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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgactactgagaaaagcgttcagctactatgatagaaaatgaacaattgaagcaactccatgcatgctcattcatcattttaactataatacctgtattatagGATACTTGAACGATCCCGAGGCCACGGCCTCTACCATCGATGTTGACGGTTGGCTACACACCGGTGACATTGGCTATGTTGACGATGATGAAGAGGTGTT

Basic information

species Vitis vinifera
transcript Vv16s0039g02040.t01
intron # 2
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|110425483|gb|EC991868.1|EC991868
EST:     CCGCAACCAACCGGGCGAGATCTGCATTCGAGGACAACAGATTATGAAAG                         GATACTTGAACGATCCCGAGGCCACGGCCTCTACCATCGATGTTGACGGTT
genomic: CCGCAACCAACCGGGCGAGATCTGCATTCGAGGACAACAGATTATGAAAGgtttgactac ... tgtattatagGATACTTGAACGATCCCGAGGCCACGGCCTCTACCATCGATGTTGACGGTT
EST: gi|110699052|gb|EE077254.1|EE077254
EST:     CCGCAACCAACCGGGCGAGATCTGCATTCGAGGACAACAGATTATGAAAG                         GATACTTGAACGATCCCGAGGCCACGGCCTCTACCATCGATGTTGACGGTT
genomic: CCGCAACCAACCGGGCGAGATCTGCATTCGAGGACAACAGATTATGAAAGgtttgactac ... tgtattatagGATACTTGAACGATCCCGAGGCCACGGCCTCTACCATCGATGTTGACGGTT
EST: gi|33404900|gb|CF210527.1|CF210527
EST:     CCGCAACCAACCGGGCGAGATCTGCATTCGAGGACAACAGATTATGAAAG                         GATACTTGAACGATCCCGAGGCCACGGCCTCTACCATCGATGTTGACGGTT
genomic: CCGCAACCAACCGGGCGAGATCTGCATTCGAGGACAACAGATTATGAAAGgtttgactac ... tgtattatagGATACTTGAACGATCCCGAGGCCACGGCCTCTACCATCGATGTTGACGGTT
EST: gi|110699199|gb|EE075988.1|EE075988
EST:     CCGCAACCAACCGGGCGAGATCTGCATTCGAGGACAACAGATTATGAAAG                         GATACTTGAACGATCCCGAGGCCACGGCCTCTACCATCGATGTTGACGGTT
genomic: CCGCAACCAACCGGGCGAGATCTGCATTCGAGGACAACAGATTATGAAAGgtttgactac ... tgtattatagGATACTTGAACGATCCCGAGGCCACGGCCTCTACCATCGATGTTGACGGTT
EST: gi|110361934|gb|EC925440.1|EC925440
EST:     CCGCAACCAACCGGGCGAGATCTGCATTCGAGGACAACAGATTATGAAAG                         GATACTTGAACGATCCCGAGGCCACGGCCTCTACCATCGATGTTGACGGTT
genomic: CCGCAACCAACCGGGCGAGATCTGCATTCGAGGACAACAGATTATGAAAGgtttgactac ... tgtattatagGATACTTGAACGATCCCGAGGCCACGGCCTCTACCATCGATGTTGACGGTT
EST: gi|110384288|gb|EC948716.1|EC948716
EST:     CCGCAACCAACCGGGCGAGATCTGCATTCGAGGACAACAGATTATGAAAG                         GATACTTGAACGATCCCGAGGCCACGGCCTCTACCATCGATGTTGACGGTT
genomic: CCGCAACCAACCGGGCGAGATCTGCATTCGAGGACAACAGATTATGAAAGgtttgactac ... tgtattatagGATACTTGAACGATCCCGAGGCCACGGCCTCTACCATCGATGTTGACGGTT
EST: gi|352768957|gb|FQ468148.1|FQ468148
EST:     CCGCAACCAACCGGGCGAGATCTGCATTCGAGGACAACAGATTATGAAAG                         GATACTTGAACGATCCCGAGGCCACGGCCTCTACCATCGATGTTGACGGTT
genomic: CCGCAACCAACCGGGCGAGATCTGCATTCGAGGACAACAGATTATGAAAGgtttgactac ... tgtattatagGATACTTGAACGATCCCGAGGCCACGGCCTCTACCATCGATGTTGACGGTT
EST: gi|33404985|gb|CF210612.1|CF210612
EST:     CCGCAACCAACCGGGCGAGATCTGCATTCGAGGACAACAGATTATGAAAG                         GATACTTGAACGATCCCGAGGCCACGGCCTCTACCATCGATGTTGACGGTT
genomic: CCGCAACCAACCGGGCGAGATCTGCATTCGAGGACAACAGATTATGAAAGgtttgactac ... tgtattatagGATACTTGAACGATCCCGAGGCCACGGCCTCTACCATCGATGTTGACGGTT
EST: gi|110376549|gb|EC941609.1|EC941609
EST:     CCGCAACCAACCGGGCGAGATCTGCATTCGAGGACAACAGATTATGAAAG                         GATACTTGAACGATCCCGAGGCCACGGCCTCTACCATCGATGTTGACGGTT
genomic: CCGCAACCAACCGGGCGAGATCTGCATTCGAGGACAACAGATTATGAAAGgtttgactac ... tgtattatagGATACTTGAACGATCCCGAGGCCACGGCCTCTACCATCGATGTTGACGGTT
EST: gi|110362812|gb|EC926367.1|EC926367
EST:     CCGCAACCAACCGGGCGAGATCTGCATTCGAGGACAACAGATTATGAAAG                         GATACTTGAACGATCCCGAGGCCACGGCCTCTACCATCGATGTTGACGGTT
genomic: CCGCAACCAACCGGGCGAGATCTGCATTCGAGGACAACAGATTATGAAAGgtttgactac ... tgtattatagGATACTTGAACGATCCCGAGGCCACGGCCTCTACCATCGATGTTGACGGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaagcaactccatgcatgctcattcatcattttaactataatacctgtattatagGATACTTGAACGATCCCGAGGCCACGGCCTCTACCATCGATGTTGACGGTTGGCTACACACCGGTGACATTGGCTATGTTGACGATGATGAAGAGGTGTT
                             ttttaac  putative branch site (score: 2)
                     attcatcattttaact  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgactactgagaaaagcgttcagctactatgatagaaaatgaacaattgaagcaactccatgcatgctcattcatcattttaactataatacctgtattatagGATACTTGAACGATCCCGAGGCCACGGCCTCTACCATCGATGTTGACGGTTGGCTACACACCGGTGACATTGGCTATGTTGACGATGATGAAGAGGTGTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG