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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagactctctacccttaatgcttatggccttatctgtttcatggacccttcctcacccttataacatgtgggaaaaaaaattatcagGTGTTCTACGTGCCATTCCTGCGGCATATATGGACTTGGTTGGGTCTTACACCTGCAACAAAGAAAAATTTTACCTCCCTCTTGGCATCTGGTTATAGTT

Basic information

species Vitis vinifera
transcript Vv04s0044g01940.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|110719781|gb|EE095207.1|EE095207
EST:     TTACAGGTTTCCTGCCTCTCTCAAAAATTAAAGTCCTTGCAAGTAGTGCT                         GTGTTCTACGTGCCATTCCTGCGGCATATATGGACTTGGTTGGGTCTTACA
genomic: TTACAGGTTTCCTGCCTCTCTCAAAAATTAAAGTCCTTGCAAGTAGTGCTgtaagactct ... aaattatcagGTGTTCTACGTGCCATTCCTGCGGCATATATGGACTTGGTTGGGTCTTACA
EST: gi|351031411|gb|FQ445436.1|FQ445436
EST:     TTACAGGTTTCCTGCCTCTCTCAAAAATTAAAGTCCTTGCAAGTAGTGCT                         GTGTTCTACGTGCCATTCCTGCGGCATATATGGACTTTGGTTTGGGTCTTA
genomic: TTACAGGTTTCCTGCCTCTCTCAAAAATTAAAGTCCTTGCAAGTAGTGCTgtaagactct ... aaattatcagGTGTTCTACGTGCCATTCCTGCGGCATATATGGACTT-GGTT-GGGTCTTA
EST: gi|349830416|gb|FQ420676.1|FQ420676
EST:     TTACAGGTTTCCTGCCTCTCTCAAAAATTAAAGTCCTTGCAAGTAGTGCT                         GTGTTCTACGTGCCATTCCTGCGGCATATATGGACTTGGTTGGGTCTTACA
genomic: TTACAGGTTTCCTGCCTCTCTCAAAAATTAAAGTCCTTGCAAGTAGTGCTgtaagactct ... aaattatcagGTGTTCTACGTGCCATTCCTGCGGCATATATGGACTTGGTTGGGTCTTACA
EST: gi|110410772|gb|EC976464.1|EC976464
EST:     TTACAGGTTTCCTGCCTCTCTCAAAAATTAAAGTCCTTGCAAGTAGTGCT                         GTGTTCTACGTGCCATTCCTGCGGCATATATGGACTTGGTTGGGTCTTACA
genomic: TTACAGGTTTCCTGCCTCTCTCAAAAATTAAAGTCCTTGCAAGTAGTGCTgtaagactct ... aaattatcagGTGTTCTACGTGCCATTCCTGCGGCATATATGGACTTGGTTGGGTCTTACA
EST: gi|110366687|gb|EC930603.1|EC930603
EST:     TTACAGGTTTCCTGCCTCTCTCAAAAATTAAAGTCCTTGCAAGTAGTGCT                         TTGTTCTACGTGCCATTCCTGCGGCATATATGGACTTGGTTGGGTCTTACA
genomic: TTACAGGTTTCCTGCCTCTCTCAAAAATTAAAGTCCTTGCAAGTAGTGCTgtaagactct ... aaattatcagGTGTTCTACGTGCCATTCCTGCGGCATATATGGACTTGGTTGGGTCTTACA
EST: gi|110718650|gb|EE095723.1|EE095723
EST:     TTACAGGTTTCCTGCCTCTCTCAAAAATTAAAGTCCTTGCAAGTAGTGCC                         GTGTTCTACGTGCCATTCCTGCGGCATATATGGACTTGGTTGGGTCTTACA
genomic: TTACAGGTTTCCTGCCTCTCTCAAAAATTAAAGTCCTTGCAAGTAGTGCTgtaagactct ... aaattatcagGTGTTCTACGTGCCATTCCTGCGGCATATATGGACTTGGTTGGGTCTTACA
EST: gi|110405821|gb|EC971375.1|EC971375
EST:     TTACAGGTTTCCTGCCTCTCTCAAAAATTAAAGTCCTTGCAAGTAGTGCT                         GTGTTCTACGTGCCATTCCTGCGGCATATATGGACTTGGTTGGGTCTTACA
genomic: TTACAGGTTTCCTGCCTCTCTCAAAAATTAAAGTCCTTGCAAGTAGTGCTgtaagactct ... aaattatcagGTGTTCTACGTGCCATTCCTGCGGCATATATGGACTTGGTTGGGTCTTACA
EST: gi|349810065|gb|FQ401511.1|FQ401511
EST:     TTACAGGTTTCCTGCCTCTCTCAAAAATTAAAGTCCTTGCCAGTAGTGCT                         GTGTTCTACGTGCCATTCCTGCGGCATATATGGACTTGGTTGGGTC
genomic: TTACAGGTTTCCTGCCTCTCTCAAAAATTAAAGTCCTTGCAAGTAGTGCTgtaagactct ... aaattatcagGTGTTCTACGTGCCATTCCTGCGGCATATATGGACTTGGTTGGGTC
EST: gi|349810606|gb|FQ402849.1|FQ402849
EST:     TTACAGGTTTCCTGCCTCTCTCANAAATTAAAGTCCTTGCAAGTAGTGCT                         GTGTTCTACGTGCCATTCCTGCGGCATATATGGACTTGGTTGGGTCTTACA
genomic: TTACAGGTTTCCTGCCTCTCTCAAAAATTAAAGTCCTTGCAAGTAGTGCTgtaagactct ... aaattatcagGTGTTCTACGTGCCATTCCTGCGGCATATATGGACTTGGTTGGGTCTTACA
EST: gi|30131047|gb|CB916386.1|CB916386
EST:     TTACAGGTTTCCTGCCTCTCTCAAAAATTAAAGTCCTTGCAAGTAGTGCT                         GTGTTCTACGTGCCATTCCTGCGGCATATATGGACTTGGTTGGGTCTTACA
genomic: TTACAGGTTTCCTGCCTCTCTCAAAAATTAAAGTCCTTGCAAGTAGTGCTgtaagactct ... aaattatcagGTGTTCTACGTGCCATTCCTGCGGCATATATGGACTTGGTTGGGTCTTACA
EST: gi|156739053|gb|EV243166.1|EV243166
EST:     TTACAGGTTTCCTGCCTCTCTCAAAAATTAAAGTCCTTGCAAGTAGTGCT                         GTGTTCTACGTGCCATTCCTGCGGCATATATGGACTTGGTTGGGTCTTACA
genomic: TTACAGGTTTCCTGCCTCTCTCAAAAATTAAAGTCCTTGCAAGTAGTGCTgtaagactct ... aaattatcagGTGTTCTACGTGCCATTCCTGCGGCATATATGGACTTGGTTGGGTCTTACA
EST: gi|110719222|gb|EE096951.1|EE096951
EST:     TTACAGGTTTCCTGCCTCTCTCAAAAATTAAAGTCCTTGCAAGTAATGCT                         GTGTTCTACGTGCCATTCCTGCGGCATAT
genomic: TTACAGGTTTCCTGCCTCTCTCAAAAATTAAAGTCCTTGCAAGTAGTGCTgtaagactct ... aaattatcagGTGTTCTACGTGCCATTCCTGCGGCATAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgtttcatggacccttcctcacccttataacatgtgggaaaaaaaattatcagGTGTTCTACGTGCCATTCCTGCGGCATATATGGACTTGGTTGGGTCTTACACCTGCAACAAAGAAAAATTTTACCTCCCTCTTGGCATCTGGTTATAGTT
                          ttataac  putative branch site (score: 2)
                                        aaaaaaaattatca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagactctctacccttaatgcttatggccttatctgtttcatggacccttcctcacccttataacatgtgggaaaaaaaattatcagGTGTTCTACGTGCCATTCCTGCGGCATATATGGACTTGGTTGGGTCTTACACCTGCAACAAAGAAAAATTTTACCTCCCTCTTGGCATCTGGTTATAGTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA