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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tctatctctttcaggaaaggcaaattgagtgtcatgcacgatgctttggatatgcaaggtttatataatgacctaaaatgtcccttaaatttgtttgtagGACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATTGAACAAACCATATATGGG

Basic information

species Vitis vinifera
transcript Vv13s0019g04120.t01
intron # 2
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|161708458|gb|FC056151.1|FC056151
EST:     GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAG                         GACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTA
genomic: GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAGgtatttttat ... ttgtttgtagGACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTA
EST: gi|71857591|gb|DT006646.1|DT006646
EST:     GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAG                         GACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATCGAACAAAC
genomic: GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAGgtatttttat ... ttgtttgtagGACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATTGAACAAAC
EST: gi|71861495|gb|DT010550.1|DT010550
EST:     GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAG                         GACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATCGAACAAAC
genomic: GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAGgtatttttat ... ttgtttgtagGACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATTGAACAAAC
EST: gi|71860611|gb|DT009666.1|DT009666
EST:     GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAG                         GACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATCGAACAAAC
genomic: GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAGgtatttttat ... ttgtttgtagGACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATTGAACAAAC
EST: gi|30255678|gb|CB971810.1|CB971810
EST:     GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAG                         GACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATCGAACAAAC
genomic: GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAGgtatttttat ... ttgtttgtagGACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATTGAACAAAC
EST: gi|110689183|gb|EE065183.1|EE065183
EST:     GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAG                         GACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATCGAACAAAC
genomic: GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAGgtatttttat ... ttgtttgtagGACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATTGAACAAAC
EST: gi|351025044|gb|FQ433461.1|FQ433461
EST:     GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAG                         GACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATCGAACAAAC
genomic: GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAGgtatttttat ... ttgtttgtagGACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATTGAACAAAC
EST: gi|71862645|gb|DT011700.1|DT011700
EST:     GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAG                         GACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATCGAACAAAC
genomic: GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAGgtatttttat ... ttgtttgtagGACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATTGAACAAAC
EST: gi|110418019|gb|EC984128.1|EC984128
EST:     GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAG                         GACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATTGAACAAAC
genomic: GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAGgtatttttat ... ttgtttgtagGACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATTGAACAAAC
EST: gi|110381307|gb|EC946633.1|EC946633
EST:     GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAG                         GACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATCGAACAAAC
genomic: GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAGgtatttttat ... ttgtttgtagGACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATTGAACAAAC
EST: gi|351037220|gb|FQ457053.1|FQ457053
EST:     GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAG                         GACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATCGAACAAAC
genomic: GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAGgtatttttat ... ttgtttgtagGACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATTGAACAAAC
EST: gi|71863408|gb|DT012463.1|DT012463
EST:     GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAG                         GACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATCGAACAAAC
genomic: GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAGgtatttttat ... ttgtttgtagGACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATTGAACAAAC
EST: gi|22010776|gb|BQ795810.1|BQ795810
EST:     GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAG                         GACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATCGAACAAAC
genomic: GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAGgtatttttat ... ttgtttgtagGACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATTGAACAAAC
EST: gi|22010775|gb|BQ795809.1|BQ795809
EST:     GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAG                         GACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATCGAACAAAC
genomic: GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAGgtatttttat ... ttgtttgtagGACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATTGAACAAAC
EST: gi|349828743|gb|FQ418478.1|FQ418478
EST:     GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAG                         GACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATTGAACAAAC
genomic: GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAGgtatttttat ... ttgtttgtagGACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATTGAACAAAC
EST: gi|110721127|gb|EE097773.1|EE097773
EST:     GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAG                         GACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATCGAACAAAC
genomic: GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAGgtatttttat ... ttgtttgtagGACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATTGAACAAAC
EST: gi|71860253|gb|DT009308.1|DT009308
EST:     GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAG                         GACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATCGAACAAAC
genomic: GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAGgtatttttat ... ttgtttgtagGACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATTGAACAAAC
EST: gi|351017619|gb|FQ435972.1|FQ435972
EST:     GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAG                         GACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATCGAACAAAC
genomic: GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAGgtatttttat ... ttgtttgtagGACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATTGAACAAAC
EST: gi|161714461|gb|FC064448.1|FC064448
EST:     GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAG                         GACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATCGAACAAAC
genomic: GTGCAATTTTTCCCTTCAGCCGTTGCTTATCTAGCCCTTATTCCTGCTAGgtatttttat ... ttgtttgtagGACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATTGAACAAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttggatatgcaaggtttatataatgacctaaaatgtcccttaaatttgtttgtagGACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATTGAACAAACCATATATGGG
                         acctaaa  putative branch site (score: 3)
                                            tttgttt  putative PPT
                                       ttaaatttgtttgta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tctatctctttcaggaaaggcaaattgagtgtcatgcacgatgctttggatatgcaaggtttatataatgacctaaaatgtcccttaaatttgtttgtagGACAATACCTTTCGCTTGGAATCTAATAACATCCGGTTACATTGAACAAACCATATATGGG

- - - - - - aggaaag
- - - - - - - - - - -aaattga
- - - - - - - - - - - - - - - - catgcac
- - - - - - - - - - - - - - - - - - - - -tgctttg
- - - - - - - - - - - - - - - - - - - - - - - - - tatgcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cctaaaa