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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttataagatgttttctcaatcttttcttttgtcaagagaaaccaaagattcagtattcctttatttccattgattcatgtactaattggcatttttgcagCCCGAGAATTTACTTCTGGATTCATACGGTGTTCTTAAAATATCAGACTTTGGATTGAGTGCCCTTTCACAGCAAGTGAGG

Basic information

species Vitis vinifera
transcript Vv15s0048g02740.t01
intron # 4
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|32249979|gb|CD715798.1|CD715798
EST:     ATGCTGTAGATTATTGCCACAGTAGAGGCGTGTACCATAGAGATTTGAAG                         CCCGAGAATTTACTTCTGGATTCATACGGTGTTCTTAAAATATCAGACTTT
genomic: ATGCTGTAGATTATTGCCACAGTAGAGGCGTGTACCATAGAGATTTGAAGgtttataaga ... atttttgcagCCCGAGAATTTACTTCTGGATTCATACGGTGTTCTTAAAATATCAGACTTT
EST: gi|71859991|gb|DT009046.1|DT009046
EST:     ATGCTGTAGATTATTGCCACAGTAGAGGCGTGTACCATAGAGATTTGAAG                         CCCGAGAATTTACTTCTGGATTCATATGGTGTTCTTAAAATATCAGACTTT
genomic: ATGCTGTAGATTATTGCCACAGTAGAGGCGTGTACCATAGAGATTTGAAGgtttataaga ... atttttgcagCCCGAGAATTTACTTCTGGATTCATACGGTGTTCTTAAAATATCAGACTTT
EST: gi|110732542|gb|EE107921.1|EE107921
EST:     ATGCTGTAGATTATTGCCACAGTAGAGGCGTGTACCATAGAGATTTGAAG                         CCCGAGAATTTACTTCTGGATTCATACGGTGTTCTTAAAATATCAGACTTT
genomic: ATGCTGTAGATTATTGCCACAGTAGAGGCGTGTACCATAGAGATTTGAAGgtttataaga ... atttttgcagCCCGAGAATTTACTTCTGGATTCATACGGTGTTCTTAAAATATCAGACTTT
EST: gi|71863180|gb|DT012235.1|DT012235
EST:     ATGCTGTAGATTATTGCCACAGTAGAGGCGTGTACCATAGAGATTTGAAG                         CCCGAGAATTTACTTCTGGATTCATATGGTGTTCTTAAAATATCAGACTTT
genomic: ATGCTGTAGATTATTGCCACAGTAGAGGCGTGTACCATAGAGATTTGAAGgtttataaga ... atttttgcagCCCGAGAATTTACTTCTGGATTCATACGGTGTTCTTAAAATATCAGACTTT
EST: gi|110689812|gb|EE066365.1|EE066365
EST:     ATGCTGTAGATTATTGCCACAGTAGAGGCGTGTACCATAGAGATTTGAAG                         CCCGAAAATTTACTTCTGGATTCATACGGTGTTCTTAAAATATCAGACTTT
genomic: ATGCTGTAGATTATTGCCACAGTAGAGGCGTGTACCATAGAGATTTGAAGgtttataaga ... atttttgcagCCCGAGAATTTACTTCTGGATTCATACGGTGTTCTTAAAATATCAGACTTT
EST: gi|351022905|gb|FQ428814.1|FQ428814
EST:     ATGCTGTAGATTATTGCCACAGTAGAGGCGTGTACCATAGAGATTTGAAG                         CCCGAGAATTTACTTCTGGATTCATACGGTGTTCTTAAAATATCAGACTTT
genomic: ATGCTGTAGATTATTGCCACAGTAGAGGCGTGTACCATAGAGATTTGAAGgtttataaga ... atttttgcagCCCGAGAATTTACTTCTGGATTCATACGGTGTTCTTAAAATATCAGACTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agattcagtattcctttatttccattgattcatgtactaattggcatttttgcagCCCGAGAATTTACTTCTGGATTCATACGGTGTTCTTAAAATATCAGACTTTGGATTGAGTGCCCTTTCACAGCAAGTGAGG
                                  tactaat  putative branch site (score: 1)
                                            cattttt  putative PPT
              tttattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttataagatgttttctcaatcttttcttttgtcaagagaaaccaaagattcagtattcctttatttccattgattcatgtactaattggcatttttgcagCCCGAGAATTTACTTCTGGATTCATACGGTGTTCTTAAAATATCAGACTTTGGATTGAGTGCCCTTTCACAGCAAGTGAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG