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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tagaatatcaattccaaaatgccaacctgatgtcagcatttgctagtctgttgtgtatactaatgttttgactacctacttcttttgtttttatttacagTCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAG

Basic information

species Vitis vinifera
transcript Vv18s0001g05550.t01
intron # 4
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:     AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAAT                         TCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
genomic: AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAATgtaagtcata ... ttatttacagTCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
EST: gi|351015878|gb|FQ431833.1|FQ431833
EST:     AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAAT                         TCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
genomic: AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAATgtaagtcata ... ttatttacagTCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
EST: gi|32265216|gb|CD716805.1|CD716805
EST:     AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAAT                         TCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
genomic: AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAATgtaagtcata ... ttatttacagTCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
EST: gi|351056154|gb|FQ453616.1|FQ453616
EST:     AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAAT                         TCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
genomic: AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAATgtaagtcata ... ttatttacagTCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
EST: gi|110409912|gb|EC975586.1|EC975586
EST:     AGAGAGATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAAT                         TCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
genomic: AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAATgtaagtcata ... ttatttacagTCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
EST: gi|18459646|gb|BM437924.1|BM437924
EST:     AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAAT                         TCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
genomic: AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAATgtaagtcata ... ttatttacagTCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
EST: gi|351027210|gb|FQ444459.1|FQ444459
EST:     AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAAT                         TCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
genomic: AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAATgtaagtcata ... ttatttacagTCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
EST: gi|110413030|gb|EC978799.1|EC978799
EST:     AGAGAGATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAAT                         TCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
genomic: AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAATgtaagtcata ... ttatttacagTCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
EST: gi|351013557|gb|FQ425588.1|FQ425588
EST:     AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAAT                         TCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
genomic: AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAATgtaagtcata ... ttatttacagTCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
EST: gi|37184355|gb|CF603709.1|CF603709
EST:     AAGTATGGTCCCAACGCAGAGCGAAT                         TCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
genomic: AAGTATGGTCCCAACGCAGAGCGAATgtaagtcata ... ttatttacagTCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
EST: gi|37186472|gb|CF605825.1|CF605825
EST:     AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAAT                         TCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
genomic: AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAATgtaagtcata ... ttatttacagTCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
EST: gi|351026982|gb|FQ436635.1|FQ436635
EST:     AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCACAGCGAAT                         TCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
genomic: AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAATgtaagtcata ... ttatttacagTCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
EST: gi|110374026|gb|EC938504.1|EC938504
EST:     AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAAT                         TCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
genomic: AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAATgtaagtcata ... ttatttacagTCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
EST: gi|349825188|gb|FQ415735.1|FQ415735
EST:     AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAAT                         TCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
genomic: AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAATgtaagtcata ... ttatttacagTCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
EST: gi|161720292|gb|FC070553.1|FC070553
EST:     AGAGAGATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAAT                         TCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
genomic: AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAATgtaagtcata ... ttatttacagTCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
EST: gi|30321299|gb|CD004561.1|CD004561
EST:     AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAAT                         TCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
genomic: AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAATgtaagtcata ... ttatttacagTCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
EST: gi|351015736|gb|FQ431691.1|FQ431691
EST:     AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAAT                         TCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
genomic: AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAATgtaagtcata ... ttatttacagTCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
EST: gi|110733043|gb|EE108857.1|EE108857
EST:     AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAAT                         TCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
genomic: AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAATgtaagtcata ... ttatttacagTCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
EST: gi|110381112|gb|EC946429.1|EC946429
EST:     AGAGAGATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAAT                         TCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
genomic: AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAATgtaagtcata ... ttatttacagTCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
EST: gi|349817238|gb|FQ405242.1|FQ405242
EST:     AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAAT                         TCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
genomic: AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAATgtaagtcata ... ttatttacagTCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
EST: gi|351039277|gb|FQ461144.1|FQ461144
EST:     AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAAT                         TCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
genomic: AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAATgtaagtcata ... ttatttacagTCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
EST: gi|294964425|gb|GW838228.1|GW838228
EST:     AGAGAGATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAAT                         TCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
genomic: AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAATgtaagtcata ... ttatttacagTCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
EST: gi|110408451|gb|EC974087.1|EC974087
EST:     AGAGAGATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAAT                         TCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
genomic: AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAATgtaagtcata ... ttatttacagTCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
EST: gi|349809657|gb|FQ414548.1|FQ414548
EST:     GAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAGACGCAGAGCGAAT                         TCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
genomic: GAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCA-ACGCAGAGCGAATgtaagtcata ... ttatttacagTCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
EST: gi|110405318|gb|EC970858.1|EC970858
EST:     AGAGAGATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAAT                         TCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
genomic: AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAATgtaagtcata ... ttatttacagTCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
EST: gi|110430375|gb|EC996928.1|EC996928
EST:     AGAGAGATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAAT                         TCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG
genomic: AGAGAAATTATGGTTCAATTTGCCAAGTATGGTCCCAACGCAGAGCGAATgtaagtcata ... ttatttacagTCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtctgttgtgtatactaatgttttgactacctacttcttttgtttttatttacagTCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAG
                             cctacttcttttgttt  CT-rich tract
                               tacttcttttgttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tagaatatcaattccaaaatgccaacctgatgtcagcatttgctagtctgttgtgtatactaatgttttgactacctacttcttttgtttttatttacagTCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - caattcc
- - - - - - - - - - -ccaacct
- - - - - - - - - - - - - - - - - - catttgc
- - - - - - - - - - - - - - - - - - - - - - - -ctgttgt