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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atagattctgggcagcagcttggttatctacacacttgtttaatatttttagcattacctttttattctttattatatacttcttttggaaattttgcagGGCTGTTGCTTACATTCCTCTGACAGTCCTGGCAGTTCCAGCTTCAGTACTTACT

Basic information

species Vitis vinifera
transcript Vv05s0020g02660.t01
intron # 2
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|71857489|gb|DT006544.1|DT006544
EST:     TTCTTATTATGGATTGAGCAAGATCTTGGACCTTGGGGTCCACTTGCGCT                         GGCTGTTGCTTACATTCCTCTGACAGTCCTGGCAGTTCCAGCTTCAGTACT
genomic: TTCTTATTATGGATTGAGCAAGATCTTGGACCTTGGGGTCCGCTTGCGCTgtaagtgagt ... aattttgcagGGCTGTTGCTTACATTCCTCTGACAGTCCTGGCAGTTCCAGCTTCAGTACT
EST: gi|110712641|gb|EE087866.1|EE087866
EST:     TTCTTATTATGGATTGAGCAAGATCTTGGACCTTGGGGTCCACTTGCGCT                         GGCTGTTGCTTACATTCCTCTGACAGTCCTAGCAGTTCCAGCTTCAGTACT
genomic: TTCTTATTATGGATTGAGCAAGATCTTGGACCTTGGGGTCCGCTTGCGCTgtaagtgagt ... aattttgcagGGCTGTTGCTTACATTCCTCTGACAGTCCTGGCAGTTCCAGCTTCAGTACT
EST: gi|110702350|gb|EE080962.1|EE080962
EST:     TTCTTATTATGGATTGAGCAAGATCTTGGACCTTGGGGTCCACTTGCGCT                         GGCTGTTGCTTACATTCCTCTGACAGTCCTAGCAGTTCCAGCTTCAGTACT
genomic: TTCTTATTATGGATTGAGCAAGATCTTGGACCTTGGGGTCCGCTTGCGCTgtaagtgagt ... aattttgcagGGCTGTTGCTTACATTCCTCTGACAGTCCTGGCAGTTCCAGCTTCAGTACT
EST: gi|71862736|gb|DT011791.1|DT011791
EST:     TTCTTATTATGGATTGAGCAAGATCTTGGACCTTGGGGTCCACTTGCGCT                         GGCTGTTGCTTACATTCCTCTGACAGTCCTAGCAGTTCCAGCTTCAGTACT
genomic: TTCTTATTATGGATTGAGCAAGATCTTGGACCTTGGGGTCCGCTTGCGCTgtaagtgagt ... aattttgcagGGCTGTTGCTTACATTCCTCTGACAGTCCTGGCAGTTCCAGCTTCAGTACT
EST: gi|110708978|gb|EE084046.1|EE084046
EST:     TTCTTATTATGGATTGAGCAAGATCTTGGACCTTGGGGTCCACTTGCGCT                         GGCTGTTGCTTACATTCCTCTGACAGTCCTAGCAGTTCCAGCTTCAGTACT
genomic: TTCTTATTATGGATTGAGCAAGATCTTGGACCTTGGGGTCCGCTTGCGCTgtaagtgagt ... aattttgcagGGCTGTTGCTTACATTCCTCTGACAGTCCTGGCAGTTCCAGCTTCAGTACT
EST: gi|161716468|gb|FC068440.1|FC068440
EST:     TTCTTATTATGGATTGAGCAAGATCTTGGACCTTGGGGTCCACTTGCGCT                         GGCTGTTGCTTACATTCCTCTGACAGTCCTAGCAGTTCCAGCTTCAGTACT
genomic: TTCTTATTATGGATTGAGCAAGATCTTGGACCTTGGGGTCCGCTTGCGCTgtaagtgagt ... aattttgcagGGCTGTTGCTTACATTCCTCTGACAGTCCTGGCAGTTCCAGCTTCAGTACT
EST: gi|110416216|gb|EC982180.1|EC982180
EST:     TTCTTATTATGGATTGAGCAAGATCTTGGACCTTGGGGTCCGCTTGCACT                         GGCTGTTGCTTACATTCCTCTGACAGTCCTGGCAGTTCCAGCTTCAGTACT
genomic: TTCTTATTATGGATTGAGCAAGATCTTGGACCTTGGGGTCCGCTTGCGCTgtaagtgagt ... aattttgcagGGCTGTTGCTTACATTCCTCTGACAGTCCTGGCAGTTCCAGCTTCAGTACT
EST: gi|37185008|gb|CF604361.1|CF604361
EST:     TTCTTATTATGGATTGAGCAAGATCTTGGACCTTGGGGTCCACTTGCGCT                         GGCTGTTGCTTACATTCCTCTGACAGTCCTGGCAGTTCCAGCTTCAGTACT
genomic: TTCTTATTATGGATTGAGCAAGATCTTGGACCTTGGGGTCCGCTTGCGCTgtaagtgagt ... aattttgcagGGCTGTTGCTTACATTCCTCTGACAGTCCTGGCAGTTCCAGCTTCAGTACT
EST: gi|161717253|gb|FC067259.1|FC067259
EST:     TTCTTATTATGGATTGAGCAAGATCTTGGACCTTGGGGTCCACTTGCGCT                         GGCTGTTGCTTACATTCCTCTGACAGTCCTGGCAGTTCCAGCTTCAGTACT
genomic: TTCTTATTATGGATTGAGCAAGATCTTGGACCTTGGGGTCCGCTTGCGCTgtaagtgagt ... aattttgcagGGCTGTTGCTTACATTCCTCTGACAGTCCTGGCAGTTCCAGCTTCAGTACT
EST: gi|294963976|gb|GW836851.1|GW836851
EST:     TTCTTATTATGGATTGAGCAAGATCTTGGACCTTGGGGTCCACTTGCGCT                         GGCTGTTGCTTACATTCCTCTGACAGTCCTAGCAGTTCCAGCTTCAGTACT
genomic: TTCTTATTATGGATTGAGCAAGATCTTGGACCTTGGGGTCCGCTTGCGCTgtaagtgagt ... aattttgcagGGCTGTTGCTTACATTCCTCTGACAGTCCTGGCAGTTCCAGCTTCAGTACT
EST: gi|71862406|gb|DT011461.1|DT011461
EST:     TTCTTATTATGGATTGAGCAAGATCTTGGACCTTGGGGTCCACTTGCGCT                         GGCTGTTGCTTACATTCCTCTGACAGTCCTAGCAGTTCCAGCTTCAGTACT
genomic: TTCTTATTATGGATTGAGCAAGATCTTGGACCTTGGGGTCCGCTTGCGCTgtaagtgagt ... aattttgcagGGCTGTTGCTTACATTCCTCTGACAGTCCTGGCAGTTCCAGCTTCAGTACT
EST: gi|37190020|gb|CF609369.1|CF609369
EST:     TTCTTATTATGGATTGAGCAAGATCTTGGACCTTGGGGTCCACTTGCGCT                         GGCTGTTGCTTACATTCCTCTGACAGTCCTGGCAGTTCCAGCTTCAGTACT
genomic: TTCTTATTATGGATTGAGCAAGATCTTGGACCTTGGGGTCCGCTTGCGCTgtaagtgagt ... aattttgcagGGCTGTTGCTTACATTCCTCTGACAGTCCTGGCAGTTCCAGCTTCAGTACT
EST: gi|161713899|gb|FC062577.1|FC062577
EST:     TTCTTATTATGGATTGAGCAAGATCTTGGACCTTGGGGTCCACTTGCGCT                         GGCTGTTGCTTACATTCCTCTGACAGTCCTAGCAGTTCCAGCTTCAGTACT
genomic: TTCTTATTATGGATTGAGCAAGATCTTGGACCTTGGGGTCCGCTTGCGCTgtaagtgagt ... aattttgcagGGCTGTTGCTTACATTCCTCTGACAGTCCTGGCAGTTCCAGCTTCAGTACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttagcattacctttttattctttattatatacttcttttggaaattttgcagGGCTGTTGCTTACATTCCTCTGACAGTCCTGGCAGTTCCAGCTTCAGTACTTACT
              tttttattctttatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atagattctgggcagcagcttggttatctacacacttgtttaatatttttagcattacctttttattctttattatatacttcttttggaaattttgcagGGCTGTTGCTTACATTCCTCTGACAGTCCTGGCAGTTCCAGCTTCAGTACTTACT

- - attctgg
- - - - - - - - agcttgg
- - - - - - - - - - - - - - tacacac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cttttgg