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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcttgtttgtcatctagtcccattccctggagatttgtttctattcttgttggcacctcttttaactgtcaaatcatatttatggaacatgttttgacagAATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCGGACTCTTTATCTGGCTTGGAGCCCCGGAACATGAGGAGGCCTTCATCAT

Basic information

species Vitis vinifera
transcript Vv13s0067g03320.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|34416831|gb|CF415585.1|CF415585
EST:     AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAG                         AATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
genomic: AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAGgtttgatgtt ... gttttgacagAATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
EST: gi|110423901|gb|EC990254.1|EC990254
EST:     AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAG                         AATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
genomic: AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAGgtttgatgtt ... gttttgacagAATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
EST: gi|110699314|gb|EE076202.1|EE076202
EST:     AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAG                         AATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGGCTACCTACTTCAGAACCG
genomic: AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAGgtttgatgtt ... gttttgacagAATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
EST: gi|110726136|gb|EE101653.1|EE101653
EST:     AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAG                         AATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
genomic: AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAGgtttgatgtt ... gttttgacagAATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
EST: gi|351043024|gb|FQ443866.1|FQ443866
EST:     AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAG                         AATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
genomic: AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAGgtttgatgtt ... gttttgacagAATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
EST: gi|110730208|gb|EE107028.1|EE107028
EST:     AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAG                         AATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
genomic: AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAGgtttgatgtt ... gttttgacagAATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
EST: gi|351029495|gb|FQ436889.1|FQ436889
EST:     AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAG                         AATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
genomic: AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAGgtttgatgtt ... gttttgacagAATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
EST: gi|349829621|gb|FQ421139.1|FQ421139
EST:     AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAG                         AATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
genomic: AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAGgtttgatgtt ... gttttgacagAATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
EST: gi|110410730|gb|EC976422.1|EC976422
EST:     AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAG                         AATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
genomic: AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAGgtttgatgtt ... gttttgacagAATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
EST: gi|110732400|gb|EE107653.1|EE107653
EST:     AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAG                         AATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
genomic: AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAGgtttgatgtt ... gttttgacagAATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
EST: gi|349827978|gb|FQ422846.1|FQ422846
EST:     AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAG                         AATTTGTCCCAAGCAAGAGTTCCTGGAAGGAGACTACCTACTTCAGAACCG
genomic: AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAGgtttgatgtt ... gttttgacagAATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
EST: gi|87585501|gb|DY474192.1|DY474192
EST:     AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAG                         AATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
genomic: AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAGgtttgatgtt ... gttttgacagAATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
EST: gi|30301939|gb|CB978733.1|CB978733
EST:     AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAG                         AATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
genomic: AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAGgtttgatgtt ... gttttgacagAATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
EST: gi|110685295|gb|EE063554.1|EE063554
EST:     AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAG                         AATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
genomic: AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAGgtttgatgtt ... gttttgacagAATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
EST: gi|349825323|gb|FQ418055.1|FQ418055
EST:     AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAG                         AATTTGTCCCAAGCAAGAGTTCCTGGAAGGAGACTACCTACTTCAGAACCG
genomic: AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAGgtttgatgtt ... gttttgacagAATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
EST: gi|110726723|gb|EE102752.1|EE102752
EST:     AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAG                         AATTTGTCCCAAGCAAGAGGTCCTGGGAAGGAGACTACCTACTTCAGAACC
genomic: AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAGgtttgatgtt ... gttttgacagAATTTGTCCCAAGCAAGAGGTCCT-GGAAGGAGACTACCTACTTCAGAACC
EST: gi|349817511|gb|FQ407301.1|FQ407301
EST:     AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAG                         AATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
genomic: AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAGgtttgatgtt ... gttttgacagAATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
EST: gi|18458749|gb|BM437027.1|BM437027
EST:     AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAG                         AATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
genomic: AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAGgtttgatgtt ... gttttgacagAATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
EST: gi|110381982|gb|EC938169.1|EC938169
EST:     AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAG                         AATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
genomic: AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAGgtttgatgtt ... gttttgacagAATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
EST: gi|30301871|gb|CB978665.1|CB978665
EST:     AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAG                         AATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
genomic: AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAGgtttgatgtt ... gttttgacagAATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
EST: gi|351014234|gb|FQ434823.1|FQ434823
EST:     AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAG                         AATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
genomic: AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAGgtttgatgtt ... gttttgacagAATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
EST: gi|351016330|gb|FQ446190.1|FQ446190
EST:     AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAG                         AATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
genomic: AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAGgtttgatgtt ... gttttgacagAATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
EST: gi|110727163|gb|EE103612.1|EE103612
EST:     AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAG                         AATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
genomic: AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAGgtttgatgtt ... gttttgacagAATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
EST: gi|56409315|gb|CX017567.1|CX017567
EST:     AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAG                         AATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
genomic: AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAGgtttgatgtt ... gttttgacagAATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
EST: gi|26265335|gb|CA816398.1|CA816398
EST:     AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAG                         AATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
genomic: AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAGgtttgatgtt ... gttttgacagAATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
EST: gi|349827894|gb|FQ422762.1|FQ422762
EST:     AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAG                         AATTTGTCCCAAGCAAGAGTTCCTGGAAGGAGACTACCTACTTCAGAACCG
genomic: AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAGgtttgatgtt ... gttttgacagAATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
EST: gi|294965188|gb|GW837019.1|GW837019
EST:     AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAG                         AATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
genomic: AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAGgtttgatgtt ... gttttgacagAATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
EST: gi|56409393|gb|CX017645.1|CX017645
EST:     AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAG                         AATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
genomic: AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAGgtttgatgtt ... gttttgacagAATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
EST: gi|110710077|gb|EE086097.1|EE086097
EST:     AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAG                         AATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
genomic: AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAGgtttgatgtt ... gttttgacagAATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
EST: gi|349824073|gb|FQ417460.1|FQ417460
EST:     AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAG                         AATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
genomic: AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAGgtttgatgtt ... gttttgacagAATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
EST: gi|83275823|gb|DV939831.1|DV939831
EST:     AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTAAAAGTTCGAG                         AATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG
genomic: AAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAGgtttgatgtt ... gttttgacagAATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgttggcacctcttttaactgtcaaatcatatttatggaacatgttttgacagAATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCGGACTCTTTATCTGGCTTGGAGCCCCGGAACATGAGGAGGCCTTCATCAT
              ttttaac  putative branch site (score: 2)
                       tcaaatcatatttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcttgtttgtcatctagtcccattccctggagatttgtttctattcttgttggcacctcttttaactgtcaaatcatatttatggaacatgttttgacagAATTTGTCCCAAGCAAGAGGTCCTGGAAGGAGACTACCTACTTCAGAACCGGACTCTTTATCTGGCTTGGAGCCCCGGAACATGAGGAGGCCTTCATCAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - -ccattcc
- - - - - - - - - - - - - - - - - - - - - - -cttgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaatcat