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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagattttgttttctattaatatctcatagagacatgaaaagaagatcatgattcttatttctcggttgctttctttcgcgcagAGAAAGACGGAGAAGAAGAAGCAGTTTCTGTGTCTTTGTTTGAAGCCAAAGACTATAAGAGAGTAATCATAAGATAGCCAAAGACGCTTCAAGAACACAG

Basic information

species Arabidopsis thaliana
transcript AT3G27350.1
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|124718033|gb|EH809435.1|EH809435
EST:     TAAGTAATGCTAAAACTCAAGATCAGAACCAGAGCAGGAATAAG                         AGAAAGACGGAGAAGAAGAAGCAGTTTCTGTGTCTTTGTTTGAAGCCAAAG
genomic: TAAGTAATGCTAAAACTCAAGATCAGAACCAGAGCAGGAATAAGgtaagatttt ... tttcgcgcagAGAAAGACGGAGAAGAAGAAGCAGTTTCTGTGTCTTTGTTTGAAGCCAAAG
EST: gi|125263430|gb|EL277515.1|EL277515
EST:     CCAGAGCAGGAATAAG                         AGAAAGACGGAGAAGAAGAAGCAGTTTCTGTGTCTTTGTTTGAAGCCAAAG
genomic: CCAGAGCAGGAATAAGgtaagatttt ... tttcgcgcagAGAAAGACGGAGAAGAAGAAGCAGTTTCTGTGTCTTTGTTTGAAGCCAAAG
EST: gi|124913457|gb|EH987331.1|EH987331
EST:     GTTTCATAAGTAATGCTAAAACTCAAGATCAGAACCAGAGCAGGAATAAG                         AGAAAGACGGAGAAGAAGAAGCAGTTTCTG
genomic: GTTTCATAAGTAATGCTAAAACTCAAGATCAGAACCAGAGCAGGAATAAGgtaagatttt ... tttcgcgcagAGAAAGACGGAGAAGAAGAAGCAGTTTCTG
EST: gi|124736236|gb|EH827638.1|EH827638
EST:     GTTTCATAAGTAATGCTAAAACTCAAGATCAGAACCAGAGCAGGAATAAG                         AGAAAGACGGAGAAGAAGAAGCAGTTTCTGTGTCTTTGTTTGAAGCCAAAG
genomic: GTTTCATAAGTAATGCTAAAACTCAAGATCAGAACCAGAGCAGGAATAAGgtaagatttt ... tttcgcgcagAGAAAGACGGAGAAGAAGAAGCAGTTTCTGTGTCTTTGTTTGAAGCCAAAG
EST: gi|125188067|gb|EL203021.1|EL203021
EST:     AGCAGGAATAAG                         AGAAAGACGGAGAAGAAGAAGCAGTTTCTGTGTCTTTGTTTGAAGCCAAAG
genomic: AGCAGGAATAAGgtaagatttt ... tttcgcgcagAGAAAGACGGAGAAGAAGAAGCAGTTTCTGTGTCTTTGTTTGAAGCCAAAG
EST: gi|124848234|gb|EH932671.1|EH932671
EST:     GTTTCATAAGTAATGCTAAAACTCAAGATCAGAACCAGAGCAGGAATAAG                         AGAAAGACGGAGAAGAAG
genomic: GTTTCATAAGTAATGCTAAAACTCAAGATCAGAACCAGAGCAGGAATAAGgtaagatttt ... tttcgcgcagAGAAAGACGGAGAAGAAG
EST: gi|164112922|gb|ES187904.1|ES187904
EST:     GCTAAAACTCAAGATCAGAACCAGAGCAGGAATAAG                         AGAAAGACGGAGAAGAAGAAGCAGTTTCTGTGTCTTTGTTTGAAGCCAAAG
genomic: GCTAAAACTCAAGATCAGAACCAGAGCAGGAATAAGgtaagatttt ... tttcgcgcagAGAAAGACGGAGAAGAAGAAGCAGTTTCTGTGTCTTTGTTTGAAGCCAAAG
EST: gi|125312971|gb|EL327056.1|EL327056
EST:     ATGCTAAAACTCAAGATCAGAACCAGAGCAGGAATAAG                         AGAAAGACGGAGAAGAAGAAGCAGTTTCTGTGTCTTTGTTTGAAGCCAAAG
genomic: ATGCTAAAACTCAAGATCAGAACCAGAGCAGGAATAAGgtaagatttt ... tttcgcgcagAGAAAGACGGAGAAGAAGAAGCAGTTTCTGTGTCTTTGTTTGAAGCCAAAG
EST: gi|124940175|gb|EL016646.1|EL016646
EST:     GTTTCATAAGTAATGCTAAAACTCAAGATCAGAACCAGAGCAGGAATAAG                         AGAAAGACGGAGAAGAAGAAGCAGTTTCTGTGT
genomic: GTTTCATAAGTAATGCTAAAACTCAAGATCAGAACCAGAGCAGGAATAAGgtaagatttt ... tttcgcgcagAGAAAGACGGAGAAGAAGAAGCAGTTTCTGTGT
EST: gi|125131960|gb|EL174297.1|EL174297
EST:     TTCATAAGTAATGCTAAAACTCAAGATCAGAACCAGAGCAGGAATAAG                         AGAAAGACGGAGAAGAAGAAGCAGTTTCTGTGTCTTTGTTTGAAGCCAAAG
genomic: TTCATAAGTAATGCTAAAACTCAAGATCAGAACCAGAGCAGGAATAAGgtaagatttt ... tttcgcgcagAGAAAGACGGAGAAGAAGAAGCAGTTTCTGTGTCTTTGTTTGAAGCCAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagacatgaaaagaagatcatgattcttatttctcggttgctttctttcgcgcagAGAAAGACGGAGAAGAAGAAGCAGTTTCTGTGTCTTTGTTTGAAGCCAAAGACTATAAGAGAGTAATCATAAGATAGCCAAAGACGCTTCAAGAACACAG
                                     ttgctttctttcgc  CT-rich tract
                      attcttattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagattttgttttctattaatatctcatagagacatgaaaagaagatcatgattcttatttctcggttgctttctttcgcgcagAGAAAGACGGAGAAGAAGAAGCAGTTTCTGTGTCTTTGTTTGAAGCCAAAGACTATAAGAGAGTAATCATAAGATAGCCAAAGACGCTTCAAGAACACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC