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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgaagagatcttctatttagtgagtttaattgtagttagcatcaatttgcctcactctgatgtcttgttcatagAGCAAAGCCGGAGGGATGATTTGGAGTCGCTTGGATATGTACTTCTATATTTTTTGAGAGGAAG

Basic information

species Vitis vinifera
transcript Vv11s0016g03460.t01
intron # 7
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|32265262|gb|CD716851.1|CD716851
EST:     CTTAACTGGAACTGCACGTTATGCAAGTTGCAATACACATCTTGGAATCG                         AGCAAAGCCGGAGGGATGATTTGGAGTCGCTTGGATATGTACTTCTATATT
genomic: CTTAACTGGAACTGCACGTTATGCAAGTTGCAATACACATCTTGGAATCGgtaagtgaag ... ttgttcatagAGCAAAGCCGGAGGGATGATTTGGAGTCGCTTGGATATGTACTTCTATATT
EST: gi|30328832|gb|CD012094.1|CD012094
EST:     CTTAACTGGAACTGCACGTTATGCAAGTTGCAATACACATCTTGGAATCG                         AGCAAAGCCGGAGGGATGATTTGGAGTCGCTTGGATATGTACTTCTATATT
genomic: CTTAACTGGAACTGCACGTTATGCAAGTTGCAATACACATCTTGGAATCGgtaagtgaag ... ttgttcatagAGCAAAGCCGGAGGGATGATTTGGAGTCGCTTGGATATGTACTTCTATATT
EST: gi|32250210|gb|CD716029.1|CD716029
EST:     CTTAACTGGAACTGCACGTTATGCAAGTTGCAATACACATCTTGGAATCG                         AGCNAAGCCGGAGGGATGATTTGGAGTCGCTTGGATATGTACTTCTATA
genomic: CTTAACTGGAACTGCACGTTATGCAAGTTGCAATACACATCTTGGAATCGgtaagtgaag ... ttgttcatagAGCAAAGCCGGAGGGATGATTTGGAGTCGCTTGGATATGTACTTCTATA
EST: gi|71863133|gb|DT012188.1|DT012188
EST:     CTTAACTGGAACTGCACGTTATGCAAGTTGCAATACACATCTTGGAATCG                         AGCAAAGCCGGAGGGATGATTTGGAGTCGCTTGGATATGTACTTCTATATT
genomic: CTTAACTGGAACTGCACGTTATGCAAGTTGCAATACACATCTTGGAATCGgtaagtgaag ... ttgttcatagAGCAAAGCCGGAGGGATGATTTGGAGTCGCTTGGATATGTACTTCTATATT
EST: gi|110373710|gb|EC938001.1|EC938001
EST:     CTTAACTGGAACTGCACGTTATGCAAGTTGCAATACACATCTTGGAATCG                         AGCAAAGCCGGAGGGATGATTTGGAGTCGCTTGGATATGTACTTCTATATT
genomic: CTTAACTGGAACTGCACGTTATGCAAGTTGCAATACACATCTTGGAATCGgtaagtgaag ... ttgttcatagAGCAAAGCCGGAGGGATGATTTGGAGTCGCTTGGATATGTACTTCTATATT
EST: gi|71863496|gb|DT012551.1|DT012551
EST:     CTTAACTGGAACTGCACGTTATGCAAGTTGCAATACACATCTTGGAATCG                         AGCAAAGCCGGAGGGATGATTTGGAGTCGCTTGGATATGTACTTCTATATT
genomic: CTTAACTGGAACTGCACGTTATGCAAGTTGCAATACACATCTTGGAATCGgtaagtgaag ... ttgttcatagAGCAAAGCCGGAGGGATGATTTGGAGTCGCTTGGATATGTACTTCTATATT
EST: gi|71873064|gb|DT022119.1|DT022119
EST:     CTTAACTGGAACTGCACGTTATGCAAGTTGCAATACACATCTTGGAATCG                         AGCAAAGCCGGAGGGATGATTTGGAGTCGCTTGGATATGTACTTCTATATT
genomic: CTTAACTGGAACTGCACGTTATGCAAGTTGCAATACACATCTTGGAATCGgtaagtgaag ... ttgttcatagAGCAAAGCCGGAGGGATGATTTGGAGTCGCTTGGATATGTACTTCTATATT
EST: gi|110702369|gb|EE081005.1|EE081005
EST:     CTTAACTGGAACTGCACGTTATGCAAGTTGCAATACACATCTTGGAATCG                         AGCAAAGCCGGAGGGATGATTTGGAGTCGCTTGGATATGTACTTCTATATT
genomic: CTTAACTGGAACTGCACGTTATGCAAGTTGCAATACACATCTTGGAATCGgtaagtgaag ... ttgttcatagAGCAAAGCCGGAGGGATGATTTGGAGTCGCTTGGATATGTACTTCTATATT
EST: gi|352781444|gb|FQ468288.1|FQ468288
EST:     CTTAACTGGAACTGCACGTTATGCAAGTTGCAATACACATCTTGGAATCG                         AGCAAAGCCGGAGGGATGATTTGGAGTCGCTTGGATATGTACTTCTATATT
genomic: CTTAACTGGAACTGCACGTTATGCAAGTTGCAATACACATCTTGGAATCGgtaagtgaag ... ttgttcatagAGCAAAGCCGGAGGGATGATTTGGAGTCGCTTGGATATGTACTTCTATATT
EST: gi|27580104|gb|CB002799.1|CB002799
EST:     CTTAACTGGAACTGCACGTTATGCAAGTTGCAATACACATCTTGGAATCG                         AGCAAAGCCGGAGGGATGATTTGGAGTCGCTTGGATATGTACTTCTATATT
genomic: CTTAACTGGAACTGCACGTTATGCAAGTTGCAATACACATCTTGGAATCGgtaagtgaag ... ttgttcatagAGCAAAGCCGGAGGGATGATTTGGAGTCGCTTGGATATGTACTTCTATATT
EST: gi|352768395|gb|FQ469571.1|FQ469571
EST:     CTTAACTGGAACTGCACGTTATGCAAGTTGCAATACACATCTTGGAATCG                         AGCAAAGCCGGAGGGATGATTTGGAGTCGCTTGGATATGTACTTCTATATT
genomic: CTTAACTGGAACTGCACGTTATGCAAGTTGCAATACACATCTTGGAATCGgtaagtgaag ... ttgttcatagAGCAAAGCCGGAGGGATGATTTGGAGTCGCTTGGATATGTACTTCTATATT
EST: gi|110710321|gb|EE086552.1|EE086552
EST:     CTTAACTGGAACTGCACGTTATGCAAGTTGCAATACACATCTTGGAATCG                         AGCAAAGCCGGAGGGATGATTTGGAGTCGCTTGGATATGTACTTCTATATT
genomic: CTTAACTGGAACTGCACGTTATGCAAGTTGCAATACACATCTTGGAATCGgtaagtgaag ... ttgttcatagAGCAAAGCCGGAGGGATGATTTGGAGTCGCTTGGATATGTACTTCTATATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgagtttaattgtagttagcatcaatttgcctcactctgatgtcttgttcatagAGCAAAGCCGGAGGGATGATTTGGAGTCGCTTGGATATGTACTTCTATATTTTTTGAGAGGAAG
                                           tcttgttc  CT-rich tract
     tttaattgtagtta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtgaagagatcttctatttagtgagtttaattgtagttagcatcaatttgcctcactctgatgtcttgttcatagAGCAAAGCCGGAGGGATGATTTGGAGTCGCTTGGATATGTACTTCTATATTTTTTGAGAGGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA