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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gagtttggtattctgaaaccaatcctgttaatatacttttctgcatcatttatgctttaatttgttgagtttgacgggtagaaggcctgatattttgcagGAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGGCTTGTCGTTGGTCGTGGCGGAAGGAATATAATGGACATCAGTCAG

Basic information

species Vitis vinifera
transcript Vv13s0019g05360.t01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0019g05360.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA10G34220.2 (Glycine max), 3'ss of exon 5
gagtttggtattctgaaaccaatcctgttaatatacttttctgcatcatttatgctttaatttgttgagtttgacgggtagaaggcctgatattttgcagGAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGGCTTGTCGTTGGTCGTGGCGGAAGGAATATAATGGACATCAGTCAG
  |       | ||        || |||| | |  |||   | | | |||  || |||  ||| |    ||  ||      |    ||| | |||  ||||| || || || |||||| | || || ||||| |||||||||||||| ||  | || ||||||||||| ||||||||||| ||||| || ||||||
atgagaaaactacttgtctttttcatgtttaaaaccttgcatccttaattggtgatttgctttatcagattgaacttacgtatattctgttctttgccagGAGGAGCGGAGTAACTCATTGACCATGGGTGTTGCAGATGAGCATATAGGATTGGTTGTTGGTCGTGGTGGAAGGAATATTATGGAAATTAGTCAG

upper sequence: Vv13s0019g05360.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA20G33330.1 (Glycine max), 3'ss of exon 5
gagtttggtattctgaaaccaatcctgttaatatacttttctgcatcatttatgctttaatttgttgagtttgacgggtagaaggcctgatattttgcagGAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGGCTTGTCGTTGGTCGTGGCGGAAGGAATATAATGGACATCAGTCAG
  |       | ||        ||| ||| | || |||   | | |   |  || |||  ||| ||   ||  ||      |    ||| | |||  ||||| || || || |||||| | || || ||||| |||||||||||||| ||  | || ||||||||||| ||||||||||| ||||| || ||||||
atgagaaaactacttgtctttttcccgtttaaatccttgcatccttatgtggtgatttgctttattagattgaacttacttatattctgttctttgccagGAGGAGCGGAGTAACTCATTGACCATGGGTGTTGCAGATGAGCATATCGGATTGGTTGTTGGTCGTGGTGGAAGGAATATTATGGAAATTAGTCAG
















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|71866666|gb|DT015721.1|DT015721
EST:     CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAG                         GAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGG
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGG
EST: gi|351046365|gb|FQ452981.1|FQ452981
EST:     CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAG                         GAAGGTCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGG
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGG
EST: gi|352785971|gb|FQ481765.1|FQ481765
EST:     CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAG                         GAAGATCGAAGCAACTCAGTTACAATTGGTG
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGCAACTCAGTTACAATTGGTG
EST: gi|351057061|gb|FQ448578.1|FQ448578
EST:     CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAG                         GAAGATCGAAGC
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGC
EST: gi|351055155|gb|FQ440494.1|FQ440494
EST:     CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAG                         GAAGATCGAAGCTACTCAGTTACAATTGGTGTG
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGCAACTCAGTTACAATTGGTGTG
EST: gi|351043628|gb|FQ451559.1|FQ451559
EST:     CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATA-CAAG                         GAAGATCGAAGCAACTCAG
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGCAACTCAG
EST: gi|351037387|gb|FQ460586.1|FQ460586
EST:     CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACCAG                         GAAGATCGAAGCAACTCAGTTACAATTGGTGTGG
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGCAACTCAGTTACAATTGGTGTGG
EST: gi|349827032|gb|FQ421305.1|FQ421305
EST:     CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAG                         GAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGG
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGG
EST: gi|77581507|gb|DV219700.1|DV219700
EST:     GGCTGGAGGAAAGTTTCAGAATAACAAG                         GAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGG
genomic: GGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGG
EST: gi|351052907|gb|FQ453894.1|FQ453894
EST:     TGATGAACTATGGATCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAG                         GAAGATCGAAGCAACTCAGTTAC
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGCAACTCAGTTAC
EST: gi|351047124|gb|FQ454734.1|FQ454734
EST:     CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAG                         GAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGG
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGG
EST: gi|71865533|gb|DT014588.1|DT014588
EST:     CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAG                         GAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGG
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGG
EST: gi|351047391|gb|FQ451903.1|FQ451903
EST:     CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAG                         GAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTG
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTG
EST: gi|351038420|gb|FQ461112.1|FQ461112
EST:     CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAG                         GAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGG
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGG
EST: gi|351031620|gb|FQ459877.1|FQ459877
EST:     CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAG                         GAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGTG
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGG
EST: gi|161713236|gb|FC063668.1|FC063668
EST:     CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAT                         GAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGG
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGG
EST: gi|351047415|gb|FQ451927.1|FQ451927
EST:     CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAG                         GAAGATCGAAGCAACTCATTTAC
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGCAACTCAGTTAC
EST: gi|351052809|gb|FQ456536.1|FQ456536
EST:     CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAG                         GAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGG
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGG
EST: gi|352793787|gb|FQ481941.1|FQ481941
EST:     CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAG                         GAAGATCGAAGCAACTCAGT
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGCAACTCAGT
EST: gi|351052237|gb|FQ452391.1|FQ452391
EST:     CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAGG                         GAAGATCGAAGCAACTCAGTTA
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGCAACTCAGTTA
EST: gi|351053072|gb|FQ456679.1|FQ456679
EST:     CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAG                         GAAGATTGAAGCAACTCAGTTTACA-TTGGTGTGGCAGATGAGCATATTGG
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGCAACTCAGTT-ACAATTGGTGTGGCAGATGAGCATATTGG
EST: gi|351056381|gb|FQ454242.1|FQ454242
EST:     CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAG                         GAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGAT
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGAT
EST: gi|349833330|gb|FQ416708.1|FQ416708
EST:     CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAG                         GAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGG
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGG
EST: gi|351054352|gb|FQ450435.1|FQ450435
EST:     CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAG                         GAAGATCGAAGCAACTCAGTTTACA-TTGGTGTGGCAGATGAGCATATTGG
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGCAACTCAGTT-ACAATTGGTGTGGCAGATGAGCATATTGG
EST: gi|351046045|gb|FQ441428.1|FQ441428
EST:     CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAG                         GAAGGTCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGG
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGG
EST: gi|352791390|gb|FQ480969.1|FQ480969
EST:     CGATGAACTATGGATCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAG                         GAAGATCGAAGCAACTCAGT
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGCAACTCAGT
EST: gi|351031627|gb|FQ459884.1|FQ459884
EST:     CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAG                         GAAGGTCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGG
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGG
EST: gi|352793790|gb|FQ481944.1|FQ481944
EST:     CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTT-CAGAATAACAAG                         GAAGATCGAAGCAACTCAGTTACAA
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGCAACTCAGTTACAA
EST: gi|110391242|gb|EC956204.1|EC956204
EST:     CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAG                         GAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGG
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGG
EST: gi|351035492|gb|FQ463337.1|FQ463337
EST:     CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAG                         GAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGG
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGG
EST: gi|352790487|gb|FQ478127.1|FQ478127
EST:     CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAG                         GAAGATCGAAGCAACTCAG
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGCAACTCAG
EST: gi|351029639|gb|FQ427479.1|FQ427479
EST:     CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAG                         GAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGG
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGG
EST: gi|351032704|gb|FQ462418.1|FQ462418
EST:     CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAG                         GAA-AGTCGAAGCAACTCAGTTACATTTGG
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGA-TCGAAGCAACTCAGTTACAATTGG
EST: gi|352786228|gb|FQ478839.1|FQ478839
EST:     CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAG                         GAAGATCGAAGCCACTCAGTTACAATTGGTGTGGCAG
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAG
EST: gi|110376153|gb|EC941197.1|EC941197
EST:     CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAG                         GAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGG
genomic: CGATGAACTATGGACCAAATGGGGCTGGAGGAAAGTTTCAGAATAACAAGgttcaaccta ... tattttgcagGAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatttatgctttaatttgttgagtttgacgggtagaaggcctgatattttgcagGAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGGCTTGTCGTTGGTCGTGGCGGAAGGAATATAATGGACATCAGTCAG
                                       gcctgat  putative branch site (score: 4)
          tttaatttgtt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gagtttggtattctgaaaccaatcctgttaatatacttttctgcatcatttatgctttaatttgttgagtttgacgggtagaaggcctgatattttgcagGAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGGCTTGTCGTTGGTCGTGGCGGAAGGAATATAATGGACATCAGTCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - ccaatcc
- - - - - - - - - - - - - - - - - - - - ctgcatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggcctga