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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagccattttctttttcattgggtcgttctcaatatgtaaaccaaagtcctcattacgatatatattgttcggtgtaattttcagCTTTGAATGAAGCGCTGCGGGATGAACTGAACCGACTTAAGGTGGTAGCTGGAGAAATTCCTCAGGGGAATGGAAATTCTTACAACCGTGCTCAATTCTC

Basic information

species Arabidopsis thaliana
transcript AT1G43700.1
intron # 3
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|164090652|gb|ES115841.1|ES115841
EST:     CCTCAAAATGCGGCTTCAAGCTTTAGAGCAACAAGCTGAACTTAGGGATG                         CTTTGAATGAAGCGC
genomic: CCTCAAAATGCGGCTTCAAGCTTTAGAGCAACAAGCTGAACTTAGGGATGgtaaagccat ... taattttcagCTTTGAATGAAGCGC
EST: gi|116429602|gb|EG472194.1|EG472194
EST:     CCTCAAAATGCGGCTTCAAGCTTTAGAGCAACAAGCTGAACTTAGGGATG                         CTTTGAATGAAGCGCTGCGGGATGAACTGAACCGACTTAAGGTGGTAGCTG
genomic: CCTCAAAATGCGGCTTCAAGCTTTAGAGCAACAAGCTGAACTTAGGGATGgtaaagccat ... taattttcagCTTTGAATGAAGCGCTGCGGGATGAACTGAACCGACTTAAGGTGGTAGCTG
EST: gi|124917023|gb|EH990897.1|EH990897
EST:     TTTAGAGCAACAAGCTGAACTTAGGGATG                         CTTTGAATGAAGCGCTGCGGGATGAACTGAACCGAACTTAAGGTGGTAGCT
genomic: TTTAGAGCAACAAGCTGAACTTAGGGATGgtaaagccat ... taattttcagCTTTGAATGAAGCGCTGCGGGATGAACTGAACCGA-CTTAAGGTGGTAGCT
EST: gi|164162661|gb|ES060355.1|ES060355
EST:     TTCAAGCTTTAGAGCAACAAGCTGAACTTAGGGATG                         CTTTGAATGAAGCGCTGCGGGATGAACTGAACCGACTTAAGGTGGTAGCTG
genomic: TTCAAGCTTTAGAGCAACAAGCTGAACTTAGGGATGgtaaagccat ... taattttcagCTTTGAATGAAGCGCTGCGGGATGAACTGAACCGACTTAAGGTGGTAGCTG
EST: gi|86077218|gb|DR372975.1|DR372975
EST:     CCTCAAAATGCGGCTTCAAGCTTTAGAGCAACAAGCTGAACTTAGGGATG                         CTTTGAATGAAGCGCTGCGGGATGAACTGAACCGACTTAAGGTGGTAGCTG
genomic: CCTCAAAATGCGGCTTCAAGCTTTAGAGCAACAAGCTGAACTTAGGGATGgtaaagccat ... taattttcagCTTTGAATGAAGCGCTGCGGGATGAACTGAACCGACTTAAGGTGGTAGCTG
EST: gi|125026807|gb|EL099076.1|EL099076
EST:     TCAAGCTTTAGAGCAACAAGCTGAACTTAGGGATG                         CTTTGAATGAAGCGCTGCGGGATGAACTGAACCGACTTAAGGTGGTAGCTG
genomic: TCAAGCTTTAGAGCAACAAGCTGAACTTAGGGATGgtaaagccat ... taattttcagCTTTGAATGAAGCGCTGCGGGATGAACTGAACCGACTTAAGGTGGTAGCTG
EST: gi|116429603|gb|EG472195.1|EG472195
EST:     CCTCAAAATGCGGCTTCAAGCTTTAGAGCAACAAGCTGAACTTAGGGATG                         CTTTGAATGAAGCGCTGCGGGATGAACTGAACCGACTTAAGGTGGTAGCTG
genomic: CCTCAAAATGCGGCTTCAAGCTTTAGAGCAACAAGCTGAACTTAGGGATGgtaaagccat ... taattttcagCTTTGAATGAAGCGCTGCGGGATGAACTGAACCGACTTAAGGTGGTAGCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caatatgtaaaccaaagtcctcattacgatatatattgttcggtgtaattttcagCTTTGAATGAAGCGCTGCGGGATGAACTGAACCGACTTAAGGTGGTAGCTGGAGAAATTCCTCAGGGGAATGGAAATTCTTACAACCGTGCTCAATTCTC
                                                ttttc  CT-rich tract
                      attacgatatatatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaagccattttctttttcattgggtcgttctcaatatgtaaaccaaagtcctcattacgatatatattgttcggtgtaattttcagCTTTGAATGAAGCGCTGCGGGATGAACTGAACCGACTTAAGGTGGTAGCTGGAGAAATTCCTCAGGGGAATGGAAATTCTTACAACCGTGCTCAATTCTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA