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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaccctttctgttctgtttcctgctttcatcatgcagttgaagtaatttcaattgtcatctgcaagctctcatttcccttttttatctttggttcctcagGGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAAGTCCGACAGCATTAGAAAAAGATAATCAAGCTTTTTATCCAGTAAAAAT

Basic information

species Vitis vinifera
transcript Vv05s0020g01480.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|71858718|gb|DT007773.1|DT007773
EST:     TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAG                         GGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
genomic: TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAGgtctttttct ... ggttcctcagGGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
EST: gi|30126267|gb|CB911606.1|CB911606
EST:     TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAG                         GGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
genomic: TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAGgtctttttct ... ggttcctcagGGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
EST: gi|110372840|gb|EC937034.1|EC937034
EST:     TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAG                         GGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
genomic: TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAGgtctttttct ... ggttcctcagGGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
EST: gi|30130090|gb|CB915429.1|CB915429
EST:     TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAG                         GGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
genomic: TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAGgtctttttct ... ggttcctcagGGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
EST: gi|30298272|gb|CB975066.1|CB975066
EST:     TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAG                         GGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
genomic: TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAGgtctttttct ... ggttcctcagGGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
EST: gi|110722148|gb|EE098126.1|EE098126
EST:     TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAG                         GGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
genomic: TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAGgtctttttct ... ggttcctcagGGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
EST: gi|32245894|gb|CD711713.1|CD711713
EST:     TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAG                         GGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
genomic: TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAGgtctttttct ... ggttcctcagGGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
EST: gi|110369147|gb|EC933294.1|EC933294
EST:     TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAG                         GGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
genomic: TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAGgtctttttct ... ggttcctcagGGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
EST: gi|110412369|gb|EC978117.1|EC978117
EST:     TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAG                         GGAGATGCCGACAGTGCTGTGGATCGGCTCTGGCAGAAGAAGAAAGCGGAA
genomic: TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAGgtctttttct ... ggttcctcagGGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
EST: gi|110697003|gb|EE073611.1|EE073611
EST:     TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAG                         GGAGATGCTGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCAGAA
genomic: TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAGgtctttttct ... ggttcctcagGGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
EST: gi|87586305|gb|DY474625.1|DY474625
EST:     TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAG                         GGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
genomic: TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAGgtctttttct ... ggttcctcagGGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
EST: gi|34415889|gb|CF414643.1|CF414643
EST:     TCCCTGGTCAATTCTCCCCCTTCGCTCTATGTGGTTTTGTCCGTGCTCAG                         GGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
genomic: TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAGgtctttttct ... ggttcctcagGGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
EST: gi|110419134|gb|EC985336.1|EC985336
EST:     TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAG                         GGAGATGCCGACAGTGCTGTGGATCGGCTCTGGCAGAAGAAGAAAGCGGAA
genomic: TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAGgtctttttct ... ggttcctcagGGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
EST: gi|110428108|gb|EC994569.1|EC994569
EST:     TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAG                         GGAGATGCCGACAGTGCTGTGGATCGGCTCTGGCAGAAGAAGAAAGCGGAA
genomic: TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAGgtctttttct ... ggttcctcagGGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
EST: gi|110696043|gb|EE074748.1|EE074748
EST:     TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAG                         GGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
genomic: TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAGgtctttttct ... ggttcctcagGGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
EST: gi|110696798|gb|EE073240.1|EE073240
EST:     TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAG                         GGAGATGCTGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCAGAA
genomic: TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAGgtctttttct ... ggttcctcagGGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
EST: gi|110408368|gb|EC974003.1|EC974003
EST:     TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAG                         GGAGATGCCGACAGTGCTGTGGATCGGCTCTGGCAGAAGAAGAAAGCGGAA
genomic: TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAGgtctttttct ... ggttcctcagGGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
EST: gi|34415890|gb|CF414644.1|CF414644
EST:     TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAG                         GGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
genomic: TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAGgtctttttct ... ggttcctcagGGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
EST: gi|71872553|gb|DT021608.1|DT021608
EST:     TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAG                         GGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
genomic: TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAGgtctttttct ... ggttcctcagGGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
EST: gi|110365138|gb|EC928915.1|EC928915
EST:     TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAG                         GGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
genomic: TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAGgtctttttct ... ggttcctcagGGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
EST: gi|110377318|gb|EC942384.1|EC942384
EST:     TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAG                         GGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
genomic: TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAGgtctttttct ... ggttcctcagGGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
EST: gi|110695069|gb|EE072662.1|EE072662
EST:     TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAG                         GGAGATGCTGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCAGAA
genomic: TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAGgtctttttct ... ggttcctcagGGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
EST: gi|27582593|gb|CB005288.1|CB005288
EST:     TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAG                         GGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
genomic: TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAGgtctttttct ... ggttcctcagGGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
EST: gi|110381610|gb|EC934920.1|EC934920
EST:     TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAG                         GGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
genomic: TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAGgtctttttct ... ggttcctcagGGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
EST: gi|110389889|gb|EC954762.1|EC954762
EST:     TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAG                         GGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
genomic: TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAGgtctttttct ... ggttcctcagGGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
EST: gi|27584673|gb|CB007368.1|CB007368
EST:     TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAG                         GGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
genomic: TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAGgtctttttct ... ggttcctcagGGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
EST: gi|110688561|gb|EE067257.1|EE067257
EST:     TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAG                         GGAGATGCTGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCAGAA
genomic: TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAGgtctttttct ... ggttcctcagGGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
EST: gi|110694167|gb|EE071034.1|EE071034
EST:     TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAG                         GGAGATGCTGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCAGAA
genomic: TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAGgtctttttct ... ggttcctcagGGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
EST: gi|71882407|gb|DT031462.1|DT031462
EST:     TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAG                         GGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA
genomic: TCACTGGTCAATTCTCCACCTTCGCTCTATGTGGTTTTGTCCGTGCTCAGgtctttttct ... ggttcctcagGGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttcaattgtcatctgcaagctctcatttcccttttttatctttggttcctcagGGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAAGTCCGACAGCATTAGAAAAAGATAATCAAGCTTTTTATCCAGTAAAAAT
                     ctctcatttccctttt  CT-rich tract
                                 ttttttatcttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaccctttctgttctgtttcctgctttcatcatgcagttgaagtaatttcaattgtcatctgcaagctctcatttcccttttttatctttggttcctcagGGAGATGCCGACAGCGCTGTGGATCGGCTCTGGCAGAAGAAGAAGGCGGAAGTCCGACAGCATTAGAAAAAGATAATCAAGCTTTTTATCCAGTAAAAAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- ccctttc
- - - - - - - - - -cctgctt
- - - - - - - - - - - - - - -tcatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - catctgc