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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgtctcgcttcttccctatcacaattaagaatctcgagattttcatattttcttgaggttgtattcactgaccaaatgtttcatgcagGTTGAAATCATGGAAAAGCAGAAAAATCAG

Basic information

species Arabidopsis thaliana
transcript AT4G34000.1
intron # 4
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|116484743|gb|EG527335.1|EG527335
EST:     CAGAAATTGCGCAACTCAAAGAATTGAATGAAGAGTTGCAGAAGAAACAA                         GTTGAAATCATGGAAAAGCAGAAAAATCAG
genomic: CAGAAATTGCGCAACTCAAAGAATTGAATGAAGAGTTGCAGAAGAAACAAgtgtgtctcg ... tttcatgcagGTTGAAATCATGGAAAAGCAGAAAAATCAG
EST: gi|116421675|gb|EG464267.1|EG464267
EST:     CAGAAATTGCGCAACTCAAAGAATTGAATGAAGAGTTGCAGAAGAAACAA                         GTTGAAATCATGGAAAAGCAGAAAAATCAG
genomic: CAGAAATTGCGCAACTCAAAGAATTGAATGAAGAGTTGCAGAAGAAACAAgtgtgtctcg ... tttcatgcagGTTGAAATCATGGAAAAGCAGAAAAATCAG
EST: gi|116484744|gb|EG527336.1|EG527336
EST:     CAGAAATTGCGCAACTCAAAGAATTGAATGAAGAGTTGCAGAAGAAACAA                         GTTGAAATCATGGAAAAGCAGAAAAATCAG
genomic: CAGAAATTGCGCAACTCAAAGAATTGAATGAAGAGTTGCAGAAGAAACAAgtgtgtctcg ... tttcatgcagGTTGAAATCATGGAAAAGCAGAAAAATCAG
EST: gi|116458117|gb|EG500709.1|EG500709
EST:     CAGAAATTGCGCAACTCAAAGAATTGAATGAAGAGTTGCAGAAGAAACAA                         GTTGAAATCATGGAAAAGCAGAAAAATCAG
genomic: CAGAAATTGCGCAACTCAAAGAATTGAATGAAGAGTTGCAGAAGAAACAAgtgtgtctcg ... tttcatgcagGTTGAAATCATGGAAAAGCAGAAAAATCAG
EST: gi|124984434|gb|EL057091.1|EL057091
EST:     CAGAAATTGCGCAACTCAAAGAATTGAATGAAGAGTTGCAGAAGAAACAA                         GTTGAAATCATGGAAAAGCAGAAAAATCAG
genomic: CAGAAATTGCGCAACTCAAAGAATTGAATGAAGAGTTGCAGAAGAAACAAgtgtgtctcg ... tttcatgcagGTTGAAATCATGGAAAAGCAGAAAAATCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcgagattttcatattttcttgaggttgtattcactgaccaaatgtttcatgcagGTTGAAATCATGGAAAAGCAGAAAAATCAG
                                cactgac  putative branch site (score: 2)
     attttcatattttctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgtgtctcgcttcttccctatcacaattaagaatctcgagattttcatattttcttgaggttgtattcactgaccaaatgtttcatgcagGTTGAAATCATGGAAAAGCAGAAAAATCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA