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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacggttatttattgcttacaagttatatattattataatctacttggtcatctttcaaactttagagacttatgctcgtcttatccattttccattaaccagCCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAAAGTCTGGACGGTCCCTCTACTGTCCTTCAAAAATGCTGGCTGAGCAACT

Basic information

species Vitis vinifera
transcript Vv06s0004g04800.t01
intron # 8
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|110415564|gb|EC981483.1|EC981483
EST:     CAACACAACTAGATGTGGATGGTTTTTTGGTTGGTGGAGCTTCCTTAAAG                         CCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAA
genomic: CAACGCAACTAGATGTGGATGGTTTTTTGGTTGGTGGAGCTTCCTTAAAGgtacggttat ... cattaaccagCCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAA
EST: gi|110390656|gb|EC955578.1|EC955578
EST:     CAACACAACTAGATGTGGATGGTTTTTTGGTTGGGGGAGCTTCCTTAAAG                         CCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAA
genomic: CAACGCAACTAGATGTGGATGGTTTTTTGGTTGGTGGAGCTTCCTTAAAGgtacggttat ... cattaaccagCCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAA
EST: gi|351028511|gb|FQ444792.1|FQ444792
EST:     CAACGCAACTAGATGTGGATGGTTTTTTGGTTGGTGGAGCTTCCTTAAAG                         CCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAA
genomic: CAACGCAACTAGATGTGGATGGTTTTTTGGTTGGTGGAGCTTCCTTAAAGgtacggttat ... cattaaccagCCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAA
EST: gi|110389346|gb|EC954175.1|EC954175
EST:     CAACACAACTAGATGTGGATGGTTTTTTGGTTGGTGGAGCTTCCTTAAAG                         CCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAA
genomic: CAACGCAACTAGATGTGGATGGTTTTTTGGTTGGTGGAGCTTCCTTAAAGgtacggttat ... cattaaccagCCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAA
EST: gi|34548229|gb|CF516461.1|CF516461
EST:     CTAGATGTGGATGGTTTTTTGGTTGGTGGAGCTTCCTTAAAG                         CCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAA
genomic: CTAGATGTGGATGGTTTTTTGGTTGGTGGAGCTTCCTTAAAGgtacggttat ... cattaaccagCCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAA
EST: gi|22015534|gb|BQ800568.1|BQ800568
EST:     CAACACAACTAGATGTGGATGGTTTTTTGGTTGGTGGAGCTTCCTTAAAG                         CCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAA
genomic: CAACGCAACTAGATGTGGATGGTTTTTTGGTTGGTGGAGCTTCCTTAAAGgtacggttat ... cattaaccagCCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAA
EST: gi|34551021|gb|CF519221.1|CF519221
EST:     CAACGCAACTAGATGTGGATGGTTTTTTGGTTGGTGGAGCTTCCTTAAAG                         CCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAA
genomic: CAACGCAACTAGATGTGGATGGTTTTTTGGTTGGTGGAGCTTCCTTAAAGgtacggttat ... cattaaccagCCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAA
EST: gi|33409412|gb|CF215039.1|CF215039
EST:     CAACACAACTAGATGTGGATGGTTTTTTGGTTGGTGGAGCTTCCTTAAAG                         CCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAA
genomic: CAACGCAACTAGATGTGGATGGTTTTTTGGTTGGTGGAGCTTCCTTAAAGgtacggttat ... cattaaccagCCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAA
EST: gi|51989908|gb|CV179363.1|CV179363
EST:     CAACGCAACTAGATGTGGATGGTTTTTTGGTTGGTGGAGCTTCCTTAAAG                         CCGGAGTTCATCGACATCATCAAGTCTGCCGCTGTAAAGAAGAGTGCTTAA
genomic: CAACGCAACTAGATGTGGATGGTTTTTTGGTTGGTGGAGCTTCCTTAAAGgtacggttat ... cattaaccagCCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAA
EST: gi|110378426|gb|EC943557.1|EC943557
EST:     CAACACAACTAGATGTGGATGGTTTTTTGGTTGGTGGAGCTTCCTTAAAG                         CCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAA
genomic: CAACGCAACTAGATGTGGATGGTTTTTTGGTTGGTGGAGCTTCCTTAAAGgtacggttat ... cattaaccagCCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAA
EST: gi|110395870|gb|EC961544.1|EC961544
EST:     CAACGCAACTAGATGTGGATGGTTTTTTGGTTGGTGGAGCTTCCTTAAAG                         CCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAA
genomic: CAACGCAACTAGATGTGGATGGTTTTTTGGTTGGTGGAGCTTCCTTAAAGgtacggttat ... cattaaccagCCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAA
EST: gi|349826936|gb|FQ419027.1|FQ419027
EST:     CAACGCAACTAGATGTGGATGGTTTTTTGGTTGGTGGAGCTTCCTTAAAG                         CCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAA
genomic: CAACGCAACTAGATGTGGATGGTTTTTTGGTTGGTGGAGCTTCCTTAAAGgtacggttat ... cattaaccagCCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAA
EST: gi|110404715|gb|EC970203.1|EC970203
EST:     CAACACAACTAGATGTGGATGGTTTTTTGGTTGGTGGAGCTTCCTTAAAG                         CCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAA
genomic: CAACGCAACTAGATGTGGATGGTTTTTTGGTTGGTGGAGCTTCCTTAAAGgtacggttat ... cattaaccagCCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAA
EST: gi|32461078|gb|CD802252.1|CD802252
EST:     CAACACAACTAGATGTGGATGGTTTTTTGGTTGGTGGAGCTTCCTTAAAG                         CCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAA
genomic: CAACGCAACTAGATGTGGATGGTTTTTTGGTTGGTGGAGCTTCCTTAAAGgtacggttat ... cattaaccagCCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAA
EST: gi|110364963|gb|EC928597.1|EC928597
EST:     CAACACAACTAGATGTGGATGGTTTTTTGGTTGGTGGAGCTTCCTTAAAG                         CCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAA
genomic: CAACGCAACTAGATGTGGATGGTTTTTTGGTTGGTGGAGCTTCCTTAAAGgtacggttat ... cattaaccagCCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAA
EST: gi|110411583|gb|EC977303.1|EC977303
EST:     CAACACAACTAGATGTGGATGGTTTTTTGGTTGGTGGAGCTTCCTTAAAG                         CCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAA
genomic: CAACGCAACTAGATGTGGATGGTTTTTTGGTTGGTGGAGCTTCCTTAAAGgtacggttat ... cattaaccagCCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAA
EST: gi|87586898|gb|DY474983.1|DY474983
EST:     GGTTTTTTGGTTGGTGGAGCTTCCTTAAAG                         CCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAA
genomic: GGTTTTTTGGTTGGTGGAGCTTCCTTAAAGgtacggttat ... cattaaccagCCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAA
EST: gi|33409496|gb|CF215123.1|CF215123
EST:     CAACACAACTAGATGTGGATGGTTTTTTGGTTGGTGGAGCTTCCTTAAAG                         CCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAA
genomic: CAACGCAACTAGATGTGGATGGTTTTTTGGTTGGTGGAGCTTCCTTAAAGgtacggttat ... cattaaccagCCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatctttcaaactttagagacttatgctcgtcttatccattttccattaaccagCCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAAAGTCTGGACGGTCCCTCTACTGTCCTTCAAAAATGCTGGCTGAGCAACT
                               tcttatccattttcc  CT-rich tract
         aaacttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacggttatttattgcttacaagttatatattattataatctacttggtcatctttcaaactttagagacttatgctcgtcttatccattttccattaaccagCCGGAGTTCATCGACATCATCAAGTCTGCCACTGTAAAGAAGAGTGCTTAAAGTCTGGACGGTCCCTCTACTGTCCTTCAAAAATGCTGGCTGAGCAACT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG