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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attattattattttcagtttcttcatatatcagggttttaagatggctagttaatattggtcaccaccaatttccaattttctttttcattcatatacagGCAAGGTTCAGGCAGTGCTTGTCGCAGTTTATATGGGGGCTTCGTCAAGTGGGTCATGGGAAAT

Basic information

species Vitis vinifera
transcript Vv13s0106g00790.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|71861354|gb|DT010409.1|DT010409
EST:     AAGCTAATGAATGTACAAGAAGATCAGGGGAAGCTTTCTGCTATTGCAAG                         GCAAGGTTCAGGCGGTGCTTG
genomic: AAGCTAATGAATGTACAAGAAGATCAGGGGAAGCTTTCTGCTATTGCAAGgtattcttta ... tcatatacagGCAAGGTTCAGGCAGTGCTTG
EST: gi|71863501|gb|DT012556.1|DT012556
EST:     AAGCTAATGAATGTACAAGAAGATCAGGGGAAGCTTTCTGCTATTGCAAG                         GCAAGGTTCAGGCAGTGCTTGTCGCAGTTTATATGGGGGCTTCGTCAAGTG
genomic: AAGCTAATGAATGTACAAGAAGATCAGGGGAAGCTTTCTGCTATTGCAAGgtattcttta ... tcatatacagGCAAGGTTCAGGCAGTGCTTGTCGCAGTTTATATGGGGGCTTCGTCAAGTG
EST: gi|110726861|gb|EE103015.1|EE103015
EST:     AAGCTAATGAATGTACAAGAAGATCAGGGGAAGCTTTCTGCTATTGCAAG                         GCAAGGTTCAAGCAGTGCTTGTCGCANTTTATATGGGGGCTTCGTCAAGTG
genomic: AAGCTAATGAATGTACAAGAAGATCAGGGGAAGCTTTCTGCTATTGCAAGgtattcttta ... tcatatacagGCAAGGTTCAGGCAGTGCTTGTCGCAGTTTATATGGGGGCTTCGTCAAGTG
EST: gi|110685079|gb|EE063090.1|EE063090
EST:     AAGCTAATGAATGTACAAGAAGATCAGGGGAAGCTTTCTGCTATTGCAAG                         GCAAGGTTCAGGCAGTGCTTGTCGCAGTTTATATGGGGGCTTCGTCAAGTG
genomic: AAGCTAATGAATGTACAAGAAGATCAGGGGAAGCTTTCTGCTATTGCAAGgtattcttta ... tcatatacagGCAAGGTTCAGGCAGTGCTTGTCGCAGTTTATATGGGGGCTTCGTCAAGTG
EST: gi|71863568|gb|DT012623.1|DT012623
EST:     AAGCTAATGAATGTACAAGAAGATCAGGGGAAGCTTTCTGCTATTGCAAG                         GCAAGGTTCAGGCAGTGCTTGTCGCAGTTTATATGGGGGCTTCGTCAAGTG
genomic: AAGCTAATGAATGTACAAGAAGATCAGGGGAAGCTTTCTGCTATTGCAAGgtattcttta ... tcatatacagGCAAGGTTCAGGCAGTGCTTGTCGCAGTTTATATGGGGGCTTCGTCAAGTG
EST: gi|110730337|gb|EE107301.1|EE107301
EST:     AAGCTAATGAATGTACAAGAAGATCAGGGGAAGCTTTCTGCTATTGCAAG                         GCAAGGTTCAGGCAGTGCTTGTCGCANTTTATATGGGGGCTTCGTCAAGTG
genomic: AAGCTAATGAATGTACAAGAAGATCAGGGGAAGCTTTCTGCTATTGCAAGgtattcttta ... tcatatacagGCAAGGTTCAGGCAGTGCTTGTCGCAGTTTATATGGGGGCTTCGTCAAGTG
EST: gi|110698656|gb|EE076402.1|EE076402
EST:     AAGCTAATGAATGTACAAGAAGATCAGGGGAAGCTTTCTGCTATTGCAAG                         GCAAGGTTCAGGCAGTGCTTGTCGCAGTTTATATGGGGGCTTCGTCAAGTG
genomic: AAGCTAATGAATGTACAAGAAGATCAGGGGAAGCTTTCTGCTATTGCAAGgtattcttta ... tcatatacagGCAAGGTTCAGGCAGTGCTTGTCGCAGTTTATATGGGGGCTTCGTCAAGTG
EST: gi|71862017|gb|DT011072.1|DT011072
EST:     AAGCTAATGAATGTACAAGAAGATCAGGGGAAGCTTTCTGCTATTGCAAG                         GCAAGGTTCAGGCAGTGCTTGTCGCAGTTTATAT
genomic: AAGCTAATGAATGTACAAGAAGATCAGGGGAAGCTTTCTGCTATTGCAAGgtattcttta ... tcatatacagGCAAGGTTCAGGCAGTGCTTGTCGCAGTTTATAT
EST: gi|110698854|gb|EE076824.1|EE076824
EST:     AAGCTAATGAATGTACAAGAAGATCAGGGGAAGCTTTCTGCTATTGCAAG                         GCAAGGTTCAGGCAGTGCTTGTCGCAGTTTATATGGGGGCTTCGTCAAGTG
genomic: AAGCTAATGAATGTACAAGAAGATCAGGGGAAGCTTTCTGCTATTGCAAGgtattcttta ... tcatatacagGCAAGGTTCAGGCAGTGCTTGTCGCAGTTTATATGGGGGCTTCGTCAAGTG
EST: gi|71863621|gb|DT012676.1|DT012676
EST:     AAGCTAATGAATGTACAAGAAGATCAGGGGAAGCTTTCTGCTATCGCAAG                         GCAAGGTTCAGGCAGTGCTTGTCGCAGTTTATATGGGGGCTTCGTCAAGTG
genomic: AAGCTAATGAATGTACAAGAAGATCAGGGGAAGCTTTCTGCTATTGCAAGgtattcttta ... tcatatacagGCAAGGTTCAGGCAGTGCTTGTCGCAGTTTATATGGGGGCTTCGTCAAGTG
EST: gi|110698365|gb|EE075791.1|EE075791
EST:     AAGCTAATGAATGTACAAGAAGATCAGGGGAAGCTTTCTGCTATTGCAAG                         GCAAGGTTCAGGCAGTGCTTGTCGCAGTTTATATGGGGGCTTCGTCAAGTG
genomic: AAGCTAATGAATGTACAAGAAGATCAGGGGAAGCTTTCTGCTATTGCAAGgtattcttta ... tcatatacagGCAAGGTTCAGGCAGTGCTTGTCGCAGTTTATATGGGGGCTTCGTCAAGTG
EST: gi|71864885|gb|DT013940.1|DT013940
EST:     AAGCTAATGAATGTACAAGAAGATCAGGGGAAGCTTTCTGCTATTGCAAG                         GCAAGGTTCAGGCAGTGCTTGTCGCAGTTTATATGGGGGCTTCGTCAAGTG
genomic: AAGCTAATGAATGTACAAGAAGATCAGGGGAAGCTTTCTGCTATTGCAAGgtattcttta ... tcatatacagGCAAGGTTCAGGCAGTGCTTGTCGCAGTTTATATGGGGGCTTCGTCAAGTG
EST: gi|71862607|gb|DT011662.1|DT011662
EST:     AAGCTAATGAATGTACAAGAAGATCAGGGGAAGCTTTCTGCTATTGCAAG                         GCAAGGTTCAGGCAGTGCTTGTCGC
genomic: AAGCTAATGAATGTACAAGAAGATCAGGGGAAGCTTTCTGCTATTGCAAGgtattcttta ... tcatatacagGCAAGGTTCAGGCAGTGCTTGTCGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctagttaatattggtcaccaccaatttccaattttctttttcattcatatacagGCAAGGTTCAGGCAGTGCTTGTCGCAGTTTATATGGGGGCTTCGTCAAGTGGGTCATGGGAAAT
   agttaat  putative branch site (score: 4)
                         tttccaattttctttt  putative PPT
                              aattttctttttcatt  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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attattattattttcagtttcttcatatatcagggttttaagatggctagttaatattggtcaccaccaatttccaattttctttttcattcatatacagGCAAGGTTCAGGCAGTGCTTGTCGCAGTTTATATGGGGGCTTCGTCAAGTGGGTCATGGGAAAT

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