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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgatttgatttttcgacaatgattcttgttgtgttgaattttcccacgatcttagtctatatcaggaagtgctgaagtttttcctccttttctgcttcagGGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTGGTCACCCTTAATGGAGTATAAGATGATAAAATTAGTTGTGTTTTTCTTT

Basic information

species Vitis vinifera
transcript Vv18s0122g00190.t01
intron # 6
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|30329651|gb|CD012913.1|CD012913
EST:     GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAG                         GGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
genomic: GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAGgtatttaaga ... tctgcttcagGGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
EST: gi|26262702|gb|CA813765.1|CA813765
EST:     GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAG                         GGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
genomic: GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAGgtatttaaga ... tctgcttcagGGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
EST: gi|110387568|gb|EC952248.1|EC952248
EST:     GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAG                         GGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
genomic: GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAGgtatttaaga ... tctgcttcagGGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
EST: gi|110398891|gb|EC965370.1|EC965370
EST:     GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAG                         GGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
genomic: GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAGgtatttaaga ... tctgcttcagGGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
EST: gi|351014365|gb|FQ437367.1|FQ437367
EST:     GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAG                         GGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
genomic: GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAGgtatttaaga ... tctgcttcagGGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
EST: gi|110425437|gb|EC991822.1|EC991822
EST:     GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAG                         GGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
genomic: GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAGgtatttaaga ... tctgcttcagGGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
EST: gi|110386869|gb|EC951501.1|EC951501
EST:     GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAG                         GGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
genomic: GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAGgtatttaaga ... tctgcttcagGGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
EST: gi|110732164|gb|EE107221.1|EE107221
EST:     GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAG                         GGGATATGGCTGTGTGAACACCGTGACCGTGCTACTGCACGCAAAATCGTG
genomic: GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAGgtatttaaga ... tctgcttcagGGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
EST: gi|26257553|gb|CA808616.1|CA808616
EST:     GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAG                         GGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
genomic: GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAGgtatttaaga ... tctgcttcagGGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
EST: gi|28959343|gb|CB339672.1|CB339672
EST:     GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAG                         GGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
genomic: GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAGgtatttaaga ... tctgcttcagGGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
EST: gi|26258319|gb|CA809382.1|CA809382
EST:     GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAG                         GGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
genomic: GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAGgtatttaaga ... tctgcttcagGGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
EST: gi|254916144|gb|GR904002.1|GR904002
EST:     GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAG                         GGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
genomic: GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAGgtatttaaga ... tctgcttcagGGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
EST: gi|28959153|gb|CB339578.1|CB339578
EST:     GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAG                         GGGATATGGCTGTGTGAGCCCCGTGACCGTGCTACTGCACGCAAAGTCGTG
genomic: GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAGgtatttaaga ... tctgcttcagGGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
EST: gi|30301103|gb|CB977897.1|CB977897
EST:     GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAG                         GGGATATGGCTGTGTGAGCCCCGTGACCGTGCTACTGCACGCAAAGTCGTG
genomic: GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAGgtatttaaga ... tctgcttcagGGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
EST: gi|26257283|gb|CA808346.1|CA808346
EST:     GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAG                         GGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
genomic: GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAGgtatttaaga ... tctgcttcagGGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
EST: gi|110426779|gb|EC993200.1|EC993200
EST:     GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAG                         GGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
genomic: GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAGgtatttaaga ... tctgcttcagGGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
EST: gi|110711159|gb|EE087374.1|EE087374
EST:     GATTCCAATTACTGATGGACAGTTAAACATGGGAACTTGGCAA                         GGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
genomic: GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAGgtatttaaga ... tctgcttcagGGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
EST: gi|110425239|gb|EC991621.1|EC991621
EST:     GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAG                         GGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
genomic: GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAGgtatttaaga ... tctgcttcagGGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
EST: gi|110379372|gb|EC944560.1|EC944560
EST:     GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAG                         GGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
genomic: GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAGgtatttaaga ... tctgcttcagGGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
EST: gi|30301035|gb|CB977829.1|CB977829
EST:     GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAG                         GGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
genomic: GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAGgtatttaaga ... tctgcttcagGGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
EST: gi|28960863|gb|CB340439.1|CB340439
EST:     GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAG                         GGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
genomic: GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAGgtatttaaga ... tctgcttcagGGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
EST: gi|28959155|gb|CB339579.1|CB339579
EST:     GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAG                         GGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
genomic: GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAGgtatttaaga ... tctgcttcagGGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
EST: gi|30137614|gb|CB922952.1|CB922952
EST:     GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAG                         GGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
genomic: GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAGgtatttaaga ... tctgcttcagGGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
EST: gi|28959315|gb|CB339658.1|CB339658
EST:     GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAG                         GGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG
genomic: GATTCCAATTACTGATGGACAGCTAAACATGGGAACTTGGCAGgtatttaaga ... tctgcttcagGGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acgatcttagtctatatcaggaagtgctgaagtttttcctccttttctgcttcagGGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTGGTCACCCTTAATGGAGTATAAGATGATAAAATTAGTTGTGTTTTTCTTT
                                tttttcctccttttct  CT-rich tract
                             aagttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgatttgatttttcgacaatgattcttgttgtgttgaattttcccacgatcttagtctatatcaggaagtgctgaagtttttcctccttttctgcttcagGGGATATGGCTGTGTGAGCACCGTGACCGTGCTACTGCACGCAAAGTCGTGGTCACCCTTAATGGAGTATAAGATGATAAAATTAGTTGTGTTTTTCTTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - cttgttg
- - - - - - - - - - - - - - - - - - - - ttcccac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgctgaa