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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagatttctcttttgctcttacttaagacgttttctttgaaacctgtagctattcttctaatttgtttacttatcatgttgcagCTACAACGTTAACTGGTTTACATTTCGCTACAACGACTCTGATGACGCTTGTTTTAAGATGTCTTGGTTACATTCAGCCTTCTCATCTTCCGTTTACGGA

Basic information

species Arabidopsis thaliana
transcript AT1G34020.1
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|86044312|gb|DR340067.1|DR340067
EST:     TATCATCATTGTTAATAAAGCTTTAATGGCGACTTATGGTTATAGCTTTG                         CTACAACGTTAACCGGTTTACATTTCGCTACAACGACTCTGATGACGCTTG
genomic: TATCATCATTGTTAATAAAGCTTTAATGGCGACTTATGGTTATAGCTTTGgtaaagattt ... catgttgcagCTACAACGTTAACTGGTTTACATTTCGCTACAACGACTCTGATGACGCTTG
EST: gi|86044311|gb|DR340066.1|DR340066
EST:     TATCATCATTGTTAATAAAGCTTTAATGGCGACTTATGGTTATAGCTTTG                         CTACAACGTTAACCGGTTTACATTTCGCTACAACGACTCTGATGACGCTTG
genomic: TATCATCATTGTTAATAAAGCTTTAATGGCGACTTATGGTTATAGCTTTGgtaaagattt ... catgttgcagCTACAACGTTAACTGGTTTACATTTCGCTACAACGACTCTGATGACGCTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttttctttgaaacctgtagctattcttctaatttgtttacttatcatgttgcagCTACAACGTTAACTGGTTTACATTTCGCTACAACGACTCTGATGACGCTTGTTTTAAGATGTCTTGGTTACATTCAGCCTTCTCATCTTCCGTTTACGGA
                          ttctaat  putative branch site (score: 2)
                             taatttgtttacttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaagatttctcttttgctcttacttaagacgttttctttgaaacctgtagctattcttctaatttgtttacttatcatgttgcagCTACAACGTTAACTGGTTTACATTTCGCTACAACGACTCTGATGACGCTTGTTTTAAGATGTCTTGGTTACATTCAGCCTTCTCATCTTCCGTTTACGGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG