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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtataacaattgtagatattcaaatttgttttccttttaattacgtcaactaatgacttggtgtgatgcacatatagAATGATGCACCTGTCGGAATGGCATTCACATCTGAGAACCAATCGGTGGCAGCGTTTGTGGCTGCTGACAAAGTAGCGTTTTACCATTGTGCGTTCTACA

Basic information

species Arabidopsis thaliana
transcript AT3G17060.1
intron # 2
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|86038478|gb|DR334233.1|DR334233
EST:     CTTTCAAAGTCGAGGCTAATCACTTTGTCGCTTTTGGTATCAGCATCCGA                         AATGATGCACCTGTCGGAATGGCATTCACATCTGAGAACCAATCGGTGGCA
genomic: CTTTCAAAGTCGAGGCTAATCACTTTGTCGCTTTTGGTATCAGCATCCGAgtacgtataa ... gcacatatagAATGATGCACCTGTCGGAATGGCATTCACATCTGAGAACCAATCGGTGGCA
EST: gi|19878393|gb|AU239224.1|AU239224
EST:     CTTTCAAAGTCGAGGCTAATCACTTTGTCGCTTTTGGTATCAGCATCCGA                         AATGATGCACCTGTCGGAATGGCATTCACATCTGAGAACCAATCGGTGGCA
genomic: CTTTCAAAGTCGAGGCTAATCACTTTGTCGCTTTTGGTATCAGCATCCGAgtacgtataa ... gcacatatagAATGATGCACCTGTCGGAATGGCATTCACATCTGAGAACCAATCGGTGGCA
EST: gi|86038481|gb|DR334236.1|DR334236
EST:     CTTTCAAAGTCGAGGCTAATCACTTTGTCGCTTTTGGTATCAGCATCCGA                         AATGATGCACCTGTCGGAATGGCATTCACATCTGAGAACCAATCGGTGGCA
genomic: CTTTCAAAGTCGAGGCTAATCACTTTGTCGCTTTTGGTATCAGCATCCGAgtacgtataa ... gcacatatagAATGATGCACCTGTCGGAATGGCATTCACATCTGAGAACCAATCGGTGGCA
EST: gi|86038476|gb|DR334231.1|DR334231
EST:     CTTTCAAAGTCGAGGCTAATCACTTTGTCGCTTTTGGTATCAGCATCCGA                         AATGATGCACCTGTCGGAATGGCATTCACATCTGAGAACCAATCGG
genomic: CTTTCAAAGTCGAGGCTAATCACTTTGTCGCTTTTGGTATCAGCATCCGAgtacgtataa ... gcacatatagAATGATGCACCTGTCGGAATGGCATTCACATCTGAGAACCAATCGG
EST: gi|86038480|gb|DR334235.1|DR334235
EST:     CTTTCAAAGTCGNGGCTAATCACTTTGTCGCTTTTGGTATCAGCATCCGA                         AATGATGCACCTGTCGGAATGGCATTCACATCTGAG
genomic: CTTTCAAAGTCGAGGCTAATCACTTTGTCGCTTTTGGTATCAGCATCCGAgtacgtataa ... gcacatatagAATGATGCACCTGTCGGAATGGCATTCACATCTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatttgttttccttttaattacgtcaactaatgacttggtgtgatgcacatatagAATGATGCACCTGTCGGAATGGCATTCACATCTGAGAACCAATCGGTGGCAGCGTTTGTGGCTGCTGACAAAGTAGCGTTTTACCATTGTGCGTTCTACA
                         aactaat  putative branch site (score: 2)
      ttttccttttaatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacgtataacaattgtagatattcaaatttgttttccttttaattacgtcaactaatgacttggtgtgatgcacatatagAATGATGCACCTGTCGGAATGGCATTCACATCTGAGAACCAATCGGTGGCAGCGTTTGTGGCTGCTGACAAAGTAGCGTTTTACCATTGTGCGTTCTACA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT