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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACATCTGGTCGCGTTATAGATGCTCTCGAAACTTTGTTAGAGgtatgcatttgcaattcattgcttcaattggattatgtgcttcaatacttctattatactgatagatgcaatgcaacctatgcgagtcctgaaaccttgcaattctattattcattttcag

Basic information

species Arabidopsis thaliana
transcript AT4G27040.3
intron # 8
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|116404460|gb|EG447052.1|EG447052
EST:     TCTCATGGACATCTGGTCGCGTTATAGATGCTCTCGAAACTTTGTTAGAG                         GAGGGCCTTGCCATGATCGACAATGGCCATAAAGACGGAAAGTGTCGGTAC
genomic: TCTCATGGACATCTGGTCGCGTTATAGATGCTCTCGAAACTTTGTTAGAGgtatgcattt ... tcattttcagGAGGGCCTTGCCATGATCGACAATGGCCATAAAGACGGAAAGTGTCGGTAC
EST: gi|116404485|gb|EG447077.1|EG447077
EST:     TCTCATGGACATCTGGTCGCGTTATAGATGCTCTCGAAACTTTGTTAGAG                         GAGGGCCTTTGC-ATGATCGACAATGGCCATAAAGACGGGAAGTGTCCGTA
genomic: TCTCATGGACATCTGGTCGCGTTATAGATGCTCTCGAAACTTTGTTAGAGgtatgcattt ... tcattttcagGAGGGCCTT-GCCATGATCGACAATGGCCATAAAGACGGAAAGTGTCGGTA
EST: gi|116404471|gb|EG447063.1|EG447063
EST:     TCTCATGGACATCTGGTCGCGTTATAGATGCTCTCGAAACTTTGTTAGCG                         GAAGGGCCTTGC-ATGATCGACAATGGCCATAAAGACGGAAAGTGTCGGTA
genomic: TCTCATGGACATCTGGTCGCGTTATAGATGCTCTCGAAACTTTGTTAGAGgtatgcattt ... tcattttcagGA-GGGCCTTGCCATGATCGACAATGGCCATAAAGACGGAAAGTGTCGGTA
EST: gi|116404463|gb|EG447055.1|EG447055
EST:     TCTCATGGACATCTGGTCGCGTTATAGATGCTCTCGAAACTTTGTTAGAG                         GAGGGCCTTGCCATGATCGACAATGGCCATAAAGACGGAAAGTGTCGGTAC
genomic: TCTCATGGACATCTGGTCGCGTTATAGATGCTCTCGAAACTTTGTTAGAGgtatgcattt ... tcattttcagGAGGGCCTTGCCATGATCGACAATGGCCATAAAGACGGAAAGTGTCGGTAC
EST: gi|116404479|gb|EG447071.1|EG447071
EST:     TCTCATGGACATCTGGTCGCGTTATAGATGCTCTCGAAACTTTGTTAGAG                         GGGGGCCTTGCCATGATCGGCAATGGCCATAAAGACGGAAAGTGTCGGTAC
genomic: TCTCATGGACATCTGGTCGCGTTATAGATGCTCTCGAAACTTTGTTAGAGgtatgcattt ... tcattttcagGAGGGCCTTGCCATGATCGACAATGGCCATAAAGACGGAAAGTGTCGGTAC
EST: gi|125032049|gb|EL104318.1|EL104318
EST:     CGTTATAGATGCTCTCGAAACTTTGTTAGAG                         GAGGGCCTTGCCATGATCGACAATGGCCATAAAGACGGAAAGTGTCGGTAC
genomic: CGTTATAGATGCTCTCGAAACTTTGTTAGAGgtatgcattt ... tcattttcagGAGGGCCTTGCCATGATCGACAATGGCCATAAAGACGGAAAGTGTCGGTAC
EST: gi|116404489|gb|EG447081.1|EG447081
EST:     TCTCATGGACATCTGGTCGCGTTATAGATGCTCTCGAAACTTTGTTAGAG                         GAGGGCCTTGCCATGATCGACAATGGCCATAAAGACGGAAAGTGTCGGTAC
genomic: TCTCATGGACATCTGGTCGCGTTATAGATGCTCTCGAAACTTTGTTAGAGgtatgcattt ... tcattttcagGAGGGCCTTGCCATGATCGACAATGGCCATAAAGACGGAAAGTGTCGGTAC
EST: gi|116404476|gb|EG447068.1|EG447068
EST:     TCTCATGGACATCTGGTCGCGTTATAGATGCTCTCGAAACTTTGTTAGAG                         GAGGGCCTTGCCATGATCGACAATGGCCATAAAGACGGAAAGTGTCGGTAC
genomic: TCTCATGGACATCTGGTCGCGTTATAGATGCTCTCGAAACTTTGTTAGAGgtatgcattt ... tcattttcagGAGGGCCTTGCCATGATCGACAATGGCCATAAAGACGGAAAGTGTCGGTAC
EST: gi|116404466|gb|EG447058.1|EG447058
EST:     TCTCATGGACATCTGGTCGCGTTATAGATGCTCTCGAAACTTTGTTAGAG                         GAGGGCCTTGCCATGATCGACAATGGCCATAAAGACGGAAAGTGTCGGTAC
genomic: TCTCATGGACATCTGGTCGCGTTATAGATGCTCTCGAAACTTTGTTAGAGgtatgcattt ... tcattttcagGAGGGCCTTGCCATGATCGACAATGGCCATAAAGACGGAAAGTGTCGGTAC
EST: gi|116404474|gb|EG447066.1|EG447066
EST:     TCTCATGGACATCTGGTCGCGTTATAGATGCTCTCGAAACTTTGTTAGAG                         GAAGGCCTTGCCATGATCGACAATGGCCA
genomic: TCTCATGGACATCTGGTCGCGTTATAGATGCTCTCGAAACTTTGTTAGAGgtatgcattt ... tcattttcagGAGGGCCTTGCCATGATCGACAATGGCCA
EST: gi|116404487|gb|EG447079.1|EG447079
EST:     TCTCATGGACATCTGGTCACGTTATAGATGCTCTCGAAACTTTGTTAGAG                         GAGGGCCTTGCCATGATCGACAATGGCCATAAAGACGGAAAGTGTCGGTAC
genomic: TCTCATGGACATCTGGTCGCGTTATAGATGCTCTCGAAACTTTGTTAGAGgtatgcattt ... tcattttcagGAGGGCCTTGCCATGATCGACAATGGCCATAAAGACGGAAAGTGTCGGTAC
EST: gi|116404477|gb|EG447069.1|EG447069
EST:     TCTCATGGACATCTGGTCGCGTTATAGATGCTCTCGAAACTTTGTTAGAG                         GAGGGCCTTGCCATGATCGACAATGGCCATAAAGACGGAAAGTGTCGGTAC
genomic: TCTCATGGACATCTGGTCGCGTTATAGATGCTCTCGAAACTTTGTTAGAGgtatgcattt ... tcattttcagGAGGGCCTTGCCATGATCGACAATGGCCATAAAGACGGAAAGTGTCGGTAC
EST: gi|116404467|gb|EG447059.1|EG447059
EST:     TCTCATGGACATCTGGTCGCGTTATAGATGCTCTCGAAACTTTGTTAGAG                         GAGGGCCTTGCCATGATCGACAATGGCCATAAAGACGGAAAGTGTCGGTAC
genomic: TCTCATGGACATCTGGTCGCGTTATAGATGCTCTCGAAACTTTGTTAGAGgtatgcattt ... tcattttcagGAGGGCCTTGCCATGATCGACAATGGCCATAAAGACGGAAAGTGTCGGTAC
EST: gi|116404455|gb|EG447047.1|EG447047
EST:     TCTCATGGACATCTGGTCGCGTTATAGATGCTCTCGAAACTTTGTTAGAG                         GAGGGCCTTGCCATGATCGACA-TGGCCATAAAGACGGAAAGTGTCGGTAC
genomic: TCTCATGGACATCTGGTCGCGTTATAGATGCTCTCGAAACTTTGTTAGAGgtatgcattt ... tcattttcagGAGGGCCTTGCCATGATCGACAATGGCCATAAAGACGGAAAGTGTCGGTAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGCCAAGGCTTTGTGATTGTGGAAGAGGTACAAAGACGCCTCTCATGGACATCTGGTCGCGTTATAGATGCTCTCGAAACTTTGTTAGAGgtatgcatttgcaattcattgcttcaattggattatgtgcttcaatacttctattatactgatagatgcaatgcaacctatgcgagtcctgaaaccttgcaattctattattcattttcag

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