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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttttaaagaatcatcaatttttcgatttttccgggttgctattcaaaaagttaaatttctgaattgggctgttttgtgtgttgtttgtttgtttcagGTTAAAAGTACGGTTCCGTTTAGCGAGCCTTTCACGGTAGATCCTGAGAATCCTCCACCGGAGAAAGACTACAATGAGTATTTCAAGACTCTGAAAGATG

Basic information

species Arabidopsis thaliana
transcript AT4G18810.1
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|124761241|gb|EH851371.1|EH851371
EST:     TATGCATCGCTGCTTTAGAAAGCCCGTATGCTCTTAACAAGACCTTCGAG                         GTTAAAAGTACGGTTCCGTTTAGCGAGCCTTTCACGGTAG
genomic: TATGCATCGCTGCTTTAGAAAGCCCGTATGCTCTTAACAAGACCTTCGAGgtttttaaag ... tttgtttcagGTTAAAAGTACGGTTCCGTTTAGCGAGCCTTTCACGGTAG
EST: gi|124763988|gb|EH854118.1|EH854118
EST:     CTCTTAACAAGACCTTCGAG                         GTTAAAAGTACGGTTCCGTTTAGCGAGCCTTTCACGGTAGATCCTGAGAAT
genomic: CTCTTAACAAGACCTTCGAGgtttttaaag ... tttgtttcagGTTAAAAGTACGGTTCCGTTTAGCGAGCCTTTCACGGTAGATCCTGAGAAT
EST: gi|125281866|gb|EL295951.1|EL295951
EST:     CTTTAGAAAGCCCGTATGCTCTTAACAAGACCTTCGAG                         GTTAAAAGTACGGTTCCGTTTAGCGAGCCTTTCACGGTAGATCCTGAGAAT
genomic: CTTTAGAAAGCCCGTATGCTCTTAACAAGACCTTCGAGgtttttaaag ... tttgtttcagGTTAAAAGTACGGTTCCGTTTAGCGAGCCTTTCACGGTAGATCCTGAGAAT
EST: gi|116396417|gb|EG439009.1|EG439009
EST:     TATGCATCGCTGCTTTAGAAAGCCCGTATGCTTTTAACAAGCCCTTGGAG                         GTTAAAAGTACGGTTCCGTTTAGCGACCCTTTCACGGTAGATCCTGAGAAT
genomic: TATGCATCGCTGCTTTAGAAAGCCCGTATGCTCTTAACAAGACCTTCGAGgtttttaaag ... tttgtttcagGTTAAAAGTACGGTTCCGTTTAGCGAGCCTTTCACGGTAGATCCTGAGAAT
EST: gi|116396418|gb|EG439010.1|EG439010
EST:     TATGCATCGCTGCTTTAGAAAGCCCGTATGCTCTTAACAAGACCTTCGAG                         GTTAAAAGTACGGTTCCGTTTAGCGAGCCTTTCACGGTAGATCCTGAGAAT
genomic: TATGCATCGCTGCTTTAGAAAGCCCGTATGCTCTTAACAAGACCTTCGAGgtttttaaag ... tttgtttcagGTTAAAAGTACGGTTCCGTTTAGCGAGCCTTTCACGGTAGATCCTGAGAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaaaaagttaaatttctgaattgggctgttttgtgtgttgtttgtttgtttcagGTTAAAAGTACGGTTCCGTTTAGCGAGCCTTTCACGGTAGATCCTGAGAATCCTCCACCGGAGAAAGACTACAATGAGTATTTCAAGACTCTGAAAGATG
                                             tttgtttc  CT-rich tract
        ttaaatttctgaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttttaaagaatcatcaatttttcgatttttccgggttgctattcaaaaagttaaatttctgaattgggctgttttgtgtgttgtttgtttgtttcagGTTAAAAGTACGGTTCCGTTTAGCGAGCCTTTCACGGTAGATCCTGAGAATCCTCCACCGGAGAAAGACTACAATGAGTATTTCAAGACTCTGAAAGATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG