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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttggttctcaggaaatcgggagaaaaggaaagaaaaattttaggaatcctaataggtttttccagctcacattttgcttatctcgtacaccttctcagGATGCTCTGTTTGCGATACTCTCCGGCTACCATTACTAGAAGATTGGACGCGGTTGAAATTCCCAAAAACCCGAGAAGCATCGTG

Basic information

species Vitis vinifera
transcript Vv16s0050g01450.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|351046546|gb|FQ453162.1|FQ453162
EST:     ACAATTCCTTTCCCTGTGAGCATCGTCCACGACCCTCAGAAACCAGGCGG                         GATGCTCTGTTTGCGATACTCGCCGGCTACCATTACTAGAAGATTGGACTC
genomic: ACAATTCCTTTCCCTGTGAGCATCGTCCACGACCCTCAGAAACCAGGCGGgtaagtttgg ... accttctcagGATGCTCTGTTTGCGATACTCTCCGGCTACCATTACTAGAAGATTGGACGC
EST: gi|351054436|gb|FQ450519.1|FQ450519
EST:     ACAATTCCTTTCCCTGTGAGCATCGTCCACGACCCTCAGAAACCAGGCGG                         GATGCTCTGTTTGCGATACTCTCCGGCTACCATTACTAGAAGATTGGACGC
genomic: ACAATTCCTTTCCCTGTGAGCATCGTCCACGACCCTCAGAAACCAGGCGGgtaagtttgg ... accttctcagGATGCTCTGTTTGCGATACTCTCCGGCTACCATTACTAGAAGATTGGACGC
EST: gi|351033744|gb|FQ462274.1|FQ462274
EST:     ACAATTCCTTTCCCTGTGAGCATCGTCCACGACCCTCAGAAACCAGGCGG                         GATGCTCTGTTTGCGATACTCGCCGGCTACCATTACTAGAAGATTGGACTC
genomic: ACAATTCCTTTCCCTGTGAGCATCGTCCACGACCCTCAGAAACCAGGCGGgtaagtttgg ... accttctcagGATGCTCTGTTTGCGATACTCTCCGGCTACCATTACTAGAAGATTGGACGC
EST: gi|349822100|gb|FQ408429.1|FQ408429
EST:     ACAACTCCTTTCCCTGTGAGCATCGTCCACGACCCTCAGAAACCAGGCGG                         GATGCTCTGTTTGCGATACTCTCCGGCTACCATTACTAGAAGATTGGACGC
genomic: ACAATTCCTTTCCCTGTGAGCATCGTCCACGACCCTCAGAAACCAGGCGGgtaagtttgg ... accttctcagGATGCTCTGTTTGCGATACTCTCCGGCTACCATTACTAGAAGATTGGACGC
EST: gi|349814396|gb|FQ398836.1|FQ398836
EST:     ACAATTCCTTTCCCTGTGAGCATCGTCCACGACCCTCAGAAACCAGGCGG                         GATGCTCTGTTTGCGATACTCTCCGGCTACCATTACTAGAAGATTGGACGC
genomic: ACAATTCCTTTCCCTGTGAGCATCGTCCACGACCCTCAGAAACCAGGCGGgtaagtttgg ... accttctcagGATGCTCTGTTTGCGATACTCTCCGGCTACCATTACTAGAAGATTGGACGC
EST: gi|349815708|gb|FQ400864.1|FQ400864
EST:     ACAATTCCTTTCCCTGTGAGCATCGTCCACGACCCTCAGAAACCAGGCGG                         GATGCTCTGTTTGCGATACTCGCCGGCTACCATTACTAGAAGATTGGACTC
genomic: ACAATTCCTTTCCCTGTGAGCATCGTCCACGACCCTCAGAAACCAGGCGGgtaagtttgg ... accttctcagGATGCTCTGTTTGCGATACTCTCCGGCTACCATTACTAGAAGATTGGACGC
EST: gi|351055367|gb|FQ441965.1|FQ441965
EST:     ACAATTCCTTTCCCTGTGAGCATCGTCCACGACCCTCAGAAACCAGGCGG                         GATGCTCTGTTTGCGATACTCGCCGGCTACCATTACTAGAAGATTGGACTC
genomic: ACAATTCCTTTCCCTGTGAGCATCGTCCACGACCCTCAGAAACCAGGCGGgtaagtttgg ... accttctcagGATGCTCTGTTTGCGATACTCTCCGGCTACCATTACTAGAAGATTGGACGC
EST: gi|349827078|gb|FQ421351.1|FQ421351
EST:     ACAATTCCTTTCCCTGTGAGCATCGTCCACGACCCTCAGAAACCAGGCGG                         GATGCTCTGTTTGCGATACTCTCCGGCTACCATTACTAGAAGATTGGACGC
genomic: ACAATTCCTTTCCCTGTGAGCATCGTCCACGACCCTCAGAAACCAGGCGGgtaagtttgg ... accttctcagGATGCTCTGTTTGCGATACTCTCCGGCTACCATTACTAGAAGATTGGACGC
EST: gi|294965603|gb|GW837202.1|GW837202
EST:     ACAATTCCTTTCCCTGTGAGCATCGTCCACGACCCTCAGAAACCAGGCGG                         GATGCTCTGTTTGCGATACTCGCCGGCTACCATTACTAGAAGATTGGACTC
genomic: ACAATTCCTTTCCCTGTGAGCATCGTCCACGACCCTCAGAAACCAGGCGGgtaagtttgg ... accttctcagGATGCTCTGTTTGCGATACTCTCCGGCTACCATTACTAGAAGATTGGACGC
EST: gi|351052433|gb|FQ452466.1|FQ452466
EST:     ACAATTCCTTTCCCTGTGAGCATCGTCCACGACCCTCAGAAACCAGGCGG                         GATGCTCTGTTTGCGATACTCGCCGGCTACCATTACTAGAAGATTGGACTC
genomic: ACAATTCCTTTCCCTGTGAGCATCGTCCACGACCCTCAGAAACCAGGCGGgtaagtttgg ... accttctcagGATGCTCTGTTTGCGATACTCTCCGGCTACCATTACTAGAAGATTGGACGC
EST: gi|352781628|gb|FQ468926.1|FQ468926
EST:     ACAATTCCTTTCCCTGTGAGCATCGTCCACGACCCTCAGAAACCAGGCGG                         GATGCTCTGTTTGCGATACTCTCCGGCTACCATTACTAGAAGATTGGACGC
genomic: ACAATTCCTTTCCCTGTGAGCATCGTCCACGACCCTCAGAAACCAGGCGGgtaagtttgg ... accttctcagGATGCTCTGTTTGCGATACTCTCCGGCTACCATTACTAGAAGATTGGACGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaatcctaataggtttttccagctcacattttgcttatctcgtacaccttctcagGATGCTCTGTTTGCGATACTCTCCGGCTACCATTACTAGAAGATTGGACGCGGTTGAAATTCCCAAAAACCCGAGAAGCATCGTG
                                            caccttctc  CT-rich tract
                         acatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtttggttctcaggaaatcgggagaaaaggaaagaaaaattttaggaatcctaataggtttttccagctcacattttgcttatctcgtacaccttctcagGATGCTCTGTTTGCGATACTCTCCGGCTACCATTACTAGAAGATTGGACGCGGTTGAAATTCCCAAAAACCCGAGAAGCATCGTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC