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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGAAAAGAGAAAAAGCACTAGTTCTTGGTGACTCCACATCCATCATCAATGGCTGGGGgtaagttctatgtttcaatttttaatttagcttacgctaatcgattagttttatcatttgctgctcttcattggaaatattttgaggtttgtttgattga...

Basic information

species Vitis vinifera
transcript Vv06s0004g06730.t01
intron # 1
splice site 5'
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|71867707|gb|DT016762.1|DT016762
EST:     AAAAGCACTAGTTCTTGGTGATTCCACATCCATCATCAATGGCTGGGG                         ACAAAGAGAACTCTTTCAGTGGGGAGAGGGCAGG
genomic: AAAAGCACTAGTTCTTGGTGACTCCACATCCATCATCAATGGCTGGGGgtaagttcta ... ggtcttgcagACAAAGAGAACTCTTTCAGTGGGGAGAGGGCAGG
EST: gi|352768954|gb|FQ468145.1|FQ468145
EST:     GAAAAAGCACTAGTTCTTGGTGACTCCACATCCATCATCAATGGCTGGGG                         ACAAAGAGAACTCTTTCAGTGGGGAGAGGGCAGGAAGTAAAGCTACTGATG
genomic: GAAAAAGCACTAGTTCTTGGTGACTCCACATCCATCATCAATGGCTGGGGgtaagttcta ... ggtcttgcagACAAAGAGAACTCTTTCAGTGGGGAGAGGGCAGGAAGTAAAGCTACTGATG
EST: gi|352777477|gb|FQ474105.1|FQ474105
EST:     GAAAAAGCACTAGTTCTTGGTGACTCCACATCCATCATCAATGGCTGGGG                         ACAAAGAGAACTCTTTCAGTGGGGAGAGGGCAGGAAGTAAAGCTACTGATG
genomic: GAAAAAGCACTAGTTCTTGGTGACTCCACATCCATCATCAATGGCTGGGGgtaagttcta ... ggtcttgcagACAAAGAGAACTCTTTCAGTGGGGAGAGGGCAGGAAGTAAAGCTACTGATG
EST: gi|161712917|gb|FC062390.1|FC062390
EST:     GAAAAAGCACTAGTTCTTGGTGACTCCACATCCATCATCAATGGCTGGGG                         ACAAAGAGAACTCTTTCAGTGGGGAGAGGGCAGGAAGTAAAGCTGCTGATG
genomic: GAAAAAGCACTAGTTCTTGGTGACTCCACATCCATCATCAATGGCTGGGGgtaagttcta ... ggtcttgcagACAAAGAGAACTCTTTCAGTGGGGAGAGGGCAGGAAGTAAAGCTACTGATG
EST: gi|294966337|gb|GW837588.1|GW837588
EST:     GCACTAGTTCTTGGTGACTCCACATCCATCATCAATGGCTGGGG                         ACAAAGAGAACTCTTTCAGTGGGGAGAGGGCAGGAAGTAAAGCTACTGATG
genomic: GCACTAGTTCTTGGTGACTCCACATCCATCATCAATGGCTGGGGgtaagttcta ... ggtcttgcagACAAAGAGAACTCTTTCAGTGGGGAGAGGGCAGGAAGTAAAGCTACTGATG
EST: gi|352773722|gb|FQ472504.1|FQ472504
EST:     GAAAAAGCACTAGTTCTTGGTGACTCCACATCCATCATCAATGGCTGGGG                         ACAAAGAGAACTCTTTCAGTGGGGAGAGGGCAGGAAGTAAAGCTACTGATG
genomic: GAAAAAGCACTAGTTCTTGGTGACTCCACATCCATCATCAATGGCTGGGGgtaagttcta ... ggtcttgcagACAAAGAGAACTCTTTCAGTGGGGAGAGGGCAGGAAGTAAAGCTACTGATG
EST: gi|351019690|gb|FQ439507.1|FQ439507
EST:     GAAAAAGCACTAGTTCTTGGTGACTCCACATCCATCATCAATGGCTGGGG                         ACAAAGAGAACTCTTTCAGTGGGGAGAGGGCAGGAAGTAAAGCTACTGATG
genomic: GAAAAAGCACTAGTTCTTGGTGACTCCACATCCATCATCAATGGCTGGGGgtaagttcta ... ggtcttgcagACAAAGAGAACTCTTTCAGTGGGGAGAGGGCAGGAAGTAAAGCTACTGATG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAGAAAAGAGAAAAAGCACTAGTTCTTGGTGACTCCACATCCATCATCAATGGCTGGGGgtaagttctatgtttcaatttttaatttagcttacgctaatcgattagttttatcatttgctgctcttcattggaaatattttgaggtttgtttgattga

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggaaata