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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agtttgcattaaatttatcctcatgttgttcaactaagccaaatgcaatctagcctgctaaaaacatactgaaagctgaattttatcctgtaattttcagTTCAAATCAGTATTCTCATTATTCAAGGATGTCAAAGTCATCCAATTCTCAACGATGCAAGATGCTTTCCTCGGTTTCACTGACAAG

Basic information

species Vitis vinifera
transcript Vv02s0087g00740.t01
intron # 12
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|56688584|gb|CX126487.1|CX126487
EST:     ATACAAGTTCACTAGGAATAAGACTTCCAAAGCACAGCACTGAAGAAACG                         TTCAAATCAGTATTCTCATTATTCAAGGATGTCAAAGTCATCCAATTCTCA
genomic: ATACAAGTTCACTAGGAATAAGACTTCCAAAGCACAGCACTGAAGAAATGgtaactttga ... taattttcagTTCAAATCAGTATTCTCATTATTCAAGGATGTCAAAGTCATCCAATTCTCA
EST: gi|352773054|gb|FQ470669.1|FQ470669
EST:     ATACAAGTTCACTAGGAATAAGACTTCCAAAGCACAGCACTGAAGAAATG                         TTCAAATCAGTATTCTCATTATTCAAGGATGTCAAAGTCATCCAATTCTCA
genomic: ATACAAGTTCACTAGGAATAAGACTTCCAAAGCACAGCACTGAAGAAATGgtaactttga ... taattttcagTTCAAATCAGTATTCTCATTATTCAAGGATGTCAAAGTCATCCAATTCTCA
EST: gi|110360771|gb|EC924133.1|EC924133
EST:     ATACAAGTTCACTAGGAATAAGACTTCCAAAGCACAGCACTGAAGAAATG                         TTCAAATCAGTATTCTCATTATTCAAGGATGTCAAAGTCATCCAATTCTCA
genomic: ATACAAGTTCACTAGGAATAAGACTTCCAAAGCACAGCACTGAAGAAATGgtaactttga ... taattttcagTTCAAATCAGTATTCTCATTATTCAAGGATGTCAAAGTCATCCAATTCTCA
EST: gi|110702634|gb|EE078777.1|EE078777
EST:     ATACAAGTTCACTAGGAATAAGACTTCCAAAGCACAGCACTGAAGAAACG                         TTCAAATCAGTATTCTCATTATTCAAGGATGTCAAAGTCATCCAATTCTCA
genomic: ATACAAGTTCACTAGGAATAAGACTTCCAAAGCACAGCACTGAAGAAATGgtaactttga ... taattttcagTTCAAATCAGTATTCTCATTATTCAAGGATGTCAAAGTCATCCAATTCTCA
EST: gi|56688689|gb|CX126592.1|CX126592
EST:     ATACAAGTTCACTAGGAATAAGACTTCCAAAGCACAGCACTGAAGAAACG                         TTCAAATCAGTATTCTCATTATTCAAGGATGTCAAAGTCATCCAATTCTCA
genomic: ATACAAGTTCACTAGGAATAAGACTTCCAAAGCACAGCACTGAAGAAATGgtaactttga ... taattttcagTTCAAATCAGTATTCTCATTATTCAAGGATGTCAAAGTCATCCAATTCTCA
EST: gi|56688204|gb|CX126107.1|CX126107
EST:     ATACAAGTTCACTAGGAATAAGACTTCCAAAGCACAGCACTGAAGAAACG                         TTCAAATCAGTATTCTCATTATTCAAGGATGTCAAAGTCATCCAATTCTCA
genomic: ATACAAGTTCACTAGGAATAAGACTTCCAAAGCACAGCACTGAAGAAATGgtaactttga ... taattttcagTTCAAATCAGTATTCTCATTATTCAAGGATGTCAAAGTCATCCAATTCTCA
EST: gi|34364071|gb|CF405656.1|CF405656
EST:     ATACAAGTTCACTAGGAATAAGACTTCCAAAGCACAGCACTGAAGAAATG                         TTCAAATCAGTATTCTCATTATTCAAGGATGTCAAAGTCATCCAATTCTCA
genomic: ATACAAGTTCACTAGGAATAAGACTTCCAAAGCACAGCACTGAAGAAATGgtaactttga ... taattttcagTTCAAATCAGTATTCTCATTATTCAAGGATGTCAAAGTCATCCAATTCTCA
EST: gi|56688359|gb|CX126262.1|CX126262
EST:     ATACAAGTTCACTAGGAATAAGACTTCCAAAGCACAGCACTGAAGAAACG                         TTCAAATCAGTATTCTCATTATTCAAGGATGTCAAAGTCATCCAATTCTCA
genomic: ATACAAGTTCACTAGGAATAAGACTTCCAAAGCACAGCACTGAAGAAATGgtaactttga ... taattttcagTTCAAATCAGTATTCTCATTATTCAAGGATGTCAAAGTCATCCAATTCTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caatctagcctgctaaaaacatactgaaagctgaattttatcctgtaattttcagTTCAAATCAGTATTCTCATTATTCAAGGATGTCAAAGTCATCCAATTCTCAACGATGCAAGATGCTTTCCTCGGTTTCACTGACAAG
          tgctaaa  putative branch site (score: 2)
                                                ttttc  putative PPT
             taaaaacata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agtttgcattaaatttatcctcatgttgttcaactaagccaaatgcaatctagcctgctaaaaacatactgaaagctgaattttatcctgtaattttcagTTCAAATCAGTATTCTCATTATTCAAGGATGTCAAAGTCATCCAATTCTCAACGATGCAAGATGCTTTCCTCGGTTTCACTGACAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - cctcatg
- - - - - - - - - - - - - - - - - -aagccaa
- - - - - - - - - - - - - - - - - - - - - -tgcaatc
- - - - - - - - - - - - - - - - - - - - - - - - - -agcctgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaca