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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cttttgtgggaacgtcaaaatgcattttgacacttgttttacttcaagatgactcatctctcgttgattagggatctctgaagtggtttgtctggtgcagGTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCACAG

Basic information

species Vitis vinifera
transcript Vv07s0130g00310.t01
intron # 3
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|161712155|gb|FC061527.1|FC061527
EST:     CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAG                         GTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
genomic: CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAGgttctacgtt ... tctggtgcagGTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
EST: gi|351021979|gb|FQ437766.1|FQ437766
EST:     CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAG                         GTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
genomic: CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAGgttctacgtt ... tctggtgcagGTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
EST: gi|351049571|gb|FQ429193.1|FQ429193
EST:     CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAG                         GTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
genomic: CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAGgttctacgtt ... tctggtgcagGTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
EST: gi|349826636|gb|FQ418727.1|FQ418727
EST:     CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTGGCAATAGTAAAGAG                         GTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
genomic: CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAGgttctacgtt ... tctggtgcagGTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
EST: gi|349817579|gb|FQ407369.1|FQ407369
EST:     CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAG                         GTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
genomic: CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAGgttctacgtt ... tctggtgcagGTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
EST: gi|351018506|gb|FQ424613.1|FQ424613
EST:     CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAG                         GTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
genomic: CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAGgttctacgtt ... tctggtgcagGTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
EST: gi|349808016|gb|FQ402407.1|FQ402407
EST:     CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAG                         GTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
genomic: CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAGgttctacgtt ... tctggtgcagGTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
EST: gi|37184961|gb|CF604314.1|CF604314
EST:     CGTTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAG                         GTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
genomic: CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAGgttctacgtt ... tctggtgcagGTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
EST: gi|351019477|gb|FQ429612.1|FQ429612
EST:     CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAG                         GTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
genomic: CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAGgttctacgtt ... tctggtgcagGTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
EST: gi|349816072|gb|FQ399303.1|FQ399303
EST:     CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAG                         GTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
genomic: CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAGgttctacgtt ... tctggtgcagGTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
EST: gi|351041001|gb|FQ443777.1|FQ443777
EST:     CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAG                         GTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
genomic: CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAGgttctacgtt ... tctggtgcagGTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
EST: gi|349816179|gb|FQ403675.1|FQ403675
EST:     CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAG                         GTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
genomic: CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAGgttctacgtt ... tctggtgcagGTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
EST: gi|349815328|gb|FQ400483.1|FQ400483
EST:     CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAG                         GTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
genomic: CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAGgttctacgtt ... tctggtgcagGTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
EST: gi|351034264|gb|FQ448061.1|FQ448061
EST:     CGTTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAG                         GTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
genomic: CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAGgttctacgtt ... tctggtgcagGTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
EST: gi|161717594|gb|FC066898.1|FC066898
EST:     CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAG                         GTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
genomic: CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAGgttctacgtt ... tctggtgcagGTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
EST: gi|30129333|gb|CB914672.1|CB914672
EST:     CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAG                         GTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
genomic: CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAGgttctacgtt ... tctggtgcagGTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
EST: gi|349827064|gb|FQ421337.1|FQ421337
EST:     CGTTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAG                         GTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
genomic: CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAGgttctacgtt ... tctggtgcagGTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
EST: gi|349829875|gb|FQ422188.1|FQ422188
EST:     CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAG                         GTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
genomic: CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAGgttctacgtt ... tctggtgcagGTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
EST: gi|349808752|gb|FQ406602.1|FQ406602
EST:     CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAC                         GTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTAGATCCTTCTTCA
genomic: CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAGgttctacgtt ... tctggtgcagGTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
EST: gi|349829450|gb|FQ419982.1|FQ419982
EST:     CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAG                         GTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
genomic: CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAGgttctacgtt ... tctggtgcagGTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
EST: gi|110729851|gb|EE106263.1|EE106263
EST:     CATTTATTCTCCGGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAG                         GTTCTAAATCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
genomic: CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAGgttctacgtt ... tctggtgcagGTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
EST: gi|349807552|gb|FQ401917.1|FQ401917
EST:     CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAG                         GTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
genomic: CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAGgttctacgtt ... tctggtgcagGTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
EST: gi|351017764|gb|FQ436117.1|FQ436117
EST:     CGTTTATTCTCCAGTTGTTAGCCTCTGCCGACTCTAGCAATAGTAAAGAG                         GTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
genomic: CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAGgttctacgtt ... tctggtgcagGTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
EST: gi|349809458|gb|FQ411956.1|FQ411956
EST:     CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAG                         GTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA
genomic: CATTTATTCTCCAGTTGTTAGCCTCTGCCAACTCTAGCAATAGTAAAGAGgttctacgtt ... tctggtgcagGTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagatgactcatctctcgttgattagggatctctgaagtggtttgtctggtgcagGTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCACAG
                cgttgat  putative branch site (score: 5)
                                         tttgtct  putative PPT
                  ttgatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cttttgtgggaacgtcaaaatgcattttgacacttgttttacttcaagatgactcatctctcgttgattagggatctctgaagtggtttgtctggtgcagGTTCTAAAGCAAACTGCTACAGACTTCGTCAAAGGTTTTGATCCTTCGTCACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- -ttgtggg
- - - - - - - tcaaaat
- - - - - - - - - - - - - ttgacac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctctgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggtttg