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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttccttcctcagcccattattagttgatgctattgatattgttagtgatgatgatattgctgaatttaaattatttgttttggtgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCTGGCTGACCCAATAGAAGGAGGCCCATGTTATCAGCTCTACACCAAATCC

Basic information

species Vitis vinifera
transcript Vv05s0020g03200.t01
intron # 5
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|352791045|gb|FQ480038.1|FQ480038
EST:     AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAG                         GGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
genomic: AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAGgttccttcct ... tgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
EST: gi|352786447|gb|FQ479056.1|FQ479056
EST:     AGAGAAGCTTTCTGTGATCCCAGACTTGGGCTTGTCATCAACGATGCCAG                         GGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
genomic: AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAGgttccttcct ... tgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
EST: gi|351055343|gb|FQ441941.1|FQ441941
EST:     AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAG                         GGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
genomic: AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAGgttccttcct ... tgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
EST: gi|349822939|gb|FQ399918.1|FQ399918
EST:     AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAG                         GGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
genomic: AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAGgttccttcct ... tgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
EST: gi|351036339|gb|FQ458714.1|FQ458714
EST:     AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAG                         GGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
genomic: AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAGgttccttcct ... tgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
EST: gi|351039310|gb|FQ461177.1|FQ461177
EST:     AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAG                         GGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
genomic: AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAGgttccttcct ... tgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
EST: gi|351049434|gb|FQ450035.1|FQ450035
EST:     AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAG                         GGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
genomic: AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAGgttccttcct ... tgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
EST: gi|351051773|gb|FQ455187.1|FQ455187
EST:     AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAG                         GGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
genomic: AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAGgttccttcct ... tgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
EST: gi|351035817|gb|FQ463662.1|FQ463662
EST:     AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAG                         GGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
genomic: AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAGgttccttcct ... tgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
EST: gi|351038474|gb|FQ464340.1|FQ464340
EST:     AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAG                         GGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
genomic: AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAGgttccttcct ... tgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
EST: gi|349824845|gb|FQ414703.1|FQ414703
EST:     AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAG                         GGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
genomic: AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAGgttccttcct ... tgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
EST: gi|351038444|gb|FQ464310.1|FQ464310
EST:     AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAG                         GGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGAC
genomic: AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAGgttccttcct ... tgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGAC
EST: gi|351034444|gb|FQ463257.1|FQ463257
EST:     AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAG                         GGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
genomic: AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAGgttccttcct ... tgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
EST: gi|351049225|gb|FQ449947.1|FQ449947
EST:     AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAG                         GGCCGAGCTAGAGAGCAGAGAAGAGTGCTTCGACGTAATCATAGGTGACCT
genomic: AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAGgttccttcct ... tgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
EST: gi|351048095|gb|FQ441267.1|FQ441267
EST:     AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAG                         GGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
genomic: AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAGgttccttcct ... tgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
EST: gi|351053780|gb|FQ441546.1|FQ441546
EST:     AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAG                         GGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
genomic: AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAGgttccttcct ... tgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
EST: gi|351037593|gb|FQ462576.1|FQ462576
EST:     AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAG                         GGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
genomic: AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAGgttccttcct ... tgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
EST: gi|351013942|gb|FQ434094.1|FQ434094
EST:     AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAG                         GGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
genomic: AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAGgttccttcct ... tgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
EST: gi|351048233|gb|FQ442203.1|FQ442203
EST:     AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAG                         GGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
genomic: AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAGgttccttcct ... tgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
EST: gi|352793951|gb|FQ479193.1|FQ479193
EST:     AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAG                         GGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
genomic: AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAGgttccttcct ... tgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
EST: gi|351030375|gb|FQ432313.1|FQ432313
EST:     AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAG                         GGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
genomic: AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAGgttccttcct ... tgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
EST: gi|351032566|gb|FQ458931.1|FQ458931
EST:     AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAG                         GGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
genomic: AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAGgttccttcct ... tgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
EST: gi|351048148|gb|FQ442118.1|FQ442118
EST:     AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAG                         GGCCGAGCTAGAGAGCACAGAAGAGTGTTTCGACGTAATCATACGTGACCT
genomic: AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAGgttccttcct ... tgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
EST: gi|161715874|gb|FC067453.1|FC067453
EST:     AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAG                         GGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
genomic: AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAGgttccttcct ... tgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
EST: gi|351052302|gb|FQ455474.1|FQ455474
EST:     AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAG                         GGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
genomic: AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAGgttccttcct ... tgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
EST: gi|351031893|gb|FQ460150.1|FQ460150
EST:     AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAG                         GGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
genomic: AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAGgttccttcct ... tgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
EST: gi|351022726|gb|FQ428635.1|FQ428635
EST:     AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAG                         GGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
genomic: AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAGgttccttcct ... tgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
EST: gi|349815985|gb|FQ403626.1|FQ403626
EST:     AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAG                         GGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
genomic: AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAGgttccttcct ... tgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
EST: gi|351042120|gb|FQ456330.1|FQ456330
EST:     AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAG                         GGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
genomic: AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAGgttccttcct ... tgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
EST: gi|351031200|gb|FQ445027.1|FQ445027
EST:     AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAG                         GGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAAGTGACCT
genomic: AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAGgttccttcct ... tgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
EST: gi|351039295|gb|FQ461162.1|FQ461162
EST:     AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAG                         GGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
genomic: AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAGgttccttcct ... tgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
EST: gi|351047673|gb|FQ455070.1|FQ455070
EST:     AGAGAAGCTTTCTGTGATCCCAGACTTGGGCTTGTCATCAACGATGCCAG                         GGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT
genomic: AGAGAAGCTTTCTGTGATCCCAGACTTGAGCTTGTCATCAACGATGCCAGgttccttcct ... tgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgttagtgatgatgatattgctgaatttaaattatttgttttggtgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCTGGCTGACCCAATAGAAGGAGGCCCATGTTATCAGCTCTACACCAAATCC
               atattgctgaatttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttccttcctcagcccattattagttgatgctattgatattgttagtgatgatgatattgctgaatttaaattatttgttttggtgaatggcagGGCCGAGCTAGAGAGCAGAGAAGAGTGTTTCGACGTAATCATAGGTGACCTGGCTGACCCAATAGAAGGAGGCCCATGTTATCAGCTCTACACCAAATCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC