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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCTCTAGCCTTCTTCGGTCTCTCCATTTTTCTTCTTCTCACTCTTGATCTCGATCAGTCCTCTCCTTCTCCTGTCTACGCCGCTTCTCAAGGCGTTGAGgtttcttttcactcccctttgtttggttgctcagaaaatttcggaaattgtttttttccttttttaggaaacgacaaattcattgctttttgtaaatcat...

Basic information

species Vitis vinifera
transcript Vv09s0070g00030.t01
intron # 1
splice site 5'
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|110716468|gb|EE091486.1|EE091486
EST:     TCGATCAGTCCTCTCCTTCTCCTGTCTACGCCGCTTCTCAAGGCGTTGAG                         ATTACTTATGGGTCGACGATTAAGTTAATGCATGAAAGAACTAGATTCCGT
genomic: TCGATCAGTCCTCTCCTTCTCCTGTCTACGCCGCTTCTCAAGGCGTTGAGgtttcttttc ... tttggagtagATTACTTATGGGTCGACGATTAAGTTAATGCATGAAAGAACTAGATTCCGT
EST: gi|161713418|gb|FC063696.1|FC063696
EST:     TCGATCAGTCCTCTCCTTCTCCTGTCTACGCCGCTTCTCAAGGCGTTGAG                         ATTACTTATGGGTCGACGATTAAGTTAATGCATGAAAGAACTAGATTCCGT
genomic: TCGATCAGTCCTCTCCTTCTCCTGTCTACGCCGCTTCTCAAGGCGTTGAGgtttcttttc ... tttggagtagATTACTTATGGGTCGACGATTAAGTTAATGCATGAAAGAACTAGATTCCGT
EST: gi|30297407|gb|CB974201.1|CB974201
EST:     TCGATCAGTCCTCTCCTTCTCCTGTCTACGCCGCTTCTCAAGGCGTTGAG                         ATTACTTATGGGTCGACGATTAAGTTAATGCATGAAAGAACTAGATTCCGT
genomic: TCGATCAGTCCTCTCCTTCTCCTGTCTACGCCGCTTCTCAAGGCGTTGAGgtttcttttc ... tttggagtagATTACTTATGGGTCGACGATTAAGTTAATGCATGAAAGAACTAGATTCCGT
EST: gi|110696373|gb|EE072431.1|EE072431
EST:     TCGATCAGTCCTCTCCTTCTCCTGTCTACGCCGCTTCTCAAGGCGTTGAG                         ATTACTTATGGGTCGACGATTAAGTTAATGCATGAAAGAACTAGATTCCGT
genomic: TCGATCAGTCCTCTCCTTCTCCTGTCTACGCCGCTTCTCAAGGCGTTGAGgtttcttttc ... tttggagtagATTACTTATGGGTCGACGATTAAGTTAATGCATGAAAGAACTAGATTCCGT
EST: gi|161718367|gb|FC067280.1|FC067280
EST:     TCGATCAGTCCTCTCCTTCTCCTGTCTACGCCGCTTCTCAAGGCGTTGAG                         ATTACTTATGGGTCGACGATTAAGTTAATGCATGAAAGAACTAGATTCCGT
genomic: TCGATCAGTCCTCTCCTTCTCCTGTCTACGCCGCTTCTCAAGGCGTTGAGgtttcttttc ... tttggagtagATTACTTATGGGTCGACGATTAAGTTAATGCATGAAAGAACTAGATTCCGT
EST: gi|351030353|gb|FQ432291.1|FQ432291
EST:     TCGATCAGTCCTCTCCTTCTCCTGTCTACGCCGCTTTTCAAGGCGTTGAG                         ATTACTTATGGGTCGACGATTAAGTTAATGCATGAAAGAACTAGATTCCGT
genomic: TCGATCAGTCCTCTCCTTCTCCTGTCTACGCCGCTTCTCAAGGCGTTGAGgtttcttttc ... tttggagtagATTACTTATGGGTCGACGATTAAGTTAATGCATGAAAGAACTAGATTCCGT
EST: gi|351015193|gb|FQ445477.1|FQ445477
EST:     TCGATCAGTCCTCTCCTTCTCCTGTCTACGCCGCTTTTCAAGGCGTTGAG                         ATTACTTATGGGTCGACGATTAAGTTAATGCATGAAAGAACTAGATTCCGT
genomic: TCGATCAGTCCTCTCCTTCTCCTGTCTACGCCGCTTCTCAAGGCGTTGAGgtttcttttc ... tttggagtagATTACTTATGGGTCGACGATTAAGTTAATGCATGAAAGAACTAGATTCCGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGCTCTAGCCTTCTTCGGTCTCTCCATTTTTCTTCTTCTCACTCTTGATCTCGATCAGTCCTCTCCTTCTCCTGTCTACGCCGCTTCTCAAGGCGTTGAGgtttcttttcactcccctttgtttggttgctcagaaaatttcggaaattgtttttttccttttttaggaaacgacaaattcattgctttttgtaaatcat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctcccct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggaaatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aggaaac