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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATAATGTTGCACTAATAGCAGTCCTGGAAGCAAAATTCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTGgtgagggaatagttacaaccattttttttgttgccgatattattgttgttgcaacttccttttgttgtatattgcttgctgaaactgttgcaaaagccct...

Basic information

species Vitis vinifera
transcript Vv08s0007g07020.t01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0007g07020.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: AT3G58560.1 (Arabidopsis thaliana), 5'ss of exon 6
GATAATGTTGCACTAATAGCAGTCCTGGAAGCAAAATTCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTGgtgaggga---atagttacaaccattttttttgttgcc------gatattattgttgttgcaacttccttttgttgtatattgcttgctgaaactgttgcaaaagccct----------------------------------
|||||||||||  ||||||  || ||||||||||||||| ||  ||||| |||||| | ||||||||| || || || ||||||||||| ||      ||  || |||   | || ||| ||| |      |||  ||  ||||  |  |  |  ||    |   | ||      | ||  | | |       | |                                  
GATAATGTTGCTTTAATAGTTGTACTGGAAGCAAAATTCGGTAGCCAGGCTGCTGACAATCCTGGGAAGCGCCAGCTACTTTGTGTGgtaagttgtccatcttttcaatattgttctttattgtcagagatgatgctagagttgaagttatgtgtttccacttcctcttctcctttaaaggtctcgaggtgatcatgttttctctcttttcatgtatttgatgggtgcag
















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|349808434|gb|FQ405578.1|FQ405578
EST:     TCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTG                         GCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG
genomic: TCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTGgtgagggaat ... tggagttcagGCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG
EST: gi|351051864|gb|FQ455278.1|FQ455278
EST:     TCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTG                         GCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG
genomic: TCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTGgtgagggaat ... tggagttcagGCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG
EST: gi|351052763|gb|FQ456490.1|FQ456490
EST:     TCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTG                         GCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG
genomic: TCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTGgtgagggaat ... tggagttcagGCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG
EST: gi|351044388|gb|FQ452940.1|FQ452940
EST:     TCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTG                         GCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG
genomic: TCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTGgtgagggaat ... tggagttcagGCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG
EST: gi|77581062|gb|DV219456.1|DV219456
EST:     TCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTG                         GCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG
genomic: TCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTGgtgagggaat ... tggagttcagGCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG
EST: gi|351048297|gb|FQ449389.1|FQ449389
EST:     TCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTG                         GCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG
genomic: TCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTGgtgagggaat ... tggagttcagGCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG
EST: gi|349810776|gb|FQ403019.1|FQ403019
EST:     TCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTG                         GCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG
genomic: TCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTGgtgagggaat ... tggagttcagGCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG
EST: gi|351037882|gb|FQ465120.1|FQ465120
EST:     CCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTG                         GCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG
genomic: TCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTGgtgagggaat ... tggagttcagGCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG
EST: gi|351054602|gb|FQ456799.1|FQ456799
EST:     TCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTG                         GCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG
genomic: TCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTGgtgagggaat ... tggagttcagGCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG
EST: gi|349813262|gb|FQ411502.1|FQ411502
EST:     TCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTG                         GCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG
genomic: TCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTGgtgagggaat ... tggagttcagGCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG
EST: gi|351016092|gb|FQ432047.1|FQ432047
EST:     TCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTG                         GCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG
genomic: TCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTGgtgagggaat ... tggagttcagGCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG
EST: gi|351039176|gb|FQ457851.1|FQ457851
EST:     TCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTG                         GCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG
genomic: TCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTGgtgagggaat ... tggagttcagGCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG
EST: gi|351048422|gb|FQ448696.1|FQ448696
EST:     TCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTG                         GCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG
genomic: TCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTGgtgagggaat ... tggagttcagGCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG
EST: gi|77585060|gb|DV221616.1|DV221616
EST:     TCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTG                         GCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG
genomic: TCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTGgtgagggaat ... tggagttcagGCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG
EST: gi|351047379|gb|FQ451891.1|FQ451891
EST:     TCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTG                         GCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG
genomic: TCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTGgtgagggaat ... tggagttcagGCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG
EST: gi|77583147|gb|DV220609.1|DV220609
EST:     TCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTG                         GCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG
genomic: TCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTGgtgagggaat ... tggagttcagGCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG
EST: gi|349815100|gb|FQ410323.1|FQ410323
EST:     TCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTG                         GCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG
genomic: TCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTGgtgagggaat ... tggagttcagGCAAATACACACATAAATGTTCATCAAGAATTGAAAGATGTCAAGTTGTGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GATAATGTTGCACTAATAGCAGTCCTGGAAGCAAAATTCAGTTACCAGGGTGCTGATATTCCTGGGAAACGACAACTTCTTTGTGTGgtgagggaatagttacaaccattttttttgttgccgatattattgttgttgcaacttccttttgttgtatattgcttgctgaaactgttgcaaaagccct

- - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggaatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcaaaag