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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttaaatattactttctaatactggtcaagttatcataacttctgtttaactatcctttctgcttttacactagaatttgtatgataaattgcttcatttctttgtgtgcatgtctgtatgtggctcggatatgattcagGATTTGACTGGGGGGATGCTGGTACCAGTTGAAGGACCTGATTCACCATTGTTTGCTCTTGAG

Basic information

species Vitis vinifera
transcript Vv13s0019g04590.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|351013747|gb|FQ433899.1|FQ433899
EST:     TAGTGGTTTCAACTGATCCAGCACATTCTCTGAGTGATTCTTTTGCCCAG                         GATTTGACTGGGGGGATGCTGGTACCAGTTGAAGGACCTGATTCACCATTG
genomic: TAGTGGTTTCAACTGATCCAGCACATTCTCTGAGTGATTCTTTTGCCCAGgtttaaatat ... tatgattcagGATTTGACTGGGGGGATGCTGGTACCAGTTGAAGGACCTGATTCACCATTG
EST: gi|352790386|gb|FQ478026.1|FQ478026
EST:     TAGTGGTTTCAACTGATCCAGCACATTCTCTGAGTGATTCTTTTGCCCAG                         GATTTGACTGGGGGGATGCTGGTACCAGTTGAAGGACCTGATTCACCATTG
genomic: TAGTGGTTTCAACTGATCCAGCACATTCTCTGAGTGATTCTTTTGCCCAGgtttaaatat ... tatgattcagGATTTGACTGGGGGGATGCTGGTACCAGTTGAAGGACCTGATTCACCATTG
EST: gi|294965156|gb|GW836987.1|GW836987
EST:     TAGTGGTTTCAACTGATCCAGCACATTCTCTGAGTGATTCTTTTGCCCAG                         GATTTGACTGGGGGGATGCTGGTACCAGTTGAAGGACCTGATTCACCATTG
genomic: TAGTGGTTTCAACTGATCCAGCACATTCTCTGAGTGATTCTTTTGCCCAGgtttaaatat ... tatgattcagGATTTGACTGGGGGGATGCTGGTACCAGTTGAAGGACCTGATTCACCATTG
EST: gi|349820813|gb|FQ404198.1|FQ404198
EST:     TAGTGGTTTCAACTGATCCAGCACATTCTCTGAGTGATTCTTTTGCCCGG                         GATTTGACTGGGGGGATGCTGGTACCAGTTGAAGGACCTGATTCACCATTG
genomic: TAGTGGTTTCAACTGATCCAGCACATTCTCTGAGTGATTCTTTTGCCCAGgtttaaatat ... tatgattcagGATTTGACTGGGGGGATGCTGGTACCAGTTGAAGGACCTGATTCACCATTG
EST: gi|349812310|gb|FQ406331.1|FQ406331
EST:     TAGTGGTTTCAACTGATCCAGCACATTCTCTGAGTGATTCTTTTGCCCGG                         GATTTGACTGGGGGGATGCTGGTACCAGTTGAAGGACCTGATTCACCATTG
genomic: TAGTGGTTTCAACTGATCCAGCACATTCTCTGAGTGATTCTTTTGCCCAGgtttaaatat ... tatgattcagGATTTGACTGGGGGGATGCTGGTACCAGTTGAAGGACCTGATTCACCATTG
EST: gi|161720443|gb|FC070210.1|FC070210
EST:     TAGTGGTTTCAACTGATCCAGCACATTCTCTGAGTGATTCTTTTGCCCAG                         GATTTGACTGGGGGGATGCTGGTACCAGTTGAAGGACCTGATTCACCATTG
genomic: TAGTGGTTTCAACTGATCCAGCACATTCTCTGAGTGATTCTTTTGCCCAGgtttaaatat ... tatgattcagGATTTGACTGGGGGGATGCTGGTACCAGTTGAAGGACCTGATTCACCATTG
EST: gi|26257255|gb|CA808318.1|CA808318
EST:     TAGTGGTTTCAACTGATCCAGCACATTCTCTGAGTGATTCTTTTGCCCAG                         GATTTGACTGGGGGGATGCTGCTACCAGTTGAAGGACCTGATTCACCATTG
genomic: TAGTGGTTTCAACTGATCCAGCACATTCTCTGAGTGATTCTTTTGCCCAGgtttaaatat ... tatgattcagGATTTGACTGGGGGGATGCTGGTACCAGTTGAAGGACCTGATTCACCATTG
EST: gi|349817149|gb|FQ405154.1|FQ405154
EST:     TAGTGGTTTCAACTGATCCAGCACATTCTCTGAGTGATTCTTTTGCCCGG                         GATTTGACTGGGGGGATGCTGGTACCAGTTGAAGGACCTGATTCACCATTG
genomic: TAGTGGTTTCAACTGATCCAGCACATTCTCTGAGTGATTCTTTTGCCCAGgtttaaatat ... tatgattcagGATTTGACTGGGGGGATGCTGGTACCAGTTGAAGGACCTGATTCACCATTG
EST: gi|349827879|gb|FQ422747.1|FQ422747
EST:     TAGTGGTTTCAACTGATCCAGCACATTCTCTGAGTGATTCTTTTGCCCAG                         GATTTGACTGGGGGGATGCTGGTACCAGTTGAAGGACCTGATTCACCATTG
genomic: TAGTGGTTTCAACTGATCCAGCACATTCTCTGAGTGATTCTTTTGCCCAGgtttaaatat ... tatgattcagGATTTGACTGGGGGGATGCTGGTACCAGTTGAAGGACCTGATTCACCATTG
EST: gi|351025874|gb|FQ427886.1|FQ427886
EST:     TAGTGGTTTCAACTGATCCAGCACATTCTCTGAGTGATTCTTTTGCCCAG                         GATTTGACTGGGGGGATGCTGGTACCAGTTGAAGGACCTGATTCACCATTG
genomic: TAGTGGTTTCAACTGATCCAGCACATTCTCTGAGTGATTCTTTTGCCCAGgtttaaatat ... tatgattcagGATTTGACTGGGGGGATGCTGGTACCAGTTGAAGGACCTGATTCACCATTG
EST: gi|351029701|gb|FQ427541.1|FQ427541
EST:     TAGTGGTTTCAACTGATCCAGCACATTCTCTGAGTGATTCTTTTGCCCAG                         GATTTGACTGGGGGGATGCTGGTACCAGTTGAAGGACCTGATTCACCATTG
genomic: TAGTGGTTTCAACTGATCCAGCACATTCTCTGAGTGATTCTTTTGCCCAGgtttaaatat ... tatgattcagGATTTGACTGGGGGGATGCTGGTACCAGTTGAAGGACCTGATTCACCATTG
EST: gi|71861294|gb|DT010349.1|DT010349
EST:     TAGTGGTTTCAACTGATCCAGCACATTCTCTGAGTGATTCTTTTGCCCAG                         GATTTGACTGGGGGGATGCTGGTACCAGTTGAAGGACCTGATTCACCATTG
genomic: TAGTGGTTTCAACTGATCCAGCACATTCTCTGAGTGATTCTTTTGCCCAGgtttaaatat ... tatgattcagGATTTGACTGGGGGGATGCTGGTACCAGTTGAAGGACCTGATTCACCATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaattgcttcatttctttgtgtgcatgtctgtatgtggctcggatatgattcagGATTTGACTGGGGGGATGCTGGTACCAGTTGAAGGACCTGATTCACCATTGTTTGCTCTTGAG
           atttcttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttaaatattactttctaatactggtcaagttatcataacttctgtttaactatcctttctgcttttacactagaatttgtatgataaattgcttcatttctttgtgtgcatgtctgtatgtggctcggatatgattcagGATTTGACTGGGGGGATGCTGGTACCAGTTGAAGGACCTGATTCACCATTGTTTGCTCTTGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG