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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtttgactttgtctgaatcaaaattcttcaattttattctaaaataaatactaaaagaaatattcatggatgtgagaaatatagCTAAGAAAGTTTGAGTACATCAAAGCGGTGACAGTGGAGACAAAACCTTTCGACGTAGAGAGAGACTTAGTGACTGCGACGCTCAAGAATCGGAGGAACA

Basic information

species Arabidopsis thaliana
transcript AT2G47240.2
intron # 15
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|124713668|gb|EH805070.1|EH805070
EST:     AAAAGAACACATCATTTCAGAACTGAAGTCCACGGCAGAAAAGAAACAAG                         CTAAGAAAGTTTGAGTACATCAAA
genomic: AAAAGAACACATCATTTCAGAACTGAAGTCCACGGCAGAAAAGAA-CAAGgtttgtttga ... agaaatatagCTAAGAAAGTTTGAGTACATCAAA
EST: gi|125022350|gb|EL094619.1|EL094619
EST:     TAAAAGAACACATCATTTCAGAACTGAAGTCCACGGCAGAAAAGAACAAG                         CTAAGAAAGTTTGAGTACATCAAAGCGGTGACAGTGGAGACAAAACCTTTC
genomic: TAAAAGAACACATCATTTCAGAACTGAAGTCCACGGCAGAAAAGAACAAGgtttgtttga ... agaaatatagCTAAGAAAGTTTGAGTACATCAAAGCGGTGACAGTGGAGACAAAACCTTTC
EST: gi|116485842|gb|EG528434.1|EG528434
EST:     TAAAAGAACACATCATTTCAGAACTGAAGTCCCCGGCAGAAAAGAACAAG                         CTAAGAAAGTTTGAGTACATCAAAGCGGTGACAGTGGAGACAAAACCTTTC
genomic: TAAAAGAACACATCATTTCAGAACTGAAGTCCACGGCAGAAAAGAACAAGgtttgtttga ... agaaatatagCTAAGAAAGTTTGAGTACATCAAAGCGGTGACAGTGGAGACAAAACCTTTC
EST: gi|125091773|gb|EL149596.1|EL149596
EST:     TAAAAGAACACATCATTTCAGAACTGAAGTCCACGGCAGAAAAGAACAAG                         CTAAGAAAGTTTGAGTACA
genomic: TAAAAGAACACATCATTTCAGAACTGAAGTCCACGGCAGAAAAGAACAAGgtttgtttga ... agaaatatagCTAAGAAAGTTTGAGTACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattttattctaaaataaatactaaaagaaatattcatggatgtgagaaatatagCTAAGAAAGTTTGAGTACATCAAAGCGGTGACAGTGGAGACAAAACCTTTCGACGTAGAGAGAGACTTAGTGACTGCGACGCTCAAGAATCGGAGGAACA
                   tactaaa  putative branch site (score: 1)
     tattctaaaataaata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgtttgactttgtctgaatcaaaattcttcaattttattctaaaataaatactaaaagaaatattcatggatgtgagaaatatagCTAAGAAAGTTTGAGTACATCAAAGCGGTGACAGTGGAGACAAAACCTTTCGACGTAGAGAGAGACTTAGTGACTGCGACGCTCAAGAATCGGAGGAACA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA