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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggtatttacagtattgttattattatggtggtaaactgactggctaagagtagattatattctgaaattctgatacagactttcccttatcatgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAGCGTTCCTGTCACTCGTGTTGGATTTCTGAGGAAGACTATTGAATGTAAG

Basic information

species Vitis vinifera
transcript Vv12s0059g02250.t01
intron # 1
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|351040641|gb|FQ438185.1|FQ438185
EST:     GAGAAGCTGTGAAAAATGGCGTTTTCAATCACTCCGTCTTTCCAAACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|351015440|gb|FQ447269.1|FQ447269
EST:     CAATCACTCCGTCTTTCC-AACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: CAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|349830999|gb|FQ418283.1|FQ418283
EST:     CAATCACTCCGTCTTTCC-AACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: CAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|351015658|gb|FQ427143.1|FQ427143
EST:     GAGAAGCTGTGAAAAATGGCGTTTTCAATCACTCCGTCTTTCCAAACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|71872343|gb|DT021398.1|DT021398
EST:     GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|351049501|gb|FQ429123.1|FQ429123
EST:     GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|349813872|gb|FQ414106.1|FQ414106
EST:     CAATCACTCCGTCTTTCC-AACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: CAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|351041239|gb|FQ444216.1|FQ444216
EST:     GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|351049566|gb|FQ429188.1|FQ429188
EST:     GAGAAGCTGTGAAAAATGGCGTTTTCAATCACTCCGTCTTTCCAAACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|351026730|gb|FQ436383.1|FQ436383
EST:     CAATCACTCCGTCTTTCC-ATTCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: CAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|110702089|gb|EE080405.1|EE080405
EST:     GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|71877417|gb|DT026472.1|DT026472
EST:     GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCC-AACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|351053699|gb|FQ440209.1|FQ440209
EST:     GAGAAGCTGTGAAAAATGGCGTCTTCAGTCACTCCGTCTTTCCAAACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|87584092|gb|DY473380.1|DY473380
EST:     AAAATGGCGTCTTC-ATCACTCCGTCTTTCC-AACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: AAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|351016847|gb|FQ424274.1|FQ424274
EST:     GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|351035806|gb|FQ463651.1|FQ463651
EST:     GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|349824200|gb|FQ417587.1|FQ417587
EST:     GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|352794426|gb|FQ481657.1|FQ481657
EST:     GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|349832341|gb|FQ420902.1|FQ420902
EST:     GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|77580505|gb|DV219147.1|DV219147
EST:     GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|351014840|gb|FQ438040.1|FQ438040
EST:     CAATCACTCCGTCTTTCCAAACCAG                         CAACTTGAGATCTGC-TTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: CAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|351015918|gb|FQ431873.1|FQ431873
EST:     GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|351013041|gb|FQ433768.1|FQ433768
EST:     GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|77584098|gb|DV221088.1|DV221088
EST:     GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCC-AACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|351030575|gb|FQ437001.1|FQ437001
EST:     GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCC-AACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|349828248|gb|FQ416201.1|FQ416201
EST:     ATCACTCCGTCTTTCC-AACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: ATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|351023474|gb|FQ432857.1|FQ432857
EST:     GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|349829434|gb|FQ419966.1|FQ419966
EST:     GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|349826335|gb|FQ416140.1|FQ416140
EST:     GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|349812947|gb|FQ411187.1|FQ411187
EST:     GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|351026249|gb|FQ428261.1|FQ428261
EST:     GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|352786333|gb|FQ478942.1|FQ478942
EST:     GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|351014703|gb|FQ437903.1|FQ437903
EST:     GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|349814569|gb|FQ399209.1|FQ399209
EST:     GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|351026917|gb|FQ436570.1|FQ436570
EST:     GAGAAGCTGTGAAAAATGGCGTTTTCAATCACTCCGTCTTTCCAAACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: GAGAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
EST: gi|71870605|gb|DT019660.1|DT019660
EST:     GAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAG                         CAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG
genomic: GAAGCTGTGAAAAATGGCGTCTTCAATCACTCCGTCTTTCCAAACCAGgtcaaaaccc ... catgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagagtagattatattctgaaattctgatacagactttcccttatcatgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAGCGTTCCTGTCACTCGTGTTGGATTTCTGAGGAAGACTATTGAATGTAAG
                      ttctgat  putative branch site (score: 3)
                                  ctttcccttatcat  putative PPT
        attatattctgaaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggtatttacagtattgttattattatggtggtaaactgactggctaagagtagattatattctgaaattctgatacagactttcccttatcatgtttcagCAACTTGAGATCTGCTTTTTTGGGTGAGAGAAATGGAATCTATGTTTCCAGCGTTCCTGTCACTCGTGTTGGATTTCTGAGGAAGACTATTGAATGTAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - -tggtggt
- - - - - - - - - - - - - - - - aaactga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atacaga