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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttcttgaagcaactatatgcaaaaagttagctatttggcaaaacttcttgactttcatcacctgctgatgtaacttcgatcagGTGGTGGAAGGGTTTAGACTTTGCCACGAAGCTACCTTTTGCAAGGGATAGACTAGTGGAGATTTACTTTTCGGCATTGGGAGTGTGCTTTGAGCCCCAG

Basic information

species Vitis vinifera
transcript Vv19s0014g01060.t01
intron # 3
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|161718647|gb|FC068223.1|FC068223
EST:     TTCAACCTGTTGCAGTCACTCCATAGGAAAGAGCTAAGTGAGATCACTAG                         GTGTTGGAAGGGTTTAGACTTTGCCACGAAGCTACCTTTTGTCA-GGGATA
genomic: TTCAACCTGTTGCAGTCACTCCATAGGAAAGAGCTAAGTGAGATCACTAGgtaagttctt ... cttcgatcagGTGGTGGAAGGGTTTAGACTTTGCCACGAAGCTACCTTTTG-CAAGGGATA
EST: gi|161719018|gb|FC067638.1|FC067638
EST:     TTCAACCTGTTGCAGTCACTCCATAGGAAAGAGCTAAGTGAGATCACTAG                         GTGGTGGAAGGGTTTAGACTTTGCCACGAAGCTACCTTTTGCAAGGGATAG
genomic: TTCAACCTGTTGCAGTCACTCCATAGGAAAGAGCTAAGTGAGATCACTAGgtaagttctt ... cttcgatcagGTGGTGGAAGGGTTTAGACTTTGCCACGAAGCTACCTTTTGCAAGGGATAG
EST: gi|161715569|gb|FC069080.1|FC069080
EST:     TTCAACCTGTTGCAGTCACTCCATAGGAAAGAGCTAAGTGAGATCACTAG                         GTGGTGGAAGGGTTTAGACTTTGCCACGAAGCTACCTTTTGCAAGGGATAG
genomic: TTCAACCTGTTGCAGTCACTCCATAGGAAAGAGCTAAGTGAGATCACTAGgtaagttctt ... cttcgatcagGTGGTGGAAGGGTTTAGACTTTGCCACGAAGCTACCTTTTGCAAGGGATAG
EST: gi|161717806|gb|FC064737.1|FC064737
EST:     TTCAACCTGTTGCAGTCACTCCATAGGAAAGAGCTAAGTGAGATCACTAG                         GTGGTGGAAGGGTTTAGACTTTGCCACGAAGCTACCTTTTGCAAGGGATAG
genomic: TTCAACCTGTTGCAGTCACTCCATAGGAAAGAGCTAAGTGAGATCACTAGgtaagttctt ... cttcgatcagGTGGTGGAAGGGTTTAGACTTTGCCACGAAGCTACCTTTTGCAAGGGATAG
EST: gi|161717484|gb|FC068497.1|FC068497
EST:     TTCAACCTGTTGCAGTCACTCCATAGGAAAGAGCTAAGTGAGATCACTAG                         GTGGTGGAAGGGTTTAGACTTTGCCACGAAGCTACCTTTTGCAAGGGATAG
genomic: TTCAACCTGTTGCAGTCACTCCATAGGAAAGAGCTAAGTGAGATCACTAGgtaagttctt ... cttcgatcagGTGGTGGAAGGGTTTAGACTTTGCCACGAAGCTACCTTTTGCAAGGGATAG
EST: gi|161721108|gb|FC070370.1|FC070370
EST:     AGCTAAGTGAGATCACTAG                         GTGGTGGAAGGGTTTAGACTTTGCCACGAAGCTACCTTTTGCAAGGGATAG
genomic: AGCTAAGTGAGATCACTAGgtaagttctt ... cttcgatcagGTGGTGGAAGGGTTTAGACTTTGCCACGAAGCTACCTTTTGCAAGGGATAG
EST: gi|37185793|gb|CF605146.1|CF605146
EST:     TTCAACCTGTTGCAGTCACTCCATAGGAAAGAGCTAAGTGAGATCACTAG                         GTGGTGGAAGGGTTTAGACTTTGCCACGAAGCTACCTTTTGCAAGGGATAG
genomic: TTCAACCTGTTGCAGTCACTCCATAGGAAAGAGCTAAGTGAGATCACTAGgtaagttctt ... cttcgatcagGTGGTGGAAGGGTTTAGACTTTGCCACGAAGCTACCTTTTGCAAGGGATAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agctatttggcaaaacttcttgactttcatcacctgctgatgtaacttcgatcagGTGGTGGAAGGGTTTAGACTTTGCCACGAAGCTACCTTTTGCAAGGGATAGACTAGTGGAGATTTACTTTTCGGCATTGGGAGTGTGCTTTGAGCCCCAG
                                       atgtaac  putative branch site (score: 3)
           aaaactt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagttcttgaagcaactatatgcaaaaagttagctatttggcaaaacttcttgactttcatcacctgctgatgtaacttcgatcagGTGGTGGAAGGGTTTAGACTTTGCCACGAAGCTACCTTTTGCAAGGGATAGACTAGTGGAGATTTACTTTTCGGCATTGGGAGTGTGCTTTGAGCCCCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT