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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cgcaggcctttcacatctaaaagtcacaacttgatattgactcattcattccctttaactcttacatttgtagactgctgatctcattctgttcctgcagGTTACACTTAACATTGGTTATTACAGCAACAGCGTGCTGTTGGATTAT

Basic information

species Vitis vinifera
transcript Vv00s0187g00310.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|110388667|gb|EC953442.1|EC953442
EST:     GCATCTCTTATGGTTAGAATCTGCTGCAACAGAGGCCCTTCTGCAAATCT                         GTTACACTTAACATTGGTTATTACAGCAACAGCGTGCTGTTGGATTAT
genomic: GCATCTCTTATGGTTAGAATCTGCTGCAACAGAGGCCCTTCTGCAAATCTgtatggttct ... gttcctgcagGTTACACTTAACATTGGTTATTACAGCAACAGCGTGCTGTTGGATTAT
EST: gi|30128935|gb|CB914274.1|CB914274
EST:     GCATCTCTTATGGTTAGAATCTGCTGCAACAGAGGCCCTTCTGCAAATCT                         GTTACACTTAACATTGGTTATTACAGCAACAGCGTGCTGTTGGGATTAT
genomic: GCATCTCTTATGGTTAGAATCTGCTGCAACAGAGGCCCTTCTGCAAATCTgtatggttct ... gttcctgcagGTTACACTTAACATTGGTTATTACAGCAACAGCGTGCTGTTGG-ATTAT
EST: gi|27579135|gb|CB001830.1|CB001830
EST:     GGTTAGAATCTGCTGCAACAGAGGCCCTTCTGCAAATCT                         GTTACACTTAACATTGGTTATTACAGCAACAGCGTGCTGTTGGATTAT
genomic: GGTTAGAATCTGCTGCAACAGAGGCCCTTCTGCAAATCTgtatggttct ... gttcctgcagGTTACACTTAACATTGGTTATTACAGCAACAGCGTGCTGTTGGATTAT
EST: gi|110405817|gb|EC971371.1|EC971371
EST:     GCATCTCTTATGGTTAGAATCTGCTGCAACAGAGGCCCTTCTGCAAATCT                         GTTACACTTAACATTGGTTATTACAGCAACAGCGTGCTGTTGGATTAT
genomic: GCATCTCTTATGGTTAGAATCTGCTGCAACAGAGGCCCTTCTGCAAATCTgtatggttct ... gttcctgcagGTTACACTTAACATTGGTTATTACAGCAACAGCGTGCTGTTGGATTAT
EST: gi|30129093|gb|CB914432.1|CB914432
EST:     GCATCTCTTATGGTTAGAATCTGCTGCAACAGAGGCCCTTCTGCAAATCT                         GTTACACTTAACATTGGTTATTACAGCAACAGCGTGCTGTTGGATTAT
genomic: GCATCTCTTATGGTTAGAATCTGCTGCAACAGAGGCCCTTCTGCAAATCTgtatggttct ... gttcctgcagGTTACACTTAACATTGGTTATTACAGCAACAGCGTGCTGTTGGATTAT
EST: gi|30126786|gb|CB912125.1|CB912125
EST:     CTCTTATGGTTAGAATCTGCTGCAACAGAGGCCCTTCTGCAAATCT                         GTTACACTTAACATTGGTTATTACAGCAACAGCGTGCTGTTGGATTAT
genomic: CTCTTATGGTTAGAATCTGCTGCAACAGAGGCCCTTCTGCAAATCTgtatggttct ... gttcctgcagGTTACACTTAACATTGGTTATTACAGCAACAGCGTGCTGTTGGATTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcattccctttaactcttacatttgtagactgctgatctcattctgttcctgcagGTTACACTTAACATTGGTTATTACAGCAACAGCGTGCTGTTGGATTAT
                              tgctgat  putative branch site (score: 3)
                                    tctcattctgttcct  CT-rich tract
                ttacattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cgcaggcctttcacatctaaaagtcacaacttgatattgactcattcattccctttaactcttacatttgtagactgctgatctcattctgttcctgcagGTTACACTTAACATTGGTTATTACAGCAACAGCGTGCTGTTGGATTAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT
-gcaggcc
- - - - - - - - ctaaaag
- - - - - - - - - - - -tcacaac
- - - - - - - - - - - - - - - - - - - - ctcattc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -actgctg