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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatcacatttatgaataaaaaatgtgacccaaaagaggctgatggaaaagcaaagaaaagtgatcggaggtttgggatttgtttgtttattttgttgcagTTTTGGGTAACCATGACTACAGAGGAAAAGTTGAGGCTCAACTGAGTCCCATTCTTACCAAGATGGACAGCAGATGGCTTTGCTTGAGGTCTTTTATTCT

Basic information

species Vitis vinifera
transcript Vv01s0011g06290.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|71858448|gb|DT007503.1|DT007503
EST:     GTTCAGCAAAGTGTACAGTGCCCCAAGCTTGCAAAAGCAATGGTACAATG                         TTTTGGGTAACCATGACTACCGAGGAAAAGTTGAGGGCTCAACTGAGTCCC
genomic: GTTCAGCAAAGTGTACACTGCCCCAAGCTTGCAAAAGCAATGGTACAATGgtaaatccaa ... tttgttgcagTTTTGGGTAACCATGACTACAGAGGAAAAGTTGAGG-CTCAACTGAGTCCC
EST: gi|110361763|gb|EC925259.1|EC925259
EST:     GTTCAGCAAAGTGTACAGTGCCCCAAGCTTGCAAAAGCAATGGTACAATG                         TTTTGGGTAACCATGACTACAGAGGAAAAGTTGAGGCTCAACTGAGTCCCA
genomic: GTTCAGCAAAGTGTACACTGCCCCAAGCTTGCAAAAGCAATGGTACAATGgtaaatccaa ... tttgttgcagTTTTGGGTAACCATGACTACAGAGGAAAAGTTGAGGCTCAACTGAGTCCCA
EST: gi|161715966|gb|FC068755.1|FC068755
EST:     GTTCAGCAAAGTGTACAGTGCCCCAAGCTTGCAAAAGCAATGGTACAATG                         TTTTGGGTAACCATGACTACAGAGGAAAAGTTGAGGCTCAACTGAGTCCCA
genomic: GTTCAGCAAAGTGTACACTGCCCCAAGCTTGCAAAAGCAATGGTACAATGgtaaatccaa ... tttgttgcagTTTTGGGTAACCATGACTACAGAGGAAAAGTTGAGGCTCAACTGAGTCCCA
EST: gi|294966718|gb|GW837737.1|GW837737
EST:     GTTCAGAAAAGTCTACACTGCCCCAAGCTTGCAAAAGCCATGGTACAATG                         TTTTGGGTAACCATGACTACAGAGGAAAAGTTGAGGCTCAACTGAGTCCCA
genomic: GTTCAGCAAAGTGTACACTGCCCCAAGCTTGCAAAAGCAATGGTACAATGgtaaatccaa ... tttgttgcagTTTTGGGTAACCATGACTACAGAGGAAAAGTTGAGGCTCAACTGAGTCCCA
EST: gi|30128027|gb|CB913366.1|CB913366
EST:     GTTCAGCAAAGTGTACACTGCCCCAAGCTTGCAAAAGCAATGGTACAATG                         TTTTGGGTAACCATGACTACAGAGGAAAAGTTGAGGCTCAACTGAGTCCCA
genomic: GTTCAGCAAAGTGTACACTGCCCCAAGCTTGCAAAAGCAATGGTACAATGgtaaatccaa ... tttgttgcagTTTTGGGTAACCATGACTACAGAGGAAAAGTTGAGGCTCAACTGAGTCCCA
EST: gi|30127523|gb|CB912862.1|CB912862
EST:     GTTCAGCAAAGTGTACACTGCCCCAAGCTTGCAAAAGCAATGGTACAATG                         TTTTGGGTAACCATGACTACAGAGGAAAAGTTGAGGCTCAACTGAGTCCCA
genomic: GTTCAGCAAAGTGTACACTGCCCCAAGCTTGCAAAAGCAATGGTACAATGgtaaatccaa ... tttgttgcagTTTTGGGTAACCATGACTACAGAGGAAAAGTTGAGGCTCAACTGAGTCCCA
EST: gi|30125391|gb|CB910730.1|CB910730
EST:     GTTCAGCAAAGTGTACACTGCCCCAAGCTTGCAAAAGCAATGGTACAATG                         TTTTGGGTAACCATGACTACAGAGGAAAAGTTGAGGCTCAACTGAGTCCCA
genomic: GTTCAGCAAAGTGTACACTGCCCCAAGCTTGCAAAAGCAATGGTACAATGgtaaatccaa ... tttgttgcagTTTTGGGTAACCATGACTACAGAGGAAAAGTTGAGGCTCAACTGAGTCCCA
EST: gi|349811174|gb|FQ406162.1|FQ406162
EST:     GTTCAGCAAAGTGTACACTGCCCCAAGCTTGCAAAAGCAATGGTACAATG                         TTTTGGGTAACCATGACTACAGAGGAAAAGTTGAGGCTCAACTGAGTCCCA
genomic: GTTCAGCAAAGTGTACACTGCCCCAAGCTTGCAAAAGCAATGGTACAATGgtaaatccaa ... tttgttgcagTTTTGGGTAACCATGACTACAGAGGAAAAGTTGAGGCTCAACTGAGTCCCA
EST: gi|71867743|gb|DT016798.1|DT016798
EST:     GTTCAGCAAAGTGTACAGTGCCCCAAGCTTGCAAAAGCAATGGTACAATG                         TTTTGGGTAACCATGACTACAGAGGAAAAGTTGAGGCTCAACTGAGTCCCA
genomic: GTTCAGCAAAGTGTACACTGCCCCAAGCTTGCAAAAGCAATGGTACAATGgtaaatccaa ... tttgttgcagTTTTGGGTAACCATGACTACAGAGGAAAAGTTGAGGCTCAACTGAGTCCCA
EST: gi|161717827|gb|FC064740.1|FC064740
EST:     GTTCAGCAAAGTGTACAGTGCCCCAAGCTTGCAAAAGCAATGGTACAATG                         TTTTGGGTAACCATGACTACAGAGGAAAAGTTGAGGCTCAACTGAGTCCCA
genomic: GTTCAGCAAAGTGTACACTGCCCCAAGCTTGCAAAAGCAATGGTACAATGgtaaatccaa ... tttgttgcagTTTTGGGTAACCATGACTACAGAGGAAAAGTTGAGGCTCAACTGAGTCCCA
EST: gi|161719167|gb|FC065431.1|FC065431
EST:     GTTCAGCAAAGTGTACAGTGCCCCAAGCTTGCAAAAGCAATGGTACAATG                         TTTTGGGTAACCATGACTACAGAGGAAAAGTTGAGGCTCAACTGAGTCCCA
genomic: GTTCAGCAAAGTGTACACTGCCCCAAGCTTGCAAAAGCAATGGTACAATGgtaaatccaa ... tttgttgcagTTTTGGGTAACCATGACTACAGAGGAAAAGTTGAGGCTCAACTGAGTCCCA
EST: gi|30126050|gb|CB911389.1|CB911389
EST:     GTTCAGCAAAGTGTACAGTGCCCCAAGCTTGCAAAAGCAATGGTACAATG                         TTTTGGGTAACCATGACTACAGAGGAAAAGTTGAGGCTCAACTGAGTCCCA
genomic: GTTCAGCAAAGTGTACACTGCCCCAAGCTTGCAAAAGCAATGGTACAATGgtaaatccaa ... tttgttgcagTTTTGGGTAACCATGACTACAGAGGAAAAGTTGAGGCTCAACTGAGTCCCA
EST: gi|27586836|gb|CB009531.1|CB009531
EST:     CCCAAGCTTGCAAAAGCAATGGTACAATG                         TTTTGGGTAACCATGACTACAGAGGAAAAGTTGAGGCTCAACTGAGTCCCA
genomic: CCCAAGCTTGCAAAAGCAATGGTACAATGgtaaatccaa ... tttgttgcagTTTTGGGTAACCATGACTACAGAGGAAAAGTTGAGGCTCAACTGAGTCCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaagcaaagaaaagtgatcggaggtttgggatttgtttgtttattttgttgcagTTTTGGGTAACCATGACTACAGAGGAAAAGTTGAGGCTCAACTGAGTCCCATTCTTACCAAGATGGACAGCAGATGGCTTTGCTTGAGGTCTTTTATTCT
                                        tttatttt  CT-rich tract
                               atttgtttgtttattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tatcacatttatgaataaaaaatgtgacccaaaagaggctgatggaaaagcaaagaaaagtgatcggaggtttgggatttgtttgtttattttgttgcagTTTTGGGTAACCATGACTACAGAGGAAAAGTTGAGGCTCAACTGAGTCCCATTCTTACCAAGATGGACAGCAGATGGCTTTGCTTGAGGTCTTTTATTCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - aaaaaat
- - - - - - - - - - - - - -cccaaaa
- - - - - - - - - - - - - - - - - - - - - -ggaaaag
- - - - - - - - - - - - - - - - - - - - - - - - - - aagaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggtttgg