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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTATAGTGCCAGTTACACAACCAAGTGGCAGAGGTGGTCGGAGGAACTTTGCTTCAAGTAACTCTTATCAAGgtagtttgtgttcttttgttgatacctttcaaatatcaattgtcgtgctctttcctgtattaagctctttgttaacgttccgatatag

Basic information

species Arabidopsis thaliana
transcript AT1G55820.1
intron # 3
splice site 5'
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|86054419|gb|DR350176.1|DR350176
EST:     AAGTGGCAGAGGTGGTCGGAGGAACTTTGCTTCAAGTAACTCTTATCAAG                         GTAGTGGAAGAAATGCTTCTTTTAAAAGGGAAAATGGAGCTAATCATGTAA
genomic: AAGTGGCAGAGGTGGTCGGAGGAACTTTGCTTCAAGTAACTCTTATCAAGgtagtttgtg ... tccgatatagGTAGTGGAAGAAATGCTTCTTTTAAAAGGGAAAATGGAGCTAATCATGTAA
EST: gi|86054420|gb|DR350177.1|DR350177
EST:     AAGTGGCAGAGGTGGTCGGAGGAACTTTGCTTCAAGTAACTCTTATCAAG                         GTAGTGGAAGAAATGCTTCTTTTANA-GGGAAAATGGAGCTAATCATGTAA
genomic: AAGTGGCAGAGGTGGTCGGAGGAACTTTGCTTCAAGTAACTCTTATCAAGgtagtttgtg ... tccgatatagGTAGTGGAAGAAATGCTTCTTTTAAAAGGGAAAATGGAGCTAATCATGTAA
EST: gi|86063696|gb|DR359453.1|DR359453
EST:     AAGTGGNAGAGGTGGTCGGAGGAACTTTGCTTCAAGTAACTCTTATCAAG                         GTAGTGGAAGAAATGCTTCTTTTAAAAGGGAAAATGGAGCTAATCATGTAA
genomic: AAGTGGCAGAGGTGGTCGGAGGAACTTTGCTTCAAGTAACTCTTATCAAGgtagtttgtg ... tccgatatagGTAGTGGAAGAAATGCTTCTTTTAAAAGGGAAAATGGAGCTAATCATGTAA
EST: gi|124851010|gb|EH935447.1|EH935447
EST:     TAACTCTTATCAAG                         GTAGTGGAAGAAATGCTTCTTTTAAAAGGGAAAATGGAGCTAATCATGTAA
genomic: TAACTCTTATCAAGgtagtttgtg ... tccgatatagGTAGTGGAAGAAATGCTTCTTTTAAAAGGGAAAATGGAGCTAATCATGTAA
EST: gi|116477540|gb|EG520132.1|EG520132
EST:     AAGTGGCAGAGGTGGTCGGAGGAACTTTGCTTCAAGTAACTCTTATCAAG                         GTAGTGGAAGAAATGCTTCTTTTAAAAGGGAAAATGGAGCTAATCATGTAA
genomic: AAGTGGCAGAGGTGGTCGGAGGAACTTTGCTTCAAGTAACTCTTATCAAGgtagtttgtg ... tccgatatagGTAGTGGAAGAAATGCTTCTTTTAAAAGGGAAAATGGAGCTAATCATGTAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCTATAGTGCCAGTTACACAACCAAGTGGCAGAGGTGGTCGGAGGAACTTTGCTTCAAGTAACTCTTATCAAGgtagtttgtgttcttttgttgatacctttcaaatatcaattgtcgtgctctttcctgtattaagctctttgttaacgttccgatatag

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