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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacatgggaaaggctcaatgttttatttatttgttcaccatcctaattaccccgattcctcaatcatatgttcttctctattatgtcagagactattccttgtatttttctgcagTTGCTCTGTTGCTTCCATTCTTCCCATCAAATTATCACTTGCAATTCAACTACAAGCATGGCTGTTTAGCATGAAATCTACAACCATGACTGCAACAAGT

Basic information

species Vitis vinifera
transcript Vv02s0025g01270.t01
intron # 3
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:     GCTCATCTGATGTAGTTTCAGGGATCAAAGAGGAGGAACCTTCCATCTAG                         TTGCTCTGTTGCTTCCATTCTTCCCATCAAATTATCACTTGCAATTCAACT
genomic: GCTCATCTGATGTAGTTTCAGGGATCAAAGAGGAGGAACCTTCCATCTAGgtacatggga ... ttttctgcagTTGCTCTGTTGCTTCCATTCTTCCCATCAAATTATCACTTGCAATTCAACT
EST: gi|27578659|gb|CB001354.1|CB001354
EST:     GCTCATCTGATGTAGTTTCAGGGATCAAAGAGGAGGAACCTTCCATCTAG                         TTGCTCTGTTGCTTCCATTCTTCCCATCAAATTATCACTTGCAATTCAACT
genomic: GCTCATCTGATGTAGTTTCAGGGATCAAAGAGGAGGAACCTTCCATCTAGgtacatggga ... ttttctgcagTTGCTCTGTTGCTTCCATTCTTCCCATCAAATTATCACTTGCAATTCAACT
EST: gi|27578903|gb|CB001598.1|CB001598
EST:     GCTCATCTGATGTAGTTTCAGGGATCAAAGAGGAGGAACCTTCCATCTAG                         TTGCTCTGTTGCTTCCATTCTTCCCNATCAA-TTATCACTTGCAATTCAAC
genomic: GCTCATCTGATGTAGTTTCAGGGATCAAAGAGGAGGAACCTTCCATCTAGgtacatggga ... ttttctgcagTTGCTCTGTTGCTTCCATTCTTCCC-ATCAAATTATCACTTGCAATTCAAC
EST: gi|27579254|gb|CB001949.1|CB001949
EST:     GCTCATCTGATGTAGTTTCAGGGATCAAAGAGGAGGAACCTTCCATCTAG                         TTGCTCTGTTGCTTCCATTCTTCCCATCAAATTATCACTTGCAATTCAACT
genomic: GCTCATCTGATGTAGTTTCAGGGATCAAAGAGGAGGAACCTTCCATCTAGgtacatggga ... ttttctgcagTTGCTCTGTTGCTTCCATTCTTCCCATCAAATTATCACTTGCAATTCAACT
EST: gi|30322017|gb|CD005279.1|CD005279
EST:     CTCATCTGATGTAGTTTCAGGGATCAAAGAGGGAGGAACCTTCCATCTAG                         GTGCTCTGTTGCTTCCATTCTTCCCA
genomic: CTCATCTGATGTAGTTTCAGGGATCAAAGAGG-AGGAACCTTCCATCTAGgtacatggga ... ttttctgcagTTGCTCTGTTGCTTCCATTCTTCCCA
EST: gi|27581441|gb|CB004136.1|CB004136
EST:     GCTCATCTGATGTAGTTTCAGGGATCAAAGAGGAGGAACCTTCCATCTAG                         TTGCTCTGTTGCTTCCATTCTTCCCAT
genomic: GCTCATCTGATGTAGTTTCAGGGATCAAAGAGGAGGAACCTTCCATCTAGgtacatggga ... ttttctgcagTTGCTCTGTTGCTTCCATTCTTCCCAT
EST: gi|27580807|gb|CB003502.1|CB003502
EST:     GCTCATCTGATGTAGTTTCAGGGATCAAAGAGGAGGAACCTTCCATCTAG                         TTGCTCTGTTGCTTCCATTCTTCCCATCAAATTATCACTTGCAATTCAACT
genomic: GCTCATCTGATGTAGTTTCAGGGATCAAAGAGGAGGAACCTTCCATCTAGgtacatggga ... ttttctgcagTTGCTCTGTTGCTTCCATTCTTCCCATCAAATTATCACTTGCAATTCAACT
EST: gi|27581271|gb|CB003966.1|CB003966
EST:     CTCATCTGATGTAGTTTCAGGGGATCAA-GAGGAGGAACCTTCCATCTAG                         TTGCTCTGTTGCTTCCATTCTTCCCATCAAATTATCACTTGCANATTCA-C
genomic: CTCATCTGATGTAGTTTCAGGG-ATCAAAGAGGAGGAACCTTCCATCTAGgtacatggga ... ttttctgcagTTGCTCTGTTGCTTCCATTCTTCCCATCAAATTATCACTTGCA-ATTCAAC
EST: gi|56408420|gb|CX016672.1|CX016672
EST:     GCTCATCTGATGTAGTTTCAGGGATCAAAGAGGAGGAACCTTCCATCTAG                         TTGCTCTGTTGCTTCCATTCTTCCCATCAAATTATCACTTGCAATTCAACT
genomic: GCTCATCTGATGTAGTTTCAGGGATCAAAGAGGAGGAACCTTCCATCTAGgtacatggga ... ttttctgcagTTGCTCTGTTGCTTCCATTCTTCCCATCAAATTATCACTTGCAATTCAACT
EST: gi|27578630|gb|CB001325.1|CB001325
EST:     GCTCATCTGATGTAGTTTCAGGGATCAAAGAGGAGGAACCTTCCATCTAG                         TTGCTCTGTTGCTTCCATTCTTCCCATCAAATTATCACTTGCAATTCAACT
genomic: GCTCATCTGATGTAGTTTCAGGGATCAAAGAGGAGGAACCTTCCATCTAGgtacatggga ... ttttctgcagTTGCTCTGTTGCTTCCATTCTTCCCATCAAATTATCACTTGCAATTCAACT
EST: gi|110694739|gb|EE072110.1|EE072110
EST:     GCTCATCTGATGTAGTTTCAGGGATCAAAGAGGAGGAACCTTCCATCTAG                         TTGCTCTGTTGCTTCCATTCTTCCCATCAAATTATCACTTGCAATTCAACT
genomic: GCTCATCTGATGTAGTTTCAGGGATCAAAGAGGAGGAACCTTCCATCTAGgtacatggga ... ttttctgcagTTGCTCTGTTGCTTCCATTCTTCCCATCAAATTATCACTTGCAATTCAACT
EST: gi|30322048|gb|CD005310.1|CD005310
EST:     GCTCATCTGATGTAGTTTCAGGGATCAAAGAGGAGGAACCTTCCATCTAG                         TTGCTCTGTTGCTTCCATTCTTCCCATCANATTATCACTTGCAATTNCA-C
genomic: GCTCATCTGATGTAGTTTCAGGGATCAAAGAGGAGGAACCTTCCATCTAGgtacatggga ... ttttctgcagTTGCTCTGTTGCTTCCATTCTTCCCATCAAATTATCACTTGCAATT-CAAC
EST: gi|27579820|gb|CB002515.1|CB002515
EST:     GCTCATCTGATGTAGTTTCAGGGATCAAAGAGGAGGAACCTTCCATCTAG                         TTGCTCTGTTGCTTCCATTCTTCCCATCAAATTATCACTTGCAATTCAACT
genomic: GCTCATCTGATGTAGTTTCAGGGATCAAAGAGGAGGAACCTTCCATCTAGgtacatggga ... ttttctgcagTTGCTCTGTTGCTTCCATTCTTCCCATCAAATTATCACTTGCAATTCAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caatcatatgttcttctctattatgtcagagactattccttgtatttttctgcagTTGCTCTGTTGCTTCCATTCTTCCCATCAAATTATCACTTGCAATTCAACTACAAGCATGGCTGTTTAGCATGAAATCTACAACCATGACTGCAACAAGT
                                   ttccttgtatttttct  CT-rich tract
                                       ttgtattttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacatgggaaaggctcaatgttttatttatttgttcaccatcctaattaccccgattcctcaatcatatgttcttctctattatgtcagagactattccttgtatttttctgcagTTGCTCTGTTGCTTCCATTCTTCCCATCAAATTATCACTTGCAATTCAACTACAAGCATGGCTGTTTAGCATGAAATCTACAACCATGACTGCAACAAGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT