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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...catgcttttgtcagtttctcttattatcatcaatgattttcgctcaacactactaatttccttcatattgatctttgctgctctctcttcaatcgagtagTCCCGGCTGGTATTTATG

Basic information

species Vitis vinifera
transcript Vv02s0025g01270.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|32246901|gb|CD712720.1|CD712720
EST:     GCTCACCCTTTTTGGATTCTACTTCTTACTTGCCTTTGTGGGTGCCACCA                         TCCCGGCTGGTATTTATG
genomic: GCTCACCCTTTTTGGATTCTACTTCTTACTTGCCTTTGTGGGTGCCACCAgtgagtttcc ... aatcgagtagTCCCGGCTGGTATTTATG
EST: gi|27578659|gb|CB001354.1|CB001354
EST:     GCTCACCCTTTTTGGATTCTACTTCTTACTTGCCTTTGTGGGTGCCACCA                         TCCCGGCTGGTATTTATG
genomic: GCTCACCCTTTTTGGATTCTACTTCTTACTTGCCTTTGTGGGTGCCACCAgtgagtttcc ... aatcgagtagTCCCGGCTGGTATTTATG
EST: gi|27578903|gb|CB001598.1|CB001598
EST:     GCTCACCCTTTTTGGATTCTACTTCTTACTTGCCTTTGTGGGTGCCACCA                         TCCCGGCTGGTATTTATG
genomic: GCTCACCCTTTTTGGATTCTACTTCTTACTTGCCTTTGTGGGTGCCACCAgtgagtttcc ... aatcgagtagTCCCGGCTGGTATTTATG
EST: gi|27579254|gb|CB001949.1|CB001949
EST:     GCTCACCCTTTTTGGATTCTACTTCTTACTTGCCTTTGTGGGTGCCACCA                         TCCCGGCTGGTATTTATG
genomic: GCTCACCCTTTTTGGATTCTACTTCTTACTTGCCTTTGTGGGTGCCACCAgtgagtttcc ... aatcgagtagTCCCGGCTGGTATTTATG
EST: gi|30322017|gb|CD005279.1|CD005279
EST:     GCTCACCCTTTTTGGATTCTACTTCTTACTTGCCTTTGTGGGTGCCACCA                         TCCCGGCTGGTATTTATG
genomic: GCTCACCCTTTTTGGATTCTACTTCTTACTTGCCTTTGTGGGTGCCACCAgtgagtttcc ... aatcgagtagTCCCGGCTGGTATTTATG
EST: gi|27581441|gb|CB004136.1|CB004136
EST:     GCTCACCCTTTTTGGATTCTACTTCTTACTTGCCTTTGTGGGTGCCACCA                         TCCCGGCTGGTATTTATG
genomic: GCTCACCCTTTTTGGATTCTACTTCTTACTTGCCTTTGTGGGTGCCACCAgtgagtttcc ... aatcgagtagTCCCGGCTGGTATTTATG
EST: gi|27580807|gb|CB003502.1|CB003502
EST:     GCTCACCCTTTTTGGATTCTACTTCTTACTTGCCTTTGTGGGTGCCACCA                         TCCCGGCTGGTATTTATG
genomic: GCTCACCCTTTTTGGATTCTACTTCTTACTTGCCTTTGTGGGTGCCACCAgtgagtttcc ... aatcgagtagTCCCGGCTGGTATTTATG
EST: gi|27581271|gb|CB003966.1|CB003966
EST:     GCTCACCCTTTTTGGATTCTACTTCTTACTTGCCTTTGTGGGTGCCACCA                         TCCCGGCTGGTATTTATG
genomic: GCTCACCCTTTTTGGATTCTACTTCTTACTTGCCTTTGTGGGTGCCACCAgtgagtttcc ... aatcgagtagTCCCGGCTGGTATTTATG
EST: gi|56408420|gb|CX016672.1|CX016672
EST:     GCTCACCCTTTTTGGATTCTACTTCTTACTTGCCTTTGTGGGTGCCACCA                         TCCCGGCTGGTATTTATG
genomic: GCTCACCCTTTTTGGATTCTACTTCTTACTTGCCTTTGTGGGTGCCACCAgtgagtttcc ... aatcgagtagTCCCGGCTGGTATTTATG
EST: gi|27580448|gb|CB003143.1|CB003143
EST:     GCTCACCCTTTTTGGATTCTACTTCTTACTTGCCTTTGTGGGTGCCACCA                         TCCCGGCTGGTATTTATG
genomic: GCTCACCCTTTTTGGATTCTACTTCTTACTTGCCTTTGTGGGTGCCACCAgtgagtttcc ... aatcgagtagTCCCGGCTGGTATTTATG
EST: gi|27578630|gb|CB001325.1|CB001325
EST:     GCTCACCCTTTTTGGATTCTACTTCTTACTTGCCTTTGTGGGTGCCACCA                         TCCCGGCTGGTATTTATG
genomic: GCTCACCCTTTTTGGATTCTACTTCTTACTTGCCTTTGTGGGTGCCACCAgtgagtttcc ... aatcgagtagTCCCGGCTGGTATTTATG
EST: gi|110694739|gb|EE072110.1|EE072110
EST:     GCTCACCCTTTTTGGATTCTACTTCTTACTTGCCTTTGTGGGTGCCACCA                         TCCCGGCTGGTATTTATG
genomic: GCTCACCCTTTTTGGATTCTACTTCTTACTTGCCTTTGTGGGTGCCACCAgtgagtttcc ... aatcgagtagTCCCGGCTGGTATTTATG
EST: gi|30322048|gb|CD005310.1|CD005310
EST:     GCTCACCCTTTTTGGATTCTACTTCTTACTTGCCTTTGTGGGTGCCACCA                         TCCCGGCTGGTATTTATG
genomic: GCTCACCCTTTTTGGATTCTACTTCTTACTTGCCTTTGTGGGTGCCACCAgtgagtttcc ... aatcgagtagTCCCGGCTGGTATTTATG
EST: gi|30322267|gb|CD005529.1|CD005529
EST:     GCTCACCCTTTTTGGATTCTACTTCTTACTTGCCTTTGTGGGTGCCACCA                         TCCCCGGCTGGTATTTATG
genomic: GCTCACCCTTTTTGGATTCTACTTCTTACTTGCCTTTGTGGGTGCCACCAgtgagtttcc ... aatcgagtagTCCC-GGCTGGTATTTATG
EST: gi|27579820|gb|CB002515.1|CB002515
EST:     GCTCACCCTTTTTGGATTCTACTTCTTACTTGCCTTTGTGGGTGCCACCA                         TCCCGGCTGGTATTTATG
genomic: GCTCACCCTTTTTGGATTCTACTTCTTACTTGCCTTTGTGGGTGCCACCAgtgagtttcc ... aatcgagtagTCCCGGCTGGTATTTATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacactactaatttccttcatattgatctttgctgctctctcttcaatcgagtagTCCCGGCTGGTATTTATG
                                ctgctctctcttca  CT-rich tract
     tactaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
catgcttttgtcagtttctcttattatcatcaatgattttcgctcaacactactaatttccttcatattgatctttgctgctctctcttcaatcgagtagTCCCGGCTGGTATTTATG

catgctt
- - - - - - - - - - - - - tcatcaa
- - - - - - - - - - - - - - - - - - - - -gctcaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccttcat