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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacgttcaattggattttgccttttttcttcttctttcttgaacttagggtgtttttttttttttttttggttttctgaatcttttcgatgagttttgattgtttttcttatatttgttgttttggtattggtttttttttctttggaattgaagGCTTCGGTTTCACCGGTACTGGAGAATATTCTGGATCGGCCACGGAAGTATCGGCGATCGGAGAAGATCATTCCGATCCTCGGCGTTCCCTGCGACGCCG

Basic information

species Vitis vinifera
transcript Vv17s0000g09790.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|161717443|gb|FC067556.1|FC067556
EST:     ATATCGTCACGTCTGGCGGACTTCGCATTCCGGCTAACGCTTCCGTCTTG                         GCTTCGGTTTCACCGGTACTGGAGAATATTCTGGATCGGCCACGGAAATAT
genomic: ATATCGTCACGTCTGGCGGACTTCGCATTCCGGCTAACGCTTCCGTCTTGgtaacgttca ... ggaattgaagGCTTCGGTTTCACCGGTACTGGAGAATATTCTGGATCGGCCACGGAAGTAT
EST: gi|34548181|gb|CF516413.1|CF516413
EST:     CGCATTCCGGCTAACGCTTCCGTCTTG                         GCTTCGGTTTCACCGGTACTGGAGAATATTCTGGATCGGCCACGGAAATAT
genomic: CGCATTCCGGCTAACGCTTCCGTCTTGgtaacgttca ... ggaattgaagGCTTCGGTTTCACCGGTACTGGAGAATATTCTGGATCGGCCACGGAAGTAT
EST: gi|161715129|gb|FC063975.1|FC063975
EST:     ATATCGTCACGTCTGGCGGACTTCGCATTCCGGCTAACGCTTCCGTCTTG                         GCTTCGGTTTCACCGGTACTGGAGAATATTCTGTATCGGCCACGGAAGTAT
genomic: ATATCGTCACGTCTGGCGGACTTCGCATTCCGGCTAACGCTTCCGTCTTGgtaacgttca ... ggaattgaagGCTTCGGTTTCACCGGTACTGGAGAATATTCTGGATCGGCCACGGAAGTAT
EST: gi|34550534|gb|CF518752.1|CF518752
EST:     ATATCGTCACGTCTGGCGGACTTCGCATTCCGGCTAACGCTTCCGTCTTG                         GCTTCGGTTTCACCGGTACTGGAGAATATTCTGGATCGGCCACGGAAGTAT
genomic: ATATCGTCACGTCTGGCGGACTTCGCATTCCGGCTAACGCTTCCGTCTTGgtaacgttca ... ggaattgaagGCTTCGGTTTCACCGGTACTGGAGAATATTCTGGATCGGCCACGGAAGTAT
EST: gi|71863328|gb|DT012383.1|DT012383
EST:     ATATCGTCACGTCTGGCGGACTTCGCATTCCGGCTAACGCTTCCGTCTTG                         GCTTCGGTTTCACCGGTACTGGAGAATATTCTGGATCGGCCACGGAAGTAT
genomic: ATATCGTCACGTCTGGCGGACTTCGCATTCCGGCTAACGCTTCCGTCTTGgtaacgttca ... ggaattgaagGCTTCGGTTTCACCGGTACTGGAGAATATTCTGGATCGGCCACGGAAGTAT
EST: gi|77581731|gb|DV219814.1|DV219814
EST:     ATATCGTCACGTCTGGCGGACTTCGCATTCCGGCTAACGCTTCCGTCTTG                         GCTTCGGTTTCACCGGTACTGGAGAATATTCTGGATCGGCCACGGAAATAT
genomic: ATATCGTCACGTCTGGCGGACTTCGCATTCCGGCTAACGCTTCCGTCTTGgtaacgttca ... ggaattgaagGCTTCGGTTTCACCGGTACTGGAGAATATTCTGGATCGGCCACGGAAGTAT
EST: gi|30137579|gb|CB922917.1|CB922917
EST:     ATATCGTCACGTCTGGCGGACTTCGCATTCCGGCTAACGCTTCCGTCTTG                         GCTTCGGTTTCACCGGTACTGGAGAATATTCTGGATCGGCCACGGAAATAT
genomic: ATATCGTCACGTCTGGCGGACTTCGCATTCCGGCTAACGCTTCCGTCTTGgtaacgttca ... ggaattgaagGCTTCGGTTTCACCGGTACTGGAGAATATTCTGGATCGGCCACGGAAGTAT
EST: gi|161718052|gb|FC067587.1|FC067587
EST:     ATATCGTCACGTCTGGCGGACTTCGCATTCCGGCTAACGCTTCCGTCTTG                         GCTTCGGTTTCACCGGTACTGGAGAATATTCTGGATCGGCCACGGAAGTAT
genomic: ATATCGTCACGTCTGGCGGACTTCGCATTCCGGCTAACGCTTCCGTCTTGgtaacgttca ... ggaattgaagGCTTCGGTTTCACCGGTACTGGAGAATATTCTGGATCGGCCACGGAAGTAT
EST: gi|161714279|gb|FC064170.1|FC064170
EST:     ATATCGTCACGTCTGGCGGACTTCGCATTCCGGCTAACGCTTCCGTCTTG                         GCTTCGGTTTCACCGGTACTGGAGAATATTCTGGATCGGCCACGGAAGTAT
genomic: ATATCGTCACGTCTGGCGGACTTCGCATTCCGGCTAACGCTTCCGTCTTGgtaacgttca ... ggaattgaagGCTTCGGTTTCACCGGTACTGGAGAATATTCTGGATCGGCCACGGAAGTAT
EST: gi|110700643|gb|EE077475.1|EE077475
EST:     ATATCGTCACGTCTGGCGGACTTCGCATTCCGGCTAACGCTTCCGTCTTG                         GCTTCGGTTTCACCGGTACTGGAGAATATTCTGGATCGGCCACGGAAATAT
genomic: ATATCGTCACGTCTGGCGGACTTCGCATTCCGGCTAACGCTTCCGTCTTGgtaacgttca ... ggaattgaagGCTTCGGTTTCACCGGTACTGGAGAATATTCTGGATCGGCCACGGAAGTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtttttcttatatttgttgttttggtattggtttttttttctttggaattgaagGCTTCGGTTTCACCGGTACTGGAGAATATTCTGGATCGGCCACGGAAGTATCGGCGATCGGAGAAGATCATTCCGATCCTCGGCGTTCCCTGCGACGCCG
                                tttttttttctttg  CT-rich tract
        ttatatttgttgtttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaacgttcaattggattttgccttttttcttcttctttcttgaacttagggtgtttttttttttttttttggttttctgaatcttttcgatgagttttgattgtttttcttatatttgttgttttggtattggtttttttttctttggaattgaagGCTTCGGTTTCACCGGTACTGGAGAATATTCTGGATCGGCCACGGAAGTATCGGCGATCGGAGAAGATCATTCCGATCCTCGGCGTTCCCTGCGACGCCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA