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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctctaccttgttatctcttttagtgtctatgattcattctaagtgaaacaaatgatgctctgtagctatcccatgtctataatccgtgatactttatgagtttggtgtcattgagctctctgaaattcattggttttagGGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAG

Basic information

species Arabidopsis thaliana
transcript AT1G27110.2
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|116423244|gb|EG465836.1|EG465836
EST:     TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTT                         GGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
genomic: TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTTgtaagctcta ... ttggttttagGGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
EST: gi|116423243|gb|EG465835.1|EG465835
EST:     TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCCGCAGAATCCCGTCTT                         GGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
genomic: TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTTgtaagctcta ... ttggttttagGGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
EST: gi|116452156|gb|EG494748.1|EG494748
EST:     TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTT                         GGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
genomic: TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTTgtaagctcta ... ttggttttagGGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
EST: gi|116452140|gb|EG494732.1|EG494732
EST:     TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTT                         GGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
genomic: TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTTgtaagctcta ... ttggttttagGGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
EST: gi|116452146|gb|EG494738.1|EG494738
EST:     TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTT                         GGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
genomic: TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTTgtaagctcta ... ttggttttagGGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
EST: gi|116423249|gb|EG465841.1|EG465841
EST:     TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTT                         GGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
genomic: TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTTgtaagctcta ... ttggttttagGGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
EST: gi|116452138|gb|EG494730.1|EG494730
EST:     TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTT                         GGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
genomic: TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTTgtaagctcta ... ttggttttagGGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
EST: gi|116423251|gb|EG465843.1|EG465843
EST:     TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTT                         GGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
genomic: TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTTgtaagctcta ... ttggttttagGGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
EST: gi|116378186|gb|EG420778.1|EG420778
EST:     AGCTGCAGAATCCCGTCTT                         GGGAAAGCCACTCTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
genomic: AGCTGCAGAATCCCGTCTTgtaagctcta ... ttggttttagGGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
EST: gi|116452152|gb|EG494744.1|EG494744
EST:     TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTT                         GGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
genomic: TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTTgtaagctcta ... ttggttttagGGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
EST: gi|116423255|gb|EG465847.1|EG465847
EST:     TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTT                         GGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
genomic: TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTTgtaagctcta ... ttggttttagGGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
EST: gi|116423246|gb|EG465838.1|EG465838
EST:     TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTT                         GGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
genomic: TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTTgtaagctcta ... ttggttttagGGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
EST: gi|116452142|gb|EG494734.1|EG494734
EST:     TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTT                         GGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGGGGCTGTTAGTTACTTA
genomic: TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTTgtaagctcta ... ttggttttagGGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
EST: gi|116423254|gb|EG465846.1|EG465846
EST:     TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTT                         GGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
genomic: TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTTgtaagctcta ... ttggttttagGGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
EST: gi|116423222|gb|EG465814.1|EG465814
EST:     TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCGGCAGAATCCCGTCTT                         GGGAAAGTCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
genomic: TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTTgtaagctcta ... ttggttttagGGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
EST: gi|116452150|gb|EG494742.1|EG494742
EST:     TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTT                         GGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
genomic: TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTTgtaagctcta ... ttggttttagGGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
EST: gi|116423221|gb|EG465813.1|EG465813
EST:     TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCGGCAGAATCCCGTCTT                         GGGAAAGTCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
genomic: TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTTgtaagctcta ... ttggttttagGGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
EST: gi|116423252|gb|EG465844.1|EG465844
EST:     TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTT                         GGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
genomic: TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTTgtaagctcta ... ttggttttagGGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
EST: gi|116423245|gb|EG465837.1|EG465837
EST:     TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTT                         GGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
genomic: TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTTgtaagctcta ... ttggttttagGGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
EST: gi|116452135|gb|EG494727.1|EG494727
EST:     TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTT                         GGGAAAGCCACACTGCATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
genomic: TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTTgtaagctcta ... ttggttttagGGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
EST: gi|116452149|gb|EG494741.1|EG494741
EST:     TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTT                         GGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
genomic: TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTTgtaagctcta ... ttggttttagGGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
EST: gi|116401616|gb|EG444208.1|EG444208
EST:     TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTT                         GGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
genomic: TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTTgtaagctcta ... ttggttttagGGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
EST: gi|116423247|gb|EG465839.1|EG465839
EST:     TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTT                         GGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
genomic: TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTTgtaagctcta ... ttggttttagGGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
EST: gi|116423242|gb|EG465834.1|EG465834
EST:     TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCCGCAGAATCCCGTCTT                         GGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
genomic: TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTTgtaagctcta ... ttggttttagGGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
EST: gi|116423253|gb|EG465845.1|EG465845
EST:     TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTT                         GGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA
genomic: TTGACCCTGTTAGAGCCAGATCATATGCTCTAGCTGCAGAATCCCGTCTTgtaagctcta ... ttggttttagGGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgtgatactttatgagtttggtgtcattgagctctctgaaattcattggttttagGGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAG
                                      aaattcatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagctctaccttgttatctcttttagtgtctatgattcattctaagtgaaacaaatgatgctctgtagctatcccatgtctataatccgtgatactttatgagtttggtgtcattgagctctctgaaattcattggttttagGGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG