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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcatgtctttccccatgttcttagcattatgttcatattttttgagaatcaatgaatcagaaaacttgtttgaaccttggctgtagGCTGGCTGGTGTGGCTCTAGTAGTTCCTGTCATCAATTACTGGTGGCTATCTTTTCCTTCAGAACTCTTCTCCAAGAACTACAAGAAACAATTGGCCAGG

Basic information

species Vitis vinifera
transcript Vv06s0080g00320.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|77582604|gb|DV220288.1|DV220288
EST:     TCCATTGGAACTTACAGCATTTGGGCTTGCCTCAAATACATACCACACAG                         GCTGGCTGGTGTGGCTCTAGTAGTTCCTGTCATCAATTACTGGTGGCCATC
genomic: TCCATTGGAACTTACAGCATTTGGGCTTGCCTCAAATACATACCACACAGgcatgtcttt ... ttggctgtagGCTGGCTGGTGTGGCTCTAGTAGTTCCTGTCATCAATTACTGGTGGCTATC
EST: gi|110700405|gb|EE078409.1|EE078409
EST:     TCCATTGGAACTTACAGCATTTGGGCTTGCCTCAAATACATACCACACAG                         GCTGGCTGGTGTGGCTCTAGTAGTTCCTGTCATCAATTACTGGTGGCCATC
genomic: TCCATTGGAACTTACAGCATTTGGGCTTGCCTCAAATACATACCACACAGgcatgtcttt ... ttggctgtagGCTGGCTGGTGTGGCTCTAGTAGTTCCTGTCATCAATTACTGGTGGCTATC
EST: gi|110700564|gb|EE078744.1|EE078744
EST:     TCCATTGGAACTTACAGCATTTGGGCTTGCCTCAAATACATACCACACAG                         GCTGGCTGGTGTGGCTCTAGTAGTTCCTGTCATCAATTACTGGTGGCCATC
genomic: TCCATTGGAACTTACAGCATTTGGGCTTGCCTCAAATACATACCACACAGgcatgtcttt ... ttggctgtagGCTGGCTGGTGTGGCTCTAGTAGTTCCTGTCATCAATTACTGGTGGCTATC
EST: gi|110700619|gb|EE077430.1|EE077430
EST:     TCCATTGGAACTTACAGCATTTGGGCTTGCCTCAAATACATACCACACAG                         GCTGGCTGGTGTGGCTCTAGTAGTTCCTGTCATCAATTACTGGTGGCCATC
genomic: TCCATTGGAACTTACAGCATTTGGGCTTGCCTCAAATACATACCACACAGgcatgtcttt ... ttggctgtagGCTGGCTGGTGTGGCTCTAGTAGTTCCTGTCATCAATTACTGGTGGCTATC
EST: gi|77579304|gb|DV218477.1|DV218477
EST:     TCCATTGGAACTTACAGCATTTGGGCTTGCCTCAAATACATACCACACAG                         GCTGGCTGGTGTGGCTCTAGTAGTTCCTGTCATCAATTACTGGTGGCCATC
genomic: TCCATTGGAACTTACAGCATTTGGGCTTGCCTCAAATACATACCACACAGgcatgtcttt ... ttggctgtagGCTGGCTGGTGTGGCTCTAGTAGTTCCTGTCATCAATTACTGGTGGCTATC
EST: gi|161713385|gb|FC063377.1|FC063377
EST:     TCCATTGGAACTTACAGCATTTGGGCTTGCCTCAAATACATACCACACAA                         GCTGGCTGGTGTGGCTCT
genomic: TCCATTGGAACTTACAGCATTTGGGCTTGCCTCAAATACATACCACACAGgcatgtcttt ... ttggctgtagGCTGGCTGGTGTGGCTCT
EST: gi|33403752|gb|CF209379.1|CF209379
EST:     TCCATTGGAACTTACAGCATTTGGGCTTGCCTCAAATACATACCACACAG                         GCTGGCTGGTGTGGCTCTAGTAGTTCCTGTCATCAATTACTGGTGGCCATC
genomic: TCCATTGGAACTTACAGCATTTGGGCTTGCCTCAAATACATACCACACAGgcatgtcttt ... ttggctgtagGCTGGCTGGTGTGGCTCTAGTAGTTCCTGTCATCAATTACTGGTGGCTATC
EST: gi|110686540|gb|EE064292.1|EE064292
EST:     TCCATTGGAACTTACAGCATTTGGGCTTGCCTCAAATACATACCACACAG                         GCTGGCTGGTGTGGCTCTAGTAGTTCCTGTCATCAATTACTGGTGGCCATC
genomic: TCCATTGGAACTTACAGCATTTGGGCTTGCCTCAAATACATACCACACAGgcatgtcttt ... ttggctgtagGCTGGCTGGTGTGGCTCTAGTAGTTCCTGTCATCAATTACTGGTGGCTATC
EST: gi|71865690|gb|DT014745.1|DT014745
EST:     TCCATTGGAACTTACAGCATTTGGGCTTGCCTCAAATACATACCACACAG                         GCTGGCTGGTGTGGCTCTAGTAGTTCCTGTCATCAATTACTGGTGGCCATC
genomic: TCCATTGGAACTTACAGCATTTGGGCTTGCCTCAAATACATACCACACAGgcatgtcttt ... ttggctgtagGCTGGCTGGTGTGGCTCTAGTAGTTCCTGTCATCAATTACTGGTGGCTATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcatattttttgagaatcaatgaatcagaaaacttgtttgaaccttggctgtagGCTGGCTGGTGTGGCTCTAGTAGTTCCTGTCATCAATTACTGGTGGCTATCTTTTCCTTCAGAACTCTTCTCCAAGAACTACAAGAAACAATTGGCCAGG
     attttttga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcatgtctttccccatgttcttagcattatgttcatattttttgagaatcaatgaatcagaaaacttgtttgaaccttggctgtagGCTGGCTGGTGTGGCTCTAGTAGTTCCTGTCATCAATTACTGGTGGCTATCTTTTCCTTCAGAACTCTTCTCCAAGAACTACAAGAAACAATTGGCCAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA