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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcgcttggtccttgtcgaggtttgcctatgtggtggggaattacccaatttgtagtttaatcaagcgggacattatatggtgctgcagGTGCCGAACGGCTTTGGGTGCGGCCTAGGGGCGATGCAGCTGATACTGTACGCCATCTACTGCAAAAAAGGCAAGTCCAAGAATCTGGCCGCTGCAGACA

Basic information

species Vitis vinifera
transcript Vv18s0001g15330.t01
intron # 5
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|110731976|gb|EE106858.1|EE106858
EST:     GTACTTCCTGGTTTGTCTTTGGCCTACTCGGTAAAGACCCCTTTGTCGCG                         GTGCCGAACGGCTTTGGGTGCGGCCTANGGGCGATGCACCTGATACTGTAC
genomic: GTACTTCCTGGTTTGTCTTTGGCCTACTCGGTAAAGACCCCTTTGTCGCGgtaagcgctt ... ggtgctgcagGTGCCGAACGGCTTTGGGTGCGGCCTAGGGGCGATGCAGCTGATACTGTAC
EST: gi|110387851|gb|EC952549.1|EC952549
EST:     GTACTTCCTGGTTTGTCTTTGGCCTACTCGGTAAAGACCCCTTTGTCGCG                         GTGCCGAACGGCTTTGGGTGCGGCCTAGGGGCGATGCAGCTGATACTGTAC
genomic: GTACTTCCTGGTTTGTCTTTGGCCTACTCGGTAAAGACCCCTTTGTCGCGgtaagcgctt ... ggtgctgcagGTGCCGAACGGCTTTGGGTGCGGCCTAGGGGCGATGCAGCTGATACTGTAC
EST: gi|33403642|gb|CF209269.1|CF209269
EST:     GTACTTCCTGGTTTGTCTTTGGCCTACTCGGTAAAGACCCCTTTGTCGCG                         GTGCCGAACGGCTTTGGGTGCGGCCTAGGGGCGATGCAGCTGATACTGTAC
genomic: GTACTTCCTGGTTTGTCTTTGGCCTACTCGGTAAAGACCCCTTTGTCGCGgtaagcgctt ... ggtgctgcagGTGCCGAACGGCTTTGGGTGCGGCCTAGGGGCGATGCAGCTGATACTGTAC
EST: gi|30320705|gb|CD003967.1|CD003967
EST:     GTACTTCCTGGTTTGTCTTTGGCCTACTCGGTAAAGACCCCTTTGTCGCG                         GTGCCGAACGGCTTTGGGTGCGGCCTAGGGGCGATGCAGCTGATACTGTAC
genomic: GTACTTCCTGGTTTGTCTTTGGCCTACTCGGTAAAGACCCCTTTGTCGCGgtaagcgctt ... ggtgctgcagGTGCCGAACGGCTTTGGGTGCGGCCTAGGGGCGATGCAGCTGATACTGTAC
EST: gi|110374121|gb|EC938672.1|EC938672
EST:     GTACTTCCTGGTTTGTCTTTGGCCTACTCGGTAAAGACCCCTTTGTCGCG                         GTGCCGAACGGCTTTGGGTGCGGCCTAGGGGCGATGCAGCTGATACTGTAC
genomic: GTACTTCCTGGTTTGTCTTTGGCCTACTCGGTAAAGACCCCTTTGTCGCGgtaagcgctt ... ggtgctgcagGTGCCGAACGGCTTTGGGTGCGGCCTAGGGGCGATGCAGCTGATACTGTAC
EST: gi|110699794|gb|EE077102.1|EE077102
EST:     GTACTTCCTGGTTTGTCTTTGGCCTACTCGGTANAGACCCCTTTGTCGCG                         GTGCCGAACGGCTTTGGGTGCGGCCTANGGGCGATGCAGCTGATACTGTAC
genomic: GTACTTCCTGGTTTGTCTTTGGCCTACTCGGTAAAGACCCCTTTGTCGCGgtaagcgctt ... ggtgctgcagGTGCCGAACGGCTTTGGGTGCGGCCTAGGGGCGATGCAGCTGATACTGTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggggaattacccaatttgtagtttaatcaagcgggacattatatggtgctgcagGTGCCGAACGGCTTTGGGTGCGGCCTAGGGGCGATGCAGCTGATACTGTACGCCATCTACTGCAAAAAAGGCAAGTCCAAGAATCTGGCCGCTGCAGACA
                     gtttaat  putative branch site (score: 4)
             aatttgtagtttaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagcgcttggtccttgtcgaggtttgcctatgtggtggggaattacccaatttgtagtttaatcaagcgggacattatatggtgctgcagGTGCCGAACGGCTTTGGGTGCGGCCTAGGGGCGATGCAGCTGATACTGTACGCCATCTACTGCAAAAAAGGCAAGTCCAAGAATCTGGCCGCTGCAGACA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG