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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acaagggttaattgcttgagaataagacctatatcctatgaagctatgaggaagttgcagaggacgcattaacctagtgatctccttgtcttctttgcagCGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCATTCGTTCCAGCTCCAAATGCTTCTGAAGTTGAAGCAGTATTTGATACTC

Basic information

species Vitis vinifera
transcript Vv10s0003g00880.t01
intron # 6
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|30299594|gb|CB976388.1|CB976388
EST:     ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAG                         CGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
genomic: ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAGgtacatcagg ... ttctttgcagCGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
EST: gi|30129160|gb|CB914499.1|CB914499
EST:     ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAG                         CGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
genomic: ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAGgtacatcagg ... ttctttgcagCGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
EST: gi|110408584|gb|EC974220.1|EC974220
EST:     ATCCTTCACTTGTGAATCCTGTTACTGTTCTCGAGCCTTTCGTAGACAAG                         CGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTTTGATAAGAAAGCA
genomic: ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAGgtacatcagg ... ttctttgcagCGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
EST: gi|71872808|gb|DT021863.1|DT021863
EST:     ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAG                         CGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
genomic: ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAGgtacatcagg ... ttctttgcagCGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
EST: gi|110703003|gb|EE079468.1|EE079468
EST:     ATCCTTCACTTGTGAATGCAGTTACTGTTCTCGAGCCTTTCGTAAACAAG                         CGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
genomic: ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAGgtacatcagg ... ttctttgcagCGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
EST: gi|26258817|gb|CA809880.1|CA809880
EST:     ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAG                         CGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
genomic: ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAGgtacatcagg ... ttctttgcagCGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
EST: gi|161708752|gb|FC060063.1|FC060063
EST:     ATCCTTCACTTGTGAATGCTGTAACTGTTCTCTAGCCTTTCGTAAACAAG                         CGTGGTATGAT
genomic: ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAGgtacatcagg ... ttctttgcagCGTGGTATGAT
EST: gi|33407057|gb|CF212684.1|CF212684
EST:     ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAG                         CGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
genomic: ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAGgtacatcagg ... ttctttgcagCGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
EST: gi|77581152|gb|DV219503.1|DV219503
EST:     ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAG                         CGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
genomic: ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAGgtacatcagg ... ttctttgcagCGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
EST: gi|110714421|gb|EE091310.1|EE091310
EST:     ATCCTTCACTTGTGAATGCAGTTACTGTTCTCGAGCCTTTCGTAAACAAG                         CGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
genomic: ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAGgtacatcagg ... ttctttgcagCGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
EST: gi|352777479|gb|FQ474107.1|FQ474107
EST:     ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAG                         CGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
genomic: ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAGgtacatcagg ... ttctttgcagCGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
EST: gi|30127843|gb|CB913182.1|CB913182
EST:     ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAG                         CGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
genomic: ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAGgtacatcagg ... ttctttgcagCGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
EST: gi|349825629|gb|FQ421728.1|FQ421728
EST:     ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAG                         CGCGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
genomic: ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAGgtacatcagg ... ttctttgcagCGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
EST: gi|33404581|gb|CF210208.1|CF210208
EST:     ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAG                         CGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
genomic: ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAGgtacatcagg ... ttctttgcagCGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
EST: gi|110428437|gb|EC994909.1|EC994909
EST:     ATCCTTCACTTGTGAATCCTGTTACTGTTCTCGAGCCTTTCGTAGACAAG                         CGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
genomic: ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAGgtacatcagg ... ttctttgcagCGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
EST: gi|77585680|gb|DV221931.1|DV221931
EST:     ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAG                         CGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
genomic: ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAGgtacatcagg ... ttctttgcagCGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
EST: gi|110406495|gb|EC972068.1|EC972068
EST:     ATCCTTCACTTGTGAATCCTGTTACTGTTCTCGAGCCTTTCGTAGACAAG                         CGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
genomic: ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAGgtacatcagg ... ttctttgcagCGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
EST: gi|30132879|gb|CB918218.1|CB918218
EST:     ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAG                         CGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
genomic: ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAGgtacatcagg ... ttctttgcagCGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
EST: gi|30137187|gb|CB922525.1|CB922525
EST:     ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAG                         CGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
genomic: ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAGgtacatcagg ... ttctttgcagCGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
EST: gi|46911322|gb|CN546697.1|CN546697
EST:     ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAG                         CGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
genomic: ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAGgtacatcagg ... ttctttgcagCGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
EST: gi|161707660|gb|FC056039.1|FC056039
EST:     ATCCTTCACTTGTGAATGCTGTTACTGTTCTCTAGCCTTTCGTAAACAAG                         CGTGGTATGATAGTA
genomic: ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAGgtacatcagg ... ttctttgcagCGTGGTATGATAGTA
EST: gi|33405935|gb|CF211562.1|CF211562
EST:     ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAG                         CGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA
genomic: ATCCTTCACTTGTGAATGCTGTTACTGTTCTCGAGCCTTTCGTAAACAAGgtacatcagg ... ttctttgcagCGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgaggaagttgcagaggacgcattaacctagtgatctccttgtcttctttgcagCGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCATTCGTTCCAGCTCCAAATGCTTCTGAAGTTGAAGCAGTATTTGATACTC
                     cattaac  putative branch site (score: 2)
                                   tctccttgtcttcttt  putative PPT
                      attaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
acaagggttaattgcttgagaataagacctatatcctatgaagctatgaggaagttgcagaggacgcattaacctagtgatctccttgtcttctttgcagCGTGGTATGATAGTAGTTCCTGTGGTTGGCATACTTTCTGATAAGAAAGCATTCGTTCCAGCTCCAAATGCTTCTGAAGTTGAAGCAGTATTTGATACTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - tgcttga
- - - - - - - - - - aataaga
- - - - - - - - - - - - - - - - -tcctatg
- - - - - - - - - - - - - - - - - - - - - -ctatgag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggacgca