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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgtgaaaatgtttttcttctattattcttacttcataaattcgtagagccttcaaaatatgctgtataactttgtctctggggtttggaatttctcctcagGTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG

Basic information

species Vitis vinifera
transcript Vv03s0038g04470.t01
intron # 7
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|351047103|gb|FQ454713.1|FQ454713
EST:     AAAACAACTTCCAAGATTCAT                         GTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
genomic: AAAACAACTTCCAAGATTCATgtgcgtgaaa ... ttctcctcagGTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
EST: gi|351015523|gb|FQ447352.1|FQ447352
EST:     GGAACACCGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCAT                         GTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
genomic: GGAACACTGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCATgtgcgtgaaa ... ttctcctcagGTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
EST: gi|351026236|gb|FQ428248.1|FQ428248
EST:     GGAACACCGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCAT                         GTACTTGGAAACAAATACCGGAACAAGTTGCTGGAGATAATTGATGCCAG
genomic: GGAACACTGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCATgtgcgtgaaa ... ttctcctcagGTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
EST: gi|349822502|gb|FQ412766.1|FQ412766
EST:     GGAACACCGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCAT                         GTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
genomic: GGAACACTGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCATgtgcgtgaaa ... ttctcctcagGTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
EST: gi|351014493|gb|FQ437495.1|FQ437495
EST:     AAAACAACTTCCAAGATTCAT                         GTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
genomic: AAAACAACTTCCAAGATTCATgtgcgtgaaa ... ttctcctcagGTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
EST: gi|30128724|gb|CB914063.1|CB914063
EST:     TTCTAGATCCCAAAACAACTTCCAAGATTCAT                         GTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
genomic: TTCTAGATCCCAAAACAACTTCCAAGATTCATgtgcgtgaaa ... ttctcctcagGTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
EST: gi|351056783|gb|FQ443410.1|FQ443410
EST:     AAAACAACTTCCAAGATTCAT                         GTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
genomic: AAAACAACTTCCAAGATTCATgtgcgtgaaa ... ttctcctcagGTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
EST: gi|351026103|gb|FQ428115.1|FQ428115
EST:     GGAACACCGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCAT                         GTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
genomic: GGAACACTGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCATgtgcgtgaaa ... ttctcctcagGTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
EST: gi|30296909|gb|CB973703.1|CB973703
EST:     GGAACACTGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCAT                         GTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
genomic: GGAACACTGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCATgtgcgtgaaa ... ttctcctcagGTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
EST: gi|351027625|gb|FQ446789.1|FQ446789
EST:     GGAACACCGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCAT                         GTACTTGGAAACAAATACCGGAACAAGTTGCTGGAGATAATTGATGCCAG
genomic: GGAACACTGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCATgtgcgtgaaa ... ttctcctcagGTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
EST: gi|349826667|gb|FQ418758.1|FQ418758
EST:     AAAACAACTTCCAAGATTCAT                         GTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
genomic: AAAACAACTTCCAAGATTCATgtgcgtgaaa ... ttctcctcagGTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
EST: gi|351055947|gb|FQ453408.1|FQ453408
EST:     GGAACACCGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCAT                         GTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
genomic: GGAACACTGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCATgtgcgtgaaa ... ttctcctcagGTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
EST: gi|351044521|gb|FQ443052.1|FQ443052
EST:     AAAACAACTTCCAAGATTCAT                         GTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
genomic: AAAACAACTTCCAAGATTCATgtgcgtgaaa ... ttctcctcagGTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
EST: gi|294964977|gb|GW838780.1|GW838780
EST:     GGAACACTGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCAT                         GTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
genomic: GGAACACTGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCATgtgcgtgaaa ... ttctcctcagGTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
EST: gi|349828849|gb|FQ419182.1|FQ419182
EST:     GGAACACCGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCAT                         GTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
genomic: GGAACACTGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCATgtgcgtgaaa ... ttctcctcagGTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
EST: gi|351039650|gb|FQ461517.1|FQ461517
EST:     AAAACAACTTCCAAGATTCAT                         GTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
genomic: AAAACAACTTCCAAGATTCATgtgcgtgaaa ... ttctcctcagGTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
EST: gi|161709016|gb|FC058796.1|FC058796
EST:     GGAACACTGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCAT                         GTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
genomic: GGAACACTGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCATgtgcgtgaaa ... ttctcctcagGTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
EST: gi|351056747|gb|FQ443374.1|FQ443374
EST:     AAAACAACTTCCAAGATTCAT                         GTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
genomic: AAAACAACTTCCAAGATTCATgtgcgtgaaa ... ttctcctcagGTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
EST: gi|351040873|gb|FQ438417.1|FQ438417
EST:     GGAACACCGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCAT                         GTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
genomic: GGAACACTGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCATgtgcgtgaaa ... ttctcctcagGTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
EST: gi|349819344|gb|FQ412238.1|FQ412238
EST:     GGAACACCGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCAT                         GTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
genomic: GGAACACTGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCATgtgcgtgaaa ... ttctcctcagGTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
EST: gi|349817039|gb|FQ399786.1|FQ399786
EST:     GGAACACCGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCAT                         GTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
genomic: GGAACACTGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCATgtgcgtgaaa ... ttctcctcagGTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
EST: gi|30296834|gb|CB973628.1|CB973628
EST:     GGAACACTGTAAAGACTTTTTTAGATCCCAAAACAACTTCCAAGATTCAT                         GTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
genomic: GGAACACTGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCATgtgcgtgaaa ... ttctcctcagGTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
EST: gi|32270608|gb|CD719767.1|CD719767
EST:     GGAACACTGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCAT                         GTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
genomic: GGAACACTGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCATgtgcgtgaaa ... ttctcctcagGTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
EST: gi|351034834|gb|FQ458191.1|FQ458191
EST:     AAAACAACTTCCAAGATTCAT                         GTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
genomic: AAAACAACTTCCAAGATTCATgtgcgtgaaa ... ttctcctcagGTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
EST: gi|351024179|gb|FQ423602.1|FQ423602
EST:     GGAACACCGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCAT                         GTACTTGGAAACAAATACCGGAACAAGTTGCTGGAGATAATTGATGCCAG
genomic: GGAACACTGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCATgtgcgtgaaa ... ttctcctcagGTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
EST: gi|30299808|gb|CB976602.1|CB976602
EST:     GGAACACTGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCAT                         GTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
genomic: GGAACACTGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCATgtgcgtgaaa ... ttctcctcagGTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
EST: gi|351021812|gb|FQ437197.1|FQ437197
EST:     GGAACACCGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCAT                         GTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
genomic: GGAACACTGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCATgtgcgtgaaa ... ttctcctcagGTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
EST: gi|351054162|gb|FQ450244.1|FQ450244
EST:     AAAACAACTTCCAAGATTCAT                         GTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
genomic: AAAACAACTTCCAAGATTCATgtgcgtgaaa ... ttctcctcagGTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
EST: gi|351038002|gb|FQ460744.1|FQ460744
EST:     AAAACAACTTCCAAGATTCAT                         GTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
genomic: AAAACAACTTCCAAGATTCATgtgcgtgaaa ... ttctcctcagGTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agccttcaaaatatgctgtataactttgtctctggggtttggaatttctcctcagGTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG
                 gtataac  putative branch site (score: 3)
                                            tttctcctc  putative PPT
     tcaaaatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcgtgaaaatgtttttcttctattattcttacttcataaattcgtagagccttcaaaatatgctgtataactttgtctctggggtttggaatttctcctcagGTACTTGGAAACAAATACCAGAACAAGTTGCTGGAGATAATTGATGCCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT