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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgcgggtgcttttggttattaaagaatccttgtgaatgcagctggtaatgtatttggttttagtggagattactgaatataatttttcaatatcgttagGGAAGAGCTAGTGAAGGAGTGTTTACAAAAGGGCACTGAGCTAGTCCAATCAATCGCAGACACCCTTTTCAACTTACCTTCAACCGAAGACATAGATGGC

Basic information

species Vitis vinifera
transcript Vv15s0048g02730.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|161705937|gb|FC055387.1|FC055387
EST:     CTTCTGGCCTTCGACCCACTTCACCACTTCCCTTCTCCCCCCTCTTCCAG                         GGAAGAGCTAGTGAAGGAGTGTTTACAAAAGGGCACTGAGCTAGTCCAATC
genomic: CTTCTGGCCTTCGACCCACTTCACCACTTCCCTTCTCCCCCCTCTTCCAGgtagggtttt ... atatcgttagGGAAGAGCTAGTGAAGGAGTGTTTACAAAAGGGCACTGAGCTAGTCCAATC
EST: gi|37190159|gb|CF609508.1|CF609508
EST:     CTTCTGGCCTTCGACCCACTTCACCACTTCCCTTCTCCCCCCTCTTCCAG                         GGAAGAGCTAGTGAAGGAGTGTTTACAAAAGGGCACTGAGCTAGTCCAATC
genomic: CTTCTGGCCTTCGACCCACTTCACCACTTCCCTTCTCCCCCCTCTTCCAGgtagggtttt ... atatcgttagGGAAGAGCTAGTGAAGGAGTGTTTACAAAAGGGCACTGAGCTAGTCCAATC
EST: gi|26257434|gb|CA808497.1|CA808497
EST:     CTTCTGGCCTTCGACCCACTTCACCACTTCCCTTCTCCCCCCTCTTCCAG                         GGAAGAGCTAGTGAAGGAGTGTTTACAAAAGGGCACTGAGCTAGTCCAATC
genomic: CTTCTGGCCTTCGACCCACTTCACCACTTCCCTTCTCCCCCCTCTTCCAGgtagggtttt ... atatcgttagGGAAGAGCTAGTGAAGGAGTGTTTACAAAAGGGCACTGAGCTAGTCCAATC
EST: gi|71878852|gb|DT027907.1|DT027907
EST:     CTTCTGGCCTTCGACCCACTTCACCACTTCCCTTCTCCCCCCTCTTCCAG                         GGAAGAGCTAGTGAAGGAGTGTTTACAAAAGGGCACTGAGCTAGTCCAATC
genomic: CTTCTGGCCTTCGACCCACTTCACCACTTCCCTTCTCCCCCCTCTTCCAGgtagggtttt ... atatcgttagGGAAGAGCTAGTGAAGGAGTGTTTACAAAAGGGCACTGAGCTAGTCCAATC
EST: gi|30252208|gb|CB969759.1|CB969759
EST:     CTTCTGGCCTTCGACCCACTTCACCACTTCCCTTCTCCCCCCTCTTCCAG                         GGAAGAGCTAGTGAAGGAGTGTTTACAAAAGGGCACTGAGCTAGTCCAATC
genomic: CTTCTGGCCTTCGACCCACTTCACCACTTCCCTTCTCCCCCCTCTTCCAGgtagggtttt ... atatcgttagGGAAGAGCTAGTGAAGGAGTGTTTACAAAAGGGCACTGAGCTAGTCCAATC
EST: gi|30251454|gb|CB969187.1|CB969187
EST:     CTTCTGGCCTTCGACCCACTTCACCACTTCCCTTCTCCCCCCTCTTCCAG                         GGAAGAGCTAGTGAAGGAGTGTTTACAAAAGGGCACTGAGCTAGTCCAATC
genomic: CTTCTGGCCTTCGACCCACTTCACCACTTCCCTTCTCCCCCCTCTTCCAGgtagggtttt ... atatcgttagGGAAGAGCTAGTGAAGGAGTGTTTACAAAAGGGCACTGAGCTAGTCCAATC
EST: gi|71878364|gb|DT027419.1|DT027419
EST:     CTTCTGGCCTTCGACCCACTTCACCACTTCCCTTCTCCCCCCTCTTCCAG                         GGAAGAGCTAGTGAAGGAGTGTTTACAAAAGGGCACTGAGCTAGTCCAATC
genomic: CTTCTGGCCTTCGACCCACTTCACCACTTCCCTTCTCCCCCCTCTTCCAGgtagggtttt ... atatcgttagGGAAGAGCTAGTGAAGGAGTGTTTACAAAAGGGCACTGAGCTAGTCCAATC
EST: gi|27578726|gb|CB001421.1|CB001421
EST:     CTTCTGGCCTTCGACCCACTTCACCACTTCCCTTCTCCCCCCTCTTCCAG                         GGAAGAGCTAGTGAAGGAGTGTTTACAAAAGGGCACTGAGCTAGTCCAATC
genomic: CTTCTGGCCTTCGACCCACTTCACCACTTCCCTTCTCCCCCCTCTTCCAGgtagggtttt ... atatcgttagGGAAGAGCTAGTGAAGGAGTGTTTACAAAAGGGCACTGAGCTAGTCCAATC
EST: gi|71880010|gb|DT029065.1|DT029065
EST:     CTTCTGGCCTTCGACCCACTTCACCACTTCCCTTCTCCCCCCTCTTCCAG                         GGAAGAGCTAGTGAAGGAGTGTTTACAAAAGGGCACTGAGCTAGTCCAATC
genomic: CTTCTGGCCTTCGACCCACTTCACCACTTCCCTTCTCCCCCCTCTTCCAGgtagggtttt ... atatcgttagGGAAGAGCTAGTGAAGGAGTGTTTACAAAAGGGCACTGAGCTAGTCCAATC
EST: gi|110367133|gb|EC931058.1|EC931058
EST:     CTTCTGGCCTTCGACCCACTTCACCACTTCCCTTCTCCCCCCTCTTCCAG                         GGAAGAGCTAGTGAAGGAGTGTTTACAAAAGGGCACTGAGCTAGTCCAATC
genomic: CTTCTGGCCTTCGACCCACTTCACCACTTCCCTTCTCCCCCCTCTTCCAGgtagggtttt ... atatcgttagGGAAGAGCTAGTGAAGGAGTGTTTACAAAAGGGCACTGAGCTAGTCCAATC
EST: gi|26257329|gb|CA808392.1|CA808392
EST:     CTTCTGGCCTTCGACCCACTTCACCACTTCCCTTCTCCCCCCTCTTCCAG                         GGAAGAGCTAGTGAAGGAGTGTTTACAAAAGGGCACTGAGCTAGTCCAATC
genomic: CTTCTGGCCTTCGACCCACTTCACCACTTCCCTTCTCCCCCCTCTTCCAGgtagggtttt ... atatcgttagGGAAGAGCTAGTGAAGGAGTGTTTACAAAAGGGCACTGAGCTAGTCCAATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaatgtatttggttttagtggagattactgaatataatttttcaatatcgttagGGAAGAGCTAGTGAAGGAGTGTTTACAAAAGGGCACTGAGCTAGTCCAATCAATCGCAGACACCCTTTTCAACTTACCTTCAACCGAAGACATAGATGGC
                      agattactgaatataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttgcgggtgcttttggttattaaagaatccttgtgaatgcagctggtaatgtatttggttttagtggagattactgaatataatttttcaatatcgttagGGAAGAGCTAGTGAAGGAGTGTTTACAAAAGGGCACTGAGCTAGTCCAATCAATCGCAGACACCCTTTTCAACTTACCTTCAACCGAAGACATAGATGGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- gcgggtg
- - - - -cttttgg
- - - - - - - - - - taaagaa
- - - - - - - - - - - - - - - - - gaatgca