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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggccttgcattctctctgttgcctgcctgtgccatatttgtgcattatgcatattttatggcttcaattcaccctccataattaccatgcaagcttgcagGTAATTTGGGAGCAGGTGAAGTCCAATTTCTTTATGCCAAGGTCTGGATCGTGAAGCAGTCATGGCAGAGGGCACAGAAGTTGAGGATAGGGTGGATCTT

Basic information

species Vitis vinifera
transcript Vv15s0048g02700.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|349833092|gb|FQ416470.1|FQ416470
EST:     ACAGCCCACAAAATAAATCCACTG                         GTAATTTGGGAGCAGGTGAAATCCAATTTCTTTATGCCAAGGTCTGGATCG
genomic: ACAGCCCACAAAATAAATCCACTGgtatgcacca ... aagcttgcagGTAATTTGGGAGCAGGTGAAGTCCAATTTCTTTATGCCAAGGTCTGGATCG
EST: gi|349833094|gb|FQ416472.1|FQ416472
EST:     ACAGCCCACAAAATAAATCCACTG                         GTAATTTGGGAGCAGGTGAAATCCAATTTCTTTATGCCAAGGTCTGGATCG
genomic: ACAGCCCACAAAATAAATCCACTGgtatgcacca ... aagcttgcagGTAATTTGGGAGCAGGTGAAGTCCAATTTCTTTATGCCAAGGTCTGGATCG
EST: gi|351020125|gb|FQ445732.1|FQ445732
EST:     ACAGCCCACAAAATAAATCCACTG                         GTAATTTGGGAGCAGGTGAAATCCAATTTCTTTATGCCAAGGTCTGGATCG
genomic: ACAGCCCACAAAATAAATCCACTGgtatgcacca ... aagcttgcagGTAATTTGGGAGCAGGTGAAGTCCAATTTCTTTATGCCAAGGTCTGGATCG
EST: gi|351015298|gb|FQ445582.1|FQ445582
EST:     ACAGCCCACAAAATAAATCCACTG                         GTAATTTGGGAGCAGGTGAAATCCAATTTCTTTATGCCAAGGTCTGGATCG
genomic: ACAGCCCACAAAATAAATCCACTGgtatgcacca ... aagcttgcagGTAATTTGGGAGCAGGTGAAGTCCAATTTCTTTATGCCAAGGTCTGGATCG
EST: gi|351019214|gb|FQ429374.1|FQ429374
EST:     ACAGCCCACAAAATAAATCCACTG                         GTAATTTGGGAGCAGGTGAAATCCAATTTCTTTATGCCAAGGTCTGGATCG
genomic: ACAGCCCACAAAATAAATCCACTGgtatgcacca ... aagcttgcagGTAATTTGGGAGCAGGTGAAGTCCAATTTCTTTATGCCAAGGTCTGGATCG
EST: gi|161713778|gb|FC063778.1|FC063778
EST:     AAAGAAAATCCAAAAGGAAAATCACAGCCCACAAAATAAATCCTCTG                         GTAATTTGGGAGCAGGTGAAGTCCAATTTCTTTATGCCAAGGTCTGGATCG
genomic: AAAGAAAATCCAAAAGGAAAATCACAGCCCACAAAATAAATCCACTGgtatgcacca ... aagcttgcagGTAATTTGGGAGCAGGTGAAGTCCAATTTCTTTATGCCAAGGTCTGGATCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgcatattttatggcttcaattcaccctccataattaccatgcaagcttgcagGTAATTTGGGAGCAGGTGAAGTCCAATTTCTTTATGCCAAGGTCTGGATCGTGAAGCAGTCATGGCAGAGGGCACAGAAGTTGAGGATAGGGTGGATCTT
     atattttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggccttgcattctctctgttgcctgcctgtgccatatttgtgcattatgcatattttatggcttcaattcaccctccataattaccatgcaagcttgcagGTAATTTGGGAGCAGGTGAAGTCCAATTTCTTTATGCCAAGGTCTGGATCGTGAAGCAGTCATGGCAGAGGGCACAGAAGTTGAGGATAGGGTGGATCTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- ccttgca
- - - - - tctctct
- - - - - - - - - - gcctgcc
- - - - - - - - - - - - - - -tgccata
- - - - - - - - - - - - - - - - - - - -gtgcatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tatggct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -accatgc