| |||||||| ||||| ||| | || ||||||||||    ||  |    |   | | | ||  ||   | |   | | ||| |     || |  |  |  | |   ||  | |||   |  | |        
GTGAAGAATTCAACGAAGCAGAAGCTAGACCTAAAGTTAGACTTGTAGTTCCTAATAGCTCTTGTGGTGGTATAATTGGTAAAGGTGGAGCAACAATAAAgtatgtatcttcatagacttgttctattttgttgtgctatcagtgattttgttcccgttgtggtagttaattttccaagccgatgattcaacaaaacaga-
















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

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAGAAGATGGTGACGAAGCAGACCCAAGATCAAAAGTAAGATTAATTGTTCCAAATAGCTCTTGTGGTGGCATAATTGGGAAAGGAGGATCTACCATAAAgtatgaccatttctcctttgtctttctgttcatgaaatctttttaagtttatatgaattatactgatagaataaacatctgatatcttcaaattttcttt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaataaa