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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttccatttctttctcttaaatttccatctctctttgctctacatattctaatttcctccaattcttgatgttgttcaccagGCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCGTTGATGTATTCATCCCCAGAGATCGAAG

Basic information

species Vitis vinifera
transcript Vv18s0001g05550.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|351026523|gb|FQ428535.1|FQ428535
EST:     TCCGGACATCAGAGATACCTATTCTTTACTCGTTCTCAACATCACTTTCC                         GCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCG
genomic: TCCGGACATCAGAGATACCTATTCTTTACTCGTTCTCAACATCACTTTCCgtaatttcca ... tgttcaccagGCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCG
EST: gi|351015878|gb|FQ431833.1|FQ431833
EST:     TCCGGACATCAGAGATACCTATTCTTTACTCGTTCTCAACATCACTTTCC                         GCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCG
genomic: TCCGGACATCAGAGATACCTATTCTTTACTCGTTCTCAACATCACTTTCCgtaatttcca ... tgttcaccagGCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCG
EST: gi|32265216|gb|CD716805.1|CD716805
EST:     TCCGGACATCAGAGATACCTATTCTTTACTCGTTCTCAACATCACTTTCC                         GCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCG
genomic: TCCGGACATCAGAGATACCTATTCTTTACTCGTTCTCAACATCACTTTCCgtaatttcca ... tgttcaccagGCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCG
EST: gi|351056154|gb|FQ453616.1|FQ453616
EST:     TCCGGACATCAGAGATACCTATTCTTTACTCGTTCTCAACATCACTTTCC                         GCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCG
genomic: TCCGGACATCAGAGATACCTATTCTTTACTCGTTCTCAACATCACTTTCCgtaatttcca ... tgttcaccagGCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCG
EST: gi|110409912|gb|EC975586.1|EC975586
EST:     TCTTTACTCGTTCTCAACATCACTTTCC                         GCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCG
genomic: TCTTTACTCGTTCTCAACATCACTTTCCgtaatttcca ... tgttcaccagGCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCG
EST: gi|351027210|gb|FQ444459.1|FQ444459
EST:     TCCGGACATCAGAGATACCTATTCTTTACTCGTTCTCAACATCACTTTCC                         GCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCG
genomic: TCCGGACATCAGAGATACCTATTCTTTACTCGTTCTCAACATCACTTTCCgtaatttcca ... tgttcaccagGCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCG
EST: gi|351013557|gb|FQ425588.1|FQ425588
EST:     TCCGGACATCAGAGATACCTATTCTTTACTCGTTCTCAACATCACTTTCC                         GCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCG
genomic: TCCGGACATCAGAGATACCTATTCTTTACTCGTTCTCAACATCACTTTCCgtaatttcca ... tgttcaccagGCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCG
EST: gi|351026982|gb|FQ436635.1|FQ436635
EST:     TCCGGACATCAGAGATACCTATTCTTTACTCGTTCTCAACATCACTTTCC                         GCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCG
genomic: TCCGGACATCAGAGATACCTATTCTTTACTCGTTCTCAACATCACTTTCCgtaatttcca ... tgttcaccagGCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCG
EST: gi|349825188|gb|FQ415735.1|FQ415735
EST:     TCCGGACATCAGAGATACCTATTCTTTACTCGTTCTCAACATCACTTTCC                         GCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCG
genomic: TCCGGACATCAGAGATACCTATTCTTTACTCGTTCTCAACATCACTTTCCgtaatttcca ... tgttcaccagGCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCG
EST: gi|161720292|gb|FC070553.1|FC070553
EST:     TCCGGACATCAGAGATACCTATTCTTTACTCGTTCTCAACATCACTTTCC                         GCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCG
genomic: TCCGGACATCAGAGATACCTATTCTTTACTCGTTCTCAACATCACTTTCCgtaatttcca ... tgttcaccagGCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCG
EST: gi|351015736|gb|FQ431691.1|FQ431691
EST:     TCCGGACATCAGAGATACCTATTCTTTACTCGTTCTCAACATCACTTTCC                         GCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCG
genomic: TCCGGACATCAGAGATACCTATTCTTTACTCGTTCTCAACATCACTTTCCgtaatttcca ... tgttcaccagGCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCG
EST: gi|110733043|gb|EE108857.1|EE108857
EST:     TCCGGACATCAGAGATACCTATTCTTTACTCGTTCTCAACATCACTTTCC                         GCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCG
genomic: TCCGGACATCAGAGATACCTATTCTTTACTCGTTCTCAACATCACTTTCCgtaatttcca ... tgttcaccagGCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCG
EST: gi|349817238|gb|FQ405242.1|FQ405242
EST:     TCCGGACATCAGAGATACCTATTCTTTACTCGTTCTCAACATCACTTTCC                         GCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCG
genomic: TCCGGACATCAGAGATACCTATTCTTTACTCGTTCTCAACATCACTTTCCgtaatttcca ... tgttcaccagGCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCG
EST: gi|351039277|gb|FQ461144.1|FQ461144
EST:     TCCGGACATCAGAGATACCTATTCTTTACTCGTTCTCAACATCACTTTCC                         GCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCG
genomic: TCCGGACATCAGAGATACCTATTCTTTACTCGTTCTCAACATCACTTTCCgtaatttcca ... tgttcaccagGCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCG
EST: gi|294964425|gb|GW838228.1|GW838228
EST:     TCCGGACATCAGAGATACCTATTCTTTACTCGTTCTCAACATCACTTTCC                         GCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCG
genomic: TCCGGACATCAGAGATACCTATTCTTTACTCGTTCTCAACATCACTTTCCgtaatttcca ... tgttcaccagGCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCG
EST: gi|349809657|gb|FQ414548.1|FQ414548
EST:     TCCGGACATCAGAGATACCTATTCTTTACTCGTTCTCAACATCACTTTCC                         GCACCACCGCAGATGATCTGTCCCCGCTTTTCGACAAGTACGGGAAAGTCG
genomic: TCCGGACATCAGAGATACCTATTCTTTACTCGTTCTCAACATCACTTTCCgtaatttcca ... tgttcaccagGCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCG
EST: gi|110430375|gb|EC996928.1|EC996928
EST:     TCCGGACATCAGAGATACCTATTCTTTACTCGTTCTCAACATCACTTTCC                         GCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCG
genomic: TCCGGACATCAGAGATACCTATTCTTTACTCGTTCTCAACATCACTTTCCgtaatttcca ... tgttcaccagGCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctctctttgctctacatattctaatttcctccaattcttgatgttgttcaccagGCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCGTTGATGTATTCATCCCCAGAGATCGAAG
             tacatattctaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatttccatttctttctcttaaatttccatctctctttgctctacatattctaatttcctccaattcttgatgttgttcaccagGCACCACCGCAGATGATCTGTTCCCGCTTTTCGACAAGTACGGGAAAGTCGTTGATGTATTCATCCCCAGAGATCGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATC