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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggcagatcaataagcttgatgatatttgttttcgtaccatatccattgcactatttcagtttgtttctggaccaatatactaacagtcttcacttatcagGGGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACAGTCTTGGTATCCTCCGTCAGTAGTTACCTCTCCAAGTTCCTCACGCCCT

Basic information

species Vitis vinifera
transcript Vv08s0007g04470.t01
intron # 1
splice site 3'
intron type U2

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|351014668|gb|FQ437868.1|FQ437868
EST:     GACCAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTG                         GGGATCTCAAGAGCAACGACCTCAGCCACGGCCACAGGATATTTCTGGACA
genomic: GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTGgtattgctat ... cacttatcagGGGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
EST: gi|110425086|gb|EC991463.1|EC991463
EST:     CGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTG                         GGGATCTCAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
genomic: CGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTGgtattgctat ... cacttatcagGGGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
EST: gi|110423993|gb|EC990346.1|EC990346
EST:     TCGCCATGTTCAAGTCTTTCTG                         GGGATCTCAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
genomic: TCGCCATGTTCAAGTCTTTCTGgtattgctat ... cacttatcagGGGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
EST: gi|351016936|gb|FQ424363.1|FQ424363
EST:     GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTG                         GGGATCTCAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
genomic: GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTGgtattgctat ... cacttatcagGGGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
EST: gi|351012120|gb|FQ429926.1|FQ429926
EST:     GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTG                         GCGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
genomic: GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTGgtattgctat ... cacttatcagGGGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
EST: gi|351014504|gb|FQ437506.1|FQ437506
EST:     GACTAATAACACGATCCACCGACTCTCTTCGCCATGTTCAAGTCTTTCTG                         GGGATCTCAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
genomic: GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTGgtattgctat ... cacttatcagGGGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
EST: gi|34547676|gb|CF515908.1|CF515908
EST:     GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTG                         GGGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
genomic: GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTGgtattgctat ... cacttatcagGGGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
EST: gi|32249995|gb|CD715814.1|CD715814
EST:     GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTG                         GGGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
genomic: GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTGgtattgctat ... cacttatcagGGGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
EST: gi|352790359|gb|FQ477999.1|FQ477999
EST:     GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTG                         GCGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
genomic: GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTGgtattgctat ... cacttatcagGGGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
EST: gi|351013583|gb|FQ429724.1|FQ429724
EST:     GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTG                         GGGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
genomic: GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTGgtattgctat ... cacttatcagGGGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
EST: gi|351043786|gb|FQ431338.1|FQ431338
EST:     GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTG                         GGGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
genomic: GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTGgtattgctat ... cacttatcagGGGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
EST: gi|351053031|gb|FQ456638.1|FQ456638
EST:     GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTG                         GCGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
genomic: GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTGgtattgctat ... cacttatcagGGGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
EST: gi|161708819|gb|FC059624.1|FC059624
EST:     GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTG                         GGGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
genomic: GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTGgtattgctat ... cacttatcagGGGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
EST: gi|30128535|gb|CB913874.1|CB913874
EST:     GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTG                         GGGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
genomic: GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTGgtattgctat ... cacttatcagGGGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
EST: gi|349832473|gb|FQ421034.1|FQ421034
EST:     GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTG                         GGGATCTCAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
genomic: GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTGgtattgctat ... cacttatcagGGGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
EST: gi|351027883|gb|FQ448453.1|FQ448453
EST:     GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTG                         GGGATCTCAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
genomic: GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTGgtattgctat ... cacttatcagGGGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
EST: gi|351057218|gb|FQ450925.1|FQ450925
EST:     GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTG                         GCGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
genomic: GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTGgtattgctat ... cacttatcagGGGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
EST: gi|351027610|gb|FQ446774.1|FQ446774
EST:     GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTG                         GCGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
genomic: GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTGgtattgctat ... cacttatcagGGGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
EST: gi|349828235|gb|FQ416188.1|FQ416188
EST:     GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTG                         GGGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
genomic: GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTGgtattgctat ... cacttatcagGGGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
EST: gi|349823580|gb|FQ414990.1|FQ414990
EST:     GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTG                         GCGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
genomic: GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTGgtattgctat ... cacttatcagGGGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
EST: gi|349827859|gb|FQ422727.1|FQ422727
EST:     GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTG                         GGGATCTCAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
genomic: GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTGgtattgctat ... cacttatcagGGGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
EST: gi|110416745|gb|EC982747.1|EC982747
EST:     GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTG                         GGGATCTCAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA
genomic: GACTAATAACACGATCCACCGATTCTCTTCGCCATGTTCAAGTCTTTCTGgtattgctat ... cacttatcagGGGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgcactatttcagtttgtttctggaccaatatactaacagtcttcacttatcagGGGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACAGTCTTGGTATCCTCCGTCAGTAGTTACCTCTCCAAGTTCCTCACGCCCT
                                tactaac  putative branch site (score: 0)
                                         tcttcactt  putative PPT
                            aatatactaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggcagatcaataagcttgatgatatttgttttcgtaccatatccattgcactatttcagtttgtttctggaccaatatactaacagtcttcacttatcagGGGATCACAAGAGCAACAACCTCAGCCACGGCCACAGGATATTTCTGGACAGTCTTGGTATCCTCCGTCAGTAGTTACCTCTCCAAGTTCCTCACGCCCT

- - - - aataagc
- - - - - - - - - - - - - - - - - - - - - ccattgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - accaata