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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggtttaggatgtttcctgccatgtttatcaatttcttgagttgggaataagatgtttccttcaaatgtaattcttattggtttttgacacattgtgcagAGGGAAGTATGCCAGCTGCGCCCTTTTTCTGCCAGTGACCATAAAGGC

Basic information

species Vitis vinifera
transcript Vv18s0001g09200.t01
intron # 6
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|110429379|gb|EC995870.1|EC995870
EST:     CTGATTTCCGGCATGTGAAATCAACATTTACTGGCACCCCACCACATAAA                         AGGGAAGTATGCCAGCTGCGCCCTTTTTCTGCCAGTGACCATAAAGGC
genomic: CTGATTTCCGGCATGTGAAATCAACATTTACTGGCACCCCACCACATAAAgtgagttatt ... cattgtgcagAGGGAAGTATGCCAGCTGCGCCCTTTTTCTGCCAGTGACCATAAAGGC
EST: gi|32268399|gb|CD717558.1|CD717558
EST:     CTGATTTCCGGCATGTGAAATCAACATTTACTGGCACCCCACCACATAAA                         AGGGAAGTATGCCAGCTGCGCCCTTTTTCTGCCAGTGACCATAAAGGC
genomic: CTGATTTCCGGCATGTGAAATCAACATTTACTGGCACCCCACCACATAAAgtgagttatt ... cattgtgcagAGGGAAGTATGCCAGCTGCGCCCTTTTTCTGCCAGTGACCATAAAGGC
EST: gi|32267865|gb|CD717024.1|CD717024
EST:     CTGATTTCCGGCATGTGAAATCAACATTTACTGGCACCCCACCACATAAA                         AGGGAAGTATGCCAGCTGCGCCCTTTTTCTGCCAGTGACCATAAAGGC
genomic: CTGATTTCCGGCATGTGAAATCAACATTTACTGGCACCCCACCACATAAAgtgagttatt ... cattgtgcagAGGGAAGTATGCCAGCTGCGCCCTTTTTCTGCCAGTGACCATAAAGGC
EST: gi|156737114|gb|EV241235.1|EV241235
EST:     CTGATTTCCGGCATGTGAAATCAACATTTACTGGCACCCCACCACATAAA                         AGGGAAGTATGCCAGCTGCGCCCTTTTTCTGCCAGTGACCATAAAGGC
genomic: CTGATTTCCGGCATGTGAAATCAACATTTACTGGCACCCCACCACATAAAgtgagttatt ... cattgtgcagAGGGAAGTATGCCAGCTGCGCCCTTTTTCTGCCAGTGACCATAAAGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaataagatgtttccttcaaatgtaattcttattggtttttgacacattgtgcagAGGGAAGTATGCCAGCTGCGCCCTTTTTCTGCCAGTGACCATAAAGGC
                                     ttttgac  putative branch site (score: 3)
                  aaatgtaattcttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tggtttaggatgtttcctgccatgtttatcaatttcttgagttgggaataagatgtttccttcaaatgtaattcttattggtttttgacacattgtgcagAGGGAAGTATGCCAGCTGCGCCCTTTTTCTGCCAGTGACCATAAAGGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - tcctgcc
- - - - - - - - - - - - - - - - - - - - - - ggaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaatgtaa