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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggaagtgaggttgatatatcttggccttcttttttattttgcttttgctaggttttctgatttaagaatttttataagctaacatattcctttgtgtagTTATTTATTAATCTTGGATCGAACAAACTGGAAGACAAACATCCTTACGGCACTTCTAATCCCTTACATTTTCTTTAGTCTTCCTTCAATATTATTCAAC

Basic information

species Vitis vinifera
transcript Vv03s0063g01870.t01
intron # 1
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|30251788|gb|CB969521.1|CB969521
EST:     CTGGGCTTTGGCACTACATTTCTTGAGTGGTTGGCTTCTTTTGCTGCCAT                         TTATTTATTAATCTTGGATCGAACAAACTGGAAGACAAACATCCTTACGGC
genomic: CTGGGCTTTGGCACTACATTTCTTGAGTGGTTGGCTTCTTTTGCTGCCATgtatgttctg ... ctttgtgtagTTATTTATTAATCTTGGATCGAACAAACTGGAAGACAAACATCCTTACGGC
EST: gi|30251745|gb|CB969478.1|CB969478
EST:     CTGGGCTTTGGCACTACATTTCTTGAGTGGTTGGCTTCTTTTGCTGCCAT                         TTATTTATTAATCTTGGATCGAACAAACTGGAAGACAAACATCCTTACGGC
genomic: CTGGGCTTTGGCACTACATTTCTTGAGTGGTTGGCTTCTTTTGCTGCCATgtatgttctg ... ctttgtgtagTTATTTATTAATCTTGGATCGAACAAACTGGAAGACAAACATCCTTACGGC
EST: gi|351040914|gb|FQ443690.1|FQ443690
EST:     CTGGGCTTTGGCACTTCATTTCTTGAGTGGTTGGCTTCTTTTGCTGCCAT                         TTATTTATTAATCTTGGATTGAACAAACTGGAAGACAAACATCCTTACGGC
genomic: CTGGGCTTTGGCACTACATTTCTTGAGTGGTTGGCTTCTTTTGCTGCCATgtatgttctg ... ctttgtgtagTTATTTATTAATCTTGGATCGAACAAACTGGAAGACAAACATCCTTACGGC
EST: gi|34550554|gb|CF518772.1|CF518772
EST:     CTGGGCTTTGGCACTACATTTCTTGAGTGGTTGGCTTCTTTTGCTGCCAT                         TTATTTATTAATCTTGGATCGAACAAACTGGAAGACAAACATCCTTACGGC
genomic: CTGGGCTTTGGCACTACATTTCTTGAGTGGTTGGCTTCTTTTGCTGCCATgtatgttctg ... ctttgtgtagTTATTTATTAATCTTGGATCGAACAAACTGGAAGACAAACATCCTTACGGC
EST: gi|110691456|gb|EE069582.1|EE069582
EST:     CTGGGCTTTGGCACTACATTTCTTGAGTGGTTGGCTTCTTTTGCTGCCAT                         TTATTTATTAATCTTGGATCGAACAAACTGGAAGACAAACATCCTTACGGC
genomic: CTGGGCTTTGGCACTACATTTCTTGAGTGGTTGGCTTCTTTTGCTGCCATgtatgttctg ... ctttgtgtagTTATTTATTAATCTTGGATCGAACAAACTGGAAGACAAACATCCTTACGGC
EST: gi|30131453|gb|CB916792.1|CB916792
EST:     GCTTCTTTTGCTGCCAT                         TTATTTATTAATCTTGGATCGAACAAACTGGAAGAC
genomic: GCTTCTTTTGCTGCCATgtatgttctg ... ctttgtgtagTTATTTATTAATCTTGGATCGAACAAACTGGAAGAC
EST: gi|34549572|gb|CF517804.1|CF517804
EST:     CTGGGCTTTGGCACTTCATTTCTTGAGTGGTTGGCTTCTTTTGCTGCCAT                         TTATTTATTAATCTTGGATCGAACAAACTGGAAGACAAACATCCTTACGGC
genomic: CTGGGCTTTGGCACTACATTTCTTGAGTGGTTGGCTTCTTTTGCTGCCATgtatgttctg ... ctttgtgtagTTATTTATTAATCTTGGATCGAACAAACTGGAAGACAAACATCCTTACGGC
EST: gi|77585907|gb|DV222055.1|DV222055
EST:     CTGGGCTTTGGCACTACATTTCTTGAGTGGTTGGCTTCTTTTGCTGCCAT                         TTATTTATTAATCTTGGATCGAACAAACTGGAAGACAAACATCCTTACGGC
genomic: CTGGGCTTTGGCACTACATTTCTTGAGTGGTTGGCTTCTTTTGCTGCCATgtatgttctg ... ctttgtgtagTTATTTATTAATCTTGGATCGAACAAACTGGAAGACAAACATCCTTACGGC
EST: gi|30131445|gb|CB916784.1|CB916784
EST:     CTGGGCTTTGGCACTACATTTCTTGAGTGGTTGGCTTCTTTTGCTGCCAT                         TTATTTATTAATCTTGGATCGAACAAACTGGAAGACAAACATCCTTACGGC
genomic: CTGGGCTTTGGCACTACATTTCTTGAGTGGTTGGCTTCTTTTGCTGCCATgtatgttctg ... ctttgtgtagTTATTTATTAATCTTGGATCGAACAAACTGGAAGACAAACATCCTTACGGC
EST: gi|34547558|gb|CF515790.1|CF515790
EST:     CTGGGCTTTGGCACTTCATTTCTTGAGTGGTTGGCTTCTTTTGCTGCCAT                         TTATTTATTAATCTTGGATCGAACAAACTGGAAGACAAACATCCTTACGGC
genomic: CTGGGCTTTGGCACTACATTTCTTGAGTGGTTGGCTTCTTTTGCTGCCATgtatgttctg ... ctttgtgtagTTATTTATTAATCTTGGATCGAACAAACTGGAAGACAAACATCCTTACGGC
EST: gi|77581551|gb|DV219724.1|DV219724
EST:     CTGGGCTTTGGCACTACATTTCTTGAGTGGTTGGCTTCTTTTGCTGCCAT                         TTATTTATTAATCTTGGATCGAACAAACTGGAAGACAAACATCCTTACGGC
genomic: CTGGGCTTTGGCACTACATTTCTTGAGTGGTTGGCTTCTTTTGCTGCCATgtatgttctg ... ctttgtgtagTTATTTATTAATCTTGGATCGAACAAACTGGAAGACAAACATCCTTACGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgctaggttttctgatttaagaatttttataagctaacatattcctttgtgtagTTATTTATTAATCTTGGATCGAACAAACTGGAAGACAAACATCCTTACGGCACTTCTAATCCCTTACATTTTCTTTAGTCTTCCTTCAATATTATTCAAC
                                agctaac  putative branch site (score: 2)
                                        tattccttt  CT-rich tract
               atttaagaatttttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tggaagtgaggttgatatatcttggccttcttttttattttgcttttgctaggttttctgatttaagaatttttataagctaacatattcctttgtgtagTTATTTATTAATCTTGGATCGAACAAACTGGAAGACAAACATCCTTACGGCACTTCTAATCCCTTACATTTTCTTTAGTCTTCCTTCAATATTATTCAAC

- - - - - - - - - - - -ggccttc