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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAGgttaggatatttcttggcttcttgttcttattagttcttcttgctatagcttgatatatctttcctttgacgcagttattataactcttgtatataactcttttatgttttgcag

Basic information

species Arabidopsis thaliana
transcript AT1G27110.3
intron # 3
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|116378181|gb|EG420773.1|EG420773
EST:     TACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAG                         CTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
genomic: TACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAGgttaggatat ... tgttttgcagCTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
EST: gi|116428736|gb|EG471328.1|EG471328
EST:     TGGACGACGATGTGGCTTTGGAGTTACACTCTAAG                         CTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
genomic: TGGACGACGATGTGGCTTTGGAGTTACACTCTAAGgttaggatat ... tgttttgcagCTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
EST: gi|116423252|gb|EG465844.1|EG465844
EST:     TACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAG                         CTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
genomic: TACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAGgttaggatat ... tgttttgcagCTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
EST: gi|116428746|gb|EG471338.1|EG471338
EST:     TGGACGACGATGTGGCTTTGGAGTTACACTCTAAG                         CTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
genomic: TGGACGACGATGTGGCTTTGGAGTTACACTCTAAGgttaggatat ... tgttttgcagCTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
EST: gi|116401614|gb|EG444206.1|EG444206
EST:     TACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAG                         CTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
genomic: TACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAGgttaggatat ... tgttttgcagCTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
EST: gi|116428724|gb|EG471316.1|EG471316
EST:     TGGACGACGATGTGGCTTTGGAGTTACACTCTAAG                         CTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGGCT
genomic: TGGACGACGATGTGGCTTTGGAGTTACACTCTAAGgttaggatat ... tgttttgcagCTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
EST: gi|116378186|gb|EG420778.1|EG420778
EST:     TACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAG                         CTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
genomic: TACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAGgttaggatat ... tgttttgcagCTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
EST: gi|116452142|gb|EG494734.1|EG494734
EST:     TACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAG                         CTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
genomic: TACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAGgttaggatat ... tgttttgcagCTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
EST: gi|116423221|gb|EG465813.1|EG465813
EST:     TACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAG                         CTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
genomic: TACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAGgttaggatat ... tgttttgcagCTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
EST: gi|116423253|gb|EG465845.1|EG465845
EST:     TACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAG                         CTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
genomic: TACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAGgttaggatat ... tgttttgcagCTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
EST: gi|116452153|gb|EG494745.1|EG494745
EST:     TACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAG                         CTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
genomic: TACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAGgttaggatat ... tgttttgcagCTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
EST: gi|116423246|gb|EG465838.1|EG465838
EST:     TACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAG                         CTCTTGAAAAAGTTCCCGAAAGATTTACTATCTTGGAAGAGAGTAGAGACT
genomic: TACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAGgttaggatat ... tgttttgcagCTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
EST: gi|116428726|gb|EG471318.1|EG471318
EST:     TGGA-GACGATGTGGCTTTGGAGTTACACTCTAAG                         CTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
genomic: TGGACGACGATGTGGCTTTGGAGTTACACTCTAAGgttaggatat ... tgttttgcagCTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
EST: gi|116452144|gb|EG494736.1|EG494736
EST:     GATGTGGCTTTGGAGTTACACTCTAAG                         CTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
genomic: GATGTGGCTTTGGAGTTACACTCTAAGgttaggatat ... tgttttgcagCTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
EST: gi|116423254|gb|EG465846.1|EG465846
EST:     TACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAG                         CTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
genomic: TACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAGgttaggatat ... tgttttgcagCTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
EST: gi|116452150|gb|EG494742.1|EG494742
EST:     TACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAG                         CTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
genomic: TACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAGgttaggatat ... tgttttgcagCTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
EST: gi|116428743|gb|EG471335.1|EG471335
EST:     TGGACGACGATGTGGCTTTGGAGTTACGCTCTAAG                         CTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
genomic: TGGACGACGATGTGGCTTTGGAGTTACACTCTAAGgttaggatat ... tgttttgcagCTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
EST: gi|116428737|gb|EG471329.1|EG471329
EST:     TGGACGACGATGTGGCTTTGGAGTTACACTCTAAG                         CTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
genomic: TGGACGACGATGTGGCTTTGGAGTTACACTCTAAGgttaggatat ... tgttttgcagCTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
EST: gi|116452149|gb|EG494741.1|EG494741
EST:     TACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAG                         CTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
genomic: TACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAGgttaggatat ... tgttttgcagCTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
EST: gi|116423244|gb|EG465836.1|EG465836
EST:     TACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAA                         CTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
genomic: TACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAGgttaggatat ... tgttttgcagCTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
EST: gi|116428721|gb|EG471313.1|EG471313
EST:     TGGACGACGATGTGGCTTTGGAGTTACACTCTAAG                         CTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
genomic: TGGACGACGATGTGGCTTTGGAGTTACACTCTAAGgttaggatat ... tgttttgcagCTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
EST: gi|116423255|gb|EG465847.1|EG465847
EST:     TACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAG                         CTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
genomic: TACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAGgttaggatat ... tgttttgcagCTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
EST: gi|116423222|gb|EG465814.1|EG465814
EST:     TACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAG                         CTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
genomic: TACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAGgttaggatat ... tgttttgcagCTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
EST: gi|116428745|gb|EG471337.1|EG471337
EST:     TGGACGACGATGTGGCTTTGGAGTTACACTCTAAG                         CTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
genomic: TGGACGACGATGTGGCTTTGGAGTTACACTCTAAGgttaggatat ... tgttttgcagCTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
EST: gi|116452154|gb|EG494746.1|EG494746
EST:     TACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAG                         CTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT
genomic: TACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAGgttaggatat ... tgttttgcagCTCTTGAAAAAGTTCCCGAAAGATTTGCTATCTTGGAAGAGAGTAGAGACT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGGAAAGCCACACTGTATGAGAAGGCAGTTTTCGAGGCTGTTAGTTACTTACTCTCTGAGAATATGGACGACGATGTGGCTTTGGAGTTACACTCTAAGgttaggatatttcttggcttcttgttcttattagttcttcttgctatagcttgatatatctttcctttgacgcagttattataactcttgtatataactcttttatgttttgcag

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