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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CACAGTGGAAACGACAAATCTTGTGTGTGGCATGCAACGGACTTTGCAGATGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGAgtgagtgttcgtttatattagttatttcctttatctgctagatttctgcgtgcgtttcatatatttacattccccgtactttgtattatttagtgaatct...

Basic information

species Vitis vinifera
transcript Vv08s0217g00030.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0217g00030.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT1G07140.1 (Arabidopsis thaliana), 5'ss of exon 3
CACAGTGGAAACGACAAATCTTGTGTGTGGCATGCAACGGACTTTGCAGATGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGAgtgagtgttcgtttatatta-gttatttcctttatct-gctagattt---ctgcgtgcgtttcatatatttacattccccgtactttgtattatttagtgaatct
|||  ||| || || || || ||||||||||| ||    |||||||| ||||||||||| |||||||||||||| || || ||||| || ||  |||||||||||| |        |||  || ||  | | | | | ||   ||||   ||  ||  |||| ||| ||| ||        |   |  |     ||         
CACGTTGGGAATGAAAAGTCATGTGTGTGGCACGCTCGTGACTTTGCTGATGGTGAACTCAAGGATGAGCTTTTCTGTATCCGATTTGCTTCTATTGAGAgtgagtatgaaaccgaattttgtaatggcttgtgttttgccttatttagtctcagttggtttgatagattcacggattagattactgatggatcttgacc-----
















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|351041202|gb|FQ444179.1|FQ444179
EST:     TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGA                         ATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
genomic: TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGAgtgagtgttc ... cgtattccagATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
EST: gi|351047599|gb|FQ454996.1|FQ454996
EST:     TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGA                         ATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
genomic: TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGAgtgagtgttc ... cgtattccagATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
EST: gi|110369567|gb|EC933730.1|EC933730
EST:     TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGA                         ATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
genomic: TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGAgtgagtgttc ... cgtattccagATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
EST: gi|71868411|gb|DT017466.1|DT017466
EST:     TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGA                         ATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
genomic: TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGAgtgagtgttc ... cgtattccagATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
EST: gi|351018625|gb|FQ424732.1|FQ424732
EST:     TGGTGAACTTAAGGATGAGCTTTTCTGCATTCGATTCGCATCAGTTGAGA                         ATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
genomic: TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGAgtgagtgttc ... cgtattccagATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
EST: gi|87584547|gb|DY473671.1|DY473671
EST:     TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGA                         ATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
genomic: TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGAgtgagtgttc ... cgtattccagATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
EST: gi|110412080|gb|EC977815.1|EC977815
EST:     TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGA                         ATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
genomic: TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGAgtgagtgttc ... cgtattccagATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
EST: gi|351051724|gb|FQ449538.1|FQ449538
EST:     TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGA                         ATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
genomic: TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGAgtgagtgttc ... cgtattccagATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
EST: gi|349821588|gb|FQ408147.1|FQ408147
EST:     TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGA                         ATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
genomic: TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGAgtgagtgttc ... cgtattccagATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
EST: gi|349807515|gb|FQ401930.1|FQ401930
EST:     TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGACTCGCATCAGTTGAGA                         ATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
genomic: TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGAgtgagtgttc ... cgtattccagATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
EST: gi|351041377|gb|FQ447504.1|FQ447504
EST:     TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGA                         ATTGCAAAACCTTCATGGAAATGTTTTAAGAAGTTGCTGAAAGCCAGGGAA
genomic: TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGAgtgagtgttc ... cgtattccagATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
EST: gi|351054857|gb|FQ462887.1|FQ462887
EST:     TGGTGAACTTAAGGATGAGCTTTTCTGCATTCGATTCGCATCAGTTGAGA                         ATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
genomic: TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGAgtgagtgttc ... cgtattccagATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
EST: gi|110694419|gb|EE071510.1|EE071510
EST:     TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGA                         ATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
genomic: TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGAgtgagtgttc ... cgtattccagATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
EST: gi|110693539|gb|EE069860.1|EE069860
EST:     TGGTGAACTTAAGGATGAGCTTTTCTGCATTCGATTCGCATCAGTTGAGA                         ATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
genomic: TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGAgtgagtgttc ... cgtattccagATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
EST: gi|351043061|gb|FQ443903.1|FQ443903
EST:     TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGA                         ATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
genomic: TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGAgtgagtgttc ... cgtattccagATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
EST: gi|110393884|gb|EC959440.1|EC959440
EST:     TGGTGAACTTAAGGATGAGCTTTTCTGCATTCGATTCGCATCAGTTGAGA                         ATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
genomic: TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGAgtgagtgttc ... cgtattccagATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
EST: gi|34320471|gb|CF373225.1|CF373225
EST:     TGGTGAACTTAAGGATGAGCTTTTCTGCATTCGATTCGCATCAGTTGAGA                         ATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGG
genomic: TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGAgtgagtgttc ... cgtattccagATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGG
EST: gi|349826967|gb|FQ419058.1|FQ419058
EST:     TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGA                         ATTGCAAAACCTTCATGGAAATGTTTTAAGAAGTTGCTGAAAGCCAGGGAA
genomic: TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGAgtgagtgttc ... cgtattccagATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
EST: gi|83276577|gb|DV940585.1|DV940585
EST:     TGGTGAAATTAAGGATGAGGTCTTTTGCATTTGATTCGCATCAGGTGAGA                         ATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
genomic: TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGAgtgagtgttc ... cgtattccagATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
EST: gi|46917665|gb|CN546994.1|CN546994
EST:     TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGA                         ATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
genomic: TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGAgtgagtgttc ... cgtattccagATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
EST: gi|349815553|gb|FQ400709.1|FQ400709
EST:     TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGA                         ATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
genomic: TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGAgtgagtgttc ... cgtattccagATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
EST: gi|71866739|gb|DT015794.1|DT015794
EST:     TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGA                         ATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
genomic: TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGAgtgagtgttc ... cgtattccagATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
EST: gi|349810047|gb|FQ398672.1|FQ398672
EST:     TGGTGAACTTAAGGATGAGCTTTTTTGCATTCAATTCGCATCAGTTGAGA                         ATTGCAAAACCTTCATGGAAATGTTTCACGAAGTTGCTGAAA
genomic: TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGAgtgagtgttc ... cgtattccagATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAA
EST: gi|349808979|gb|FQ406829.1|FQ406829
EST:     TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGA                         ATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
genomic: TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGAgtgagtgttc ... cgtattccagATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
EST: gi|30125563|gb|CB910902.1|CB910902
EST:     TGGTGAACGGAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGA                         ATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
genomic: TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGAgtgagtgttc ... cgtattccagATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
EST: gi|30125538|gb|CB910877.1|CB910877
EST:     TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGA                         ATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
genomic: TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGAgtgagtgttc ... cgtattccagATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
EST: gi|110700918|gb|EE077995.1|EE077995
EST:     TGGTGAACTTAAGGATGAGCTTTTCTGCATTCGATTCGCATCAGTTGAGA                         ATTGCATAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAGAGCCAGGGAA
genomic: TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGAgtgagtgttc ... cgtattccagATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
EST: gi|161717051|gb|FC068459.1|FC068459
EST:     TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGA                         ATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
genomic: TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGAgtgagtgttc ... cgtattccagATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
EST: gi|351043448|gb|FQ444048.1|FQ444048
EST:     TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGA                         ATTGCAAAACCTTCATGGAAATGTTTTAAGAAGTTGCTGAAAGCCAGGGAA
genomic: TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGAgtgagtgttc ... cgtattccagATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
EST: gi|349812667|gb|FQ409826.1|FQ409826
EST:     TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGA                         ATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA
genomic: TGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGAgtgagtgttc ... cgtattccagATTGCAAAACCTTCATGGAAATGTTTCAAGAAGTTGCTGAAAGCCAGGGAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CACAGTGGAAACGACAAATCTTGTGTGTGGCATGCAACGGACTTTGCAGATGGTGAACTTAAGGATGAGCTTTTTTGCATTCGATTCGCATCAGTTGAGAgtgagtgttcgtttatattagttatttcctttatctgctagatttctgcgtgcgtttcatatatttacattccccgtactttgtattatttagtgaatct

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT