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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggcctggctacaagctttcatcttctacttgttctggtttttggatttcatataaccagcctgcagttccatccacatgttttttacattttgatgcagTATTTGGAAGAAGAATCAGAAAAATTCAGTTCTAAAATTGAGAAG

Basic information

species Vitis vinifera
transcript Vv18s0122g00680.t01
intron # 9
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|349832496|gb|FQ421057.1|FQ421057
EST:     GGATGGCAAACAACGGTTGGTACAACAGGCTTTATACTGTGACCGGACAG                         TATTTGGAAGAAGAATCAGAAAAATTCAGTTCTAAAATTGAGAAG
genomic: GGATGGCAAACAACGGTTGGTACAACAGGCTTTATACTGTGACCGGACAGgtaggcctgg ... tttgatgcagTATTTGGAAGAAGAATCAGAAAAATTCAGTTCTAAAATTGAGAAG
EST: gi|351012854|gb|FQ430417.1|FQ430417
EST:     GGATGGCAAACAACGGTTGGTACAACAGGCTTTATACTGTGACCGGACAG                         TATTTGGAAGAAGAATCAGAAAAATTCAGTTCTAAAATTGAGAAA
genomic: GGATGGCAAACAACGGTTGGTACAACAGGCTTTATACTGTGACCGGACAGgtaggcctgg ... tttgatgcagTATTTGGAAGAAGAATCAGAAAAATTCAGTTCTAAAATTGAGAAG
EST: gi|351028617|gb|FQ446290.1|FQ446290
EST:     GGATGGCAAACAACGGTTGGTACAACAGGCTTTATACTGTGACCGGACAG                         TATTTGGAAGAAGAATCAGAAAAATTCAGTTCTAAAATTGAGAAG
genomic: GGATGGCAAACAACGGTTGGTACAACAGGCTTTATACTGTGACCGGACAGgtaggcctgg ... tttgatgcagTATTTGGAAGAAGAATCAGAAAAATTCAGTTCTAAAATTGAGAAG
EST: gi|349827467|gb|FQ422335.1|FQ422335
EST:     GGATGGCAAACAACGGTTGGTACAACAGGCTTTATACTGTGACCGGACAG                         TATTTGGAAGAAGAATCAGAAAAATTCAGTTCTAAAATTGAGAAG
genomic: GGATGGCAAACAACGGTTGGTACAACAGGCTTTATACTGTGACCGGACAGgtaggcctgg ... tttgatgcagTATTTGGAAGAAGAATCAGAAAAATTCAGTTCTAAAATTGAGAAG
EST: gi|351029607|gb|FQ427447.1|FQ427447
EST:     GGATGGCAAACAACGGTTGGTACAACAGGCTTTATACTGTGACCGGACAG                         TATTTGGAAGAAGAATCAGAAAAATTCAGTTCTAAAATTGAGAAG
genomic: GGATGGCAAACAACGGTTGGTACAACAGGCTTTATACTGTGACCGGACAGgtaggcctgg ... tttgatgcagTATTTGGAAGAAGAATCAGAAAAATTCAGTTCTAAAATTGAGAAG
EST: gi|351030175|gb|FQ432113.1|FQ432113
EST:     GGATGGCAAACAACGGTTGGTACAACAGGCTTTATACTGTGACCGGACAG                         TATTTGGAAGAAGAATCAGAAAAATTCAGTTCTAAAATTGAGAAG
genomic: GGATGGCAAACAACGGTTGGTACAACAGGCTTTATACTGTGACCGGACAGgtaggcctgg ... tttgatgcagTATTTGGAAGAAGAATCAGAAAAATTCAGTTCTAAAATTGAGAAG
EST: gi|351014409|gb|FQ437411.1|FQ437411
EST:     GGATGGCAAACAACGGTTGGTACAACAGGCTTTATACTGTGACCGGACAG                         TATTTGGAAGAAGAATCAGAAAAATT
genomic: GGATGGCAAACAACGGTTGGTACAACAGGCTTTATACTGTGACCGGACAGgtaggcctgg ... tttgatgcagTATTTGGAAGAAGAATCAGAAAAATT
EST: gi|349832962|gb|FQ423084.1|FQ423084
EST:     GGATGGCAAACAACGGTTGGTACAACAGGCTTTATACTGTGACCGGACAG                         TATTTGGAAGAAGAATCAGAAAA-TTCAGTTCTAAAATTGAGAAG
genomic: GGATGGCAAACAACGGTTGGTACAACAGGCTTTATACTGTGACCGGACAGgtaggcctgg ... tttgatgcagTATTTGGAAGAAGAATCAGAAAAATTCAGTTCTAAAATTGAGAAG
EST: gi|349826098|gb|FQ415903.1|FQ415903
EST:     GGATGGCAAACAACGGTTGGTACAACAGGCTTTATACTGTGACCGGACAG                         TATTTGGAAGAAGAATCAGAAAAATTCAGTTCTAAAATTGAGAAG
genomic: GGATGGCAAACAACGGTTGGTACAACAGGCTTTATACTGTGACCGGACAGgtaggcctgg ... tttgatgcagTATTTGGAAGAAGAATCAGAAAAATTCAGTTCTAAAATTGAGAAG
EST: gi|110415179|gb|EC981058.1|EC981058
EST:     GGATGGCAAACAACGGTTGGTACAACAGGCTTTATACTGTGACCGGACAG                         TATTTGGAAGAAGAATCAGAAAAATTCAGTTCTAAAATTGAGAAG
genomic: GGATGGCAAACAACGGTTGGTACAACAGGCTTTATACTGTGACCGGACAGgtaggcctgg ... tttgatgcagTATTTGGAAGAAGAATCAGAAAAATTCAGTTCTAAAATTGAGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttcatataaccagcctgcagttccatccacatgttttttacattttgatgcagTATTTGGAAGAAGAATCAGAAAAATTCAGTTCTAAAATTGAGAAG
                                atgttttttacatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaggcctggctacaagctttcatcttctacttgttctggtttttggatttcatataaccagcctgcagttccatccacatgttttttacattttgatgcagTATTTGGAAGAAGAATCAGAAAAATTCAGTTCTAAAATTGAGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG