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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttcaaagttaaaactcatcgcttcattcttacaattatagtcctttactatttcaggaattctgacgatggtcaaccacatgttgtggctaattcatagatgaaataatgaattttgattgctgattttgttggggaaaacagCTTTGGCTTGCTATGGGCAAGACAGCAGCAGAGAAGGTTGCTTGGAGTAAGTCACAGGAAATGAAAGTGAAGCTTGTTACAGTGTGCCCCGGGCTTCTCA

Basic information

species Vitis vinifera
transcript Vv14s0083g00320.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|110720585|gb|EE096646.1|EE096646
EST:     TCATTGATGAAAGTTGTTGGAGTGACGAGGAATTCTGCAGAGACAGAAAG                         CTTTGGCTTGCTATGGGCAAGACAGCAGCAGAAGAAG-TTGCTTGGAGTAA
genomic: TCATTGATGAAAGTTGTTGGAGTGACGAGGAATTCTGCAGAGACAGAAAGgtacttcaaa ... gggaaaacagCTTTGGCTTGCTATGGGCAAGACAGCAGCAGA-GAAGGTTGCTTGGAGTAA
EST: gi|110718836|gb|EE096125.1|EE096125
EST:     TCATTGATGAAAGTTGTTGGAGTGACNAGGAATTCTGCAGAGACAGAAAG                         CTTTGGCTTGCTATGGGCAAGACAGCAGCAGAGAAGGTTGCTTGGAGTAAG
genomic: TCATTGATGAAAGTTGTTGGAGTGACGAGGAATTCTGCAGAGACAGAAAGgtacttcaaa ... gggaaaacagCTTTGGCTTGCTATGGGCAAGACAGCAGCAGAGAAGGTTGCTTGGAGTAAG
EST: gi|27580474|gb|CB003169.1|CB003169
EST:     TCATTGATGAAAGTTGTTGGAGTGACGAGGAATTCTGCAGAGACAGAAAG                         CTTTGGCTTGCTATGGGCAAGACAGCAGCAGAGAAGGTTGCTTGGAGTAAG
genomic: TCATTGATGAAAGTTGTTGGAGTGACGAGGAATTCTGCAGAGACAGAAAGgtacttcaaa ... gggaaaacagCTTTGGCTTGCTATGGGCAAGACAGCAGCAGAGAAGGTTGCTTGGAGTAAG
EST: gi|110711942|gb|EE088999.1|EE088999
EST:     TCATTGATGAAAGTTGTTGGAGTGACGAGGAATTCTGCAGAGACAGAAAG                         CTTTGGCTTGCTATGGGCAAGACAGCAGCAGAGAAGGTTGCTTGNAGTAAG
genomic: TCATTGATGAAAGTTGTTGGAGTGACGAGGAATTCTGCAGAGACAGAAAGgtacttcaaa ... gggaaaacagCTTTGGCTTGCTATGGGCAAGACAGCAGCAGAGAAGGTTGCTTGGAGTAAG
EST: gi|110711381|gb|EE087792.1|EE087792
EST:     TCATTGATGAAAGTTGTTGGAGTGACGAGGAATTCTGCAGAGACAGAAAG                         CTTTGGCTTGCTATGGGCAAGACAGCAACNNNNNNNGTTGCTTGGAGTAAG
genomic: TCATTGATGAAAGTTGTTGGAGTGACGAGGAATTCTGCAGAGACAGAAAGgtacttcaaa ... gggaaaacagCTTTGGCTTGCTATGGGCAAGACAGCAGCAGAGAAGGTTGCTTGGAGTAAG
EST: gi|110710841|gb|EE087354.1|EE087354
EST:     TCATTGATGAAAGTTGTTGGAGTGACGAGGAATTCTGCAGAGACAGAAAG                         CTTTGGCTTGCTATGGGCAAGACAGCAGCAGAGAAAGTTGCTTGGAGTAAG
genomic: TCATTGATGAAAGTTGTTGGAGTGACGAGGAATTCTGCAGAGACAGAAAGgtacttcaaa ... gggaaaacagCTTTGGCTTGCTATGGGCAAGACAGCAGCAGAGAAGGTTGCTTGGAGTAAG
EST: gi|110730041|gb|EE106669.1|EE106669
EST:     TCATTGATGAAAGTTGTTGGAGTGACGAAGAATTCTGCAGAGACAGAAAG                         CTTTGGCTTGCTATGGGCAAGACAGCAGCAAAGAAGGTTGCTTGGAGTAAG
genomic: TCATTGATGAAAGTTGTTGGAGTGACGAGGAATTCTGCAGAGACAGAAAGgtacttcaaa ... gggaaaacagCTTTGGCTTGCTATGGGCAAGACAGCAGCAGAGAAGGTTGCTTGGAGTAAG
EST: gi|110729823|gb|EE106203.1|EE106203
EST:     TCATTGATGAAAGTTGTTGGAGTGACGAGGAATTCTGCAGAGACAGAAAG                         CTTTGGCTTGCTATGGGCAAGACAGCAACAAAGAAGGTTGCTTGGAGTAAG
genomic: TCATTGATGAAAGTTGTTGGAGTGACGAGGAATTCTGCAGAGACAGAAAGgtacttcaaa ... gggaaaacagCTTTGGCTTGCTATGGGCAAGACAGCAGCAGAGAAGGTTGCTTGGAGTAAG
EST: gi|71863035|gb|DT012090.1|DT012090
EST:     TCATTGATGAAAGTTGTTGGAGTGACGAGGAATTCTGCAGAGACAGAAAG                         CTTTGGCTTGCTATGGGTAAGACAGCAGCAGAGAAGGTTGCTTGGAGTAAG
genomic: TCATTGATGAAAGTTGTTGGAGTGACGAGGAATTCTGCAGAGACAGAAAGgtacttcaaa ... gggaaaacagCTTTGGCTTGCTATGGGCAAGACAGCAGCAGAGAAGGTTGCTTGGAGTAAG
EST: gi|110371210|gb|EC935047.1|EC935047
EST:     TCATTGATGAAAGTTGTTGGAGTGACGAGGAATTCTGCAGAGACAGAAAG                         CTTTGGCTTGCTATGGGCAAGACAGCAGCAGAGAAGGTTGCTTGGAGTAAG
genomic: TCATTGATGAAAGTTGTTGGAGTGACGAGGAATTCTGCAGAGACAGAAAGgtacttcaaa ... gggaaaacagCTTTGGCTTGCTATGGGCAAGACAGCAGCAGAGAAGGTTGCTTGGAGTAAG
EST: gi|161717840|gb|FC066608.1|FC066608
EST:     TCATTGATGAAAGTTGTTGGAGTGACGAGGAATTCTGCAGAGACAGAAAG                         CTTTGGCTTGCTATGGGCAAGACAGCAGCAGAGAAGGTTGCTTGGAGTAAG
genomic: TCATTGATGAAAGTTGTTGGAGTGACGAGGAATTCTGCAGAGACAGAAAGgtacttcaaa ... gggaaaacagCTTTGGCTTGCTATGGGCAAGACAGCAGCAGAGAAGGTTGCTTGGAGTAAG
EST: gi|161718910|gb|FC068628.1|FC068628
EST:     TCATTGATGAAAGTTGTTGGAGTGACGAGGAATTCTGCAGAGACAGAAAG                         CTTTGGCTTGCTATGGGCAAGACA
genomic: TCATTGATGAAAGTTGTTGGAGTGACGAGGAATTCTGCAGAGACAGAAAGgtacttcaaa ... gggaaaacagCTTTGGCTTGCTATGGGCAAGACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctaattcatagatgaaataatgaattttgattgctgattttgttggggaaaacagCTTTGGCTTGCTATGGGCAAGACAGCAGCAGAGAAGGTTGCTTGGAGTAAGTCACAGGAAATGAAAGTGAAGCTTGTTACAGTGTGCCCCGGGCTTCTCA
                               tgctgat  putative branch site (score: 3)
       atagatgaaataatga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacttcaaagttaaaactcatcgcttcattcttacaattatagtcctttactatttcaggaattctgacgatggtcaaccacatgttgtggctaattcatagatgaaataatgaattttgattgctgattttgttggggaaaacagCTTTGGCTTGCTATGGGCAAGACAGCAGCAGAGAAGGTTGCTTGGAGTAAGTCACAGGAAATGAAAGTGAAGCTTGTTACAGTGTGCCCCGGGCTTCTCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC