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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgctttctgtgctagatccatatgttctgtcaatttttgtcttgtttctatcctatttaatgctctaaatctcataggccatgttcttttatttgcaagGTGCGAAGAATTGAATTTCAGATGAATGAATGGAAGTATTTTGTTCATTACCTT

Basic information

species Vitis vinifera
transcript Vv18s0001g09710.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|71877699|gb|DT026754.1|DT026754
EST:     AAGGAGAGAAGGTCCTCGCTTATCATAACCTTCGTATTTATCCAGCCAAG                         GTGCGAAGAATTGAATTTCAGATGAATGAATGGAAGTATTTTGTTCATTAC
genomic: AAGGAGAGAAGGTCCTCGCTTATCATAACCTTCGTATTTATCCAGCCAAGgttctctttc ... tatttgcaagGTGCGAAGAATTGAATTTCAGATGAATGAATGGAAGTATTTTGTTCATTAC
EST: gi|71880779|gb|DT029834.1|DT029834
EST:     AAGGAGAGAAGGTCCTCGCTTATCATAACCTTCGTATTTATCCAGCCAAG                         GTGCGAAGAATTGAATTTCAGATGAATGAATGGAAGTATTTTGTTCATTAC
genomic: AAGGAGAGAAGGTCCTCGCTTATCATAACCTTCGTATTTATCCAGCCAAGgttctctttc ... tatttgcaagGTGCGAAGAATTGAATTTCAGATGAATGAATGGAAGTATTTTGTTCATTAC
EST: gi|71859464|gb|DT008519.1|DT008519
EST:     AAGGAGAGAAGGTCCTCGCTTATCATAACCTTCGTATTTATCCAGCCAAG                         GTGCGAAGAATTGAATTTCAGATGAATGAATGGAAGTATTTTGTTCATTAC
genomic: AAGGAGAGAAGGTCCTCGCTTATCATAACCTTCGTATTTATCCAGCCAAGgttctctttc ... tatttgcaagGTGCGAAGAATTGAATTTCAGATGAATGAATGGAAGTATTTTGTTCATTAC
EST: gi|27584092|gb|CB006787.1|CB006787
EST:     AAGGAGAGAAGGTCCTCGCTTATCATAACCTTCGTATTTATCCAGCCAAG                         GTGCGAAGAATTGAATTTCAGATGAATGAATGGAAGTATTTTGTTCATTAC
genomic: AAGGAGAGAAGGTCCTCGCTTATCATAACCTTCGTATTTATCCAGCCAAGgttctctttc ... tatttgcaagGTGCGAAGAATTGAATTTCAGATGAATGAATGGAAGTATTTTGTTCATTAC
EST: gi|30303537|gb|CB980331.1|CB980331
EST:     AAGGAGAGAAGGTCCTCGCTTATCATAACCTTCGTATTTATCCAGCCAAG                         GTGCGAAGAATTGAATTTCAGATGAATGAATGGAAGTATTTTGTTCATTAC
genomic: AAGGAGAGAAGGTCCTCGCTTATCATAACCTTCGTATTTATCCAGCCAAGgttctctttc ... tatttgcaagGTGCGAAGAATTGAATTTCAGATGAATGAATGGAAGTATTTTGTTCATTAC
EST: gi|71880624|gb|DT029679.1|DT029679
EST:     AAGGAGAGAAGGTCCTCGCTTATCATAACCTTCGTATTTATCCAGCCAAG                         GTGCGAAGAATTGAATTTCAGATGAATGAATGGAAGTATTTTGTTCATTAC
genomic: AAGGAGAGAAGGTCCTCGCTTATCATAACCTTCGTATTTATCCAGCCAAGgttctctttc ... tatttgcaagGTGCGAAGAATTGAATTTCAGATGAATGAATGGAAGTATTTTGTTCATTAC
EST: gi|71877948|gb|DT027003.1|DT027003
EST:     AAGGAGAGAAGGTCCTCGCTTATCATAACCTTCGTATTTATCCAGCCAAG                         GTGCGAAGAATTGAATTTCAGATGAATGAATGGAAGTATTTTGTTCATTAC
genomic: AAGGAGAGAAGGTCCTCGCTTATCATAACCTTCGTATTTATCCAGCCAAGgttctctttc ... tatttgcaagGTGCGAAGAATTGAATTTCAGATGAATGAATGGAAGTATTTTGTTCATTAC
EST: gi|71879457|gb|DT028512.1|DT028512
EST:     AAGGAGAGAAGGTCCTCGCTTATCATAACCTTCGTATTTATCCAGCCAAG                         GTGCGAAGAATTGAATTTCAGATGAATGAATGGAAGTATTTTGTTCATTAC
genomic: AAGGAGAGAAGGTCCTCGCTTATCATAACCTTCGTATTTATCCAGCCAAGgttctctttc ... tatttgcaagGTGCGAAGAATTGAATTTCAGATGAATGAATGGAAGTATTTTGTTCATTAC
EST: gi|71878762|gb|DT027817.1|DT027817
EST:     AAGGAGAGAAGGTCCTCGCTTATCATAACCTTCGTATTTATCCAGCCAAG                         GTGCGAAGAATTGAATTTCAGATGAATGAATGGAAGTATTTTGTTCATTAC
genomic: AAGGAGAGAAGGTCCTCGCTTATCATAACCTTCGTATTTATCCAGCCAAGgttctctttc ... tatttgcaagGTGCGAAGAATTGAATTTCAGATGAATGAATGGAAGTATTTTGTTCATTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttctatcctatttaatgctctaaatctcataggccatgttcttttatttgcaagGTGCGAAGAATTGAATTTCAGATGAATGAATGGAAGTATTTTGTTCATTACCTT
                  ctctaaa  putative branch site (score: 3)
                                       ttcttttattt  putative PPT
                                    atgttcttttattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atgctttctgtgctagatccatatgttctgtcaatttttgtcttgtttctatcctatttaatgctctaaatctcataggccatgttcttttatttgcaagGTGCGAAGAATTGAATTTCAGATGAATGAATGGAAGTATTTTGTTCATTACCTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
-tgctttc
- - - - -gtgctag
- - - - - - - - - ccatatg
- - - - - - - - - - - - - -ctgtcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aatgctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatgtt