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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaagatgatatttgtagctttcaagttgtgtttttctggtttgctatgcttaaagttatgatttttatctttcgtgacattgttgcaccgtcttatgaagGTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTATGATAATGATTGTGTTTTGGCCAACATTTTGGCTGCTCATTACCTTAGCT

Basic information

species Arabidopsis thaliana
transcript AT1G27110.1
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|116423244|gb|EG465836.1|EG465836
EST:     ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAG                         GTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
genomic: ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAGgttcgtctct ... tcttatgaagGTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
EST: gi|116423243|gb|EG465835.1|EG465835
EST:     ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAG                         GTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
genomic: ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAGgttcgtctct ... tcttatgaagGTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
EST: gi|116452156|gb|EG494748.1|EG494748
EST:     ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAG                         GTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
genomic: ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAGgttcgtctct ... tcttatgaagGTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
EST: gi|116452140|gb|EG494732.1|EG494732
EST:     ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAG                         GTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
genomic: ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAGgttcgtctct ... tcttatgaagGTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
EST: gi|116452146|gb|EG494738.1|EG494738
EST:     ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAG                         GTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
genomic: ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAGgttcgtctct ... tcttatgaagGTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
EST: gi|116423249|gb|EG465841.1|EG465841
EST:     ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAG                         GTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
genomic: ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAGgttcgtctct ... tcttatgaagGTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
EST: gi|116452138|gb|EG494730.1|EG494730
EST:     ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAG                         GTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
genomic: ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAGgttcgtctct ... tcttatgaagGTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
EST: gi|116423251|gb|EG465843.1|EG465843
EST:     ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAG                         GTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
genomic: ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAGgttcgtctct ... tcttatgaagGTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
EST: gi|116452152|gb|EG494744.1|EG494744
EST:     ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAG                         GTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
genomic: ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAGgttcgtctct ... tcttatgaagGTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
EST: gi|116423255|gb|EG465847.1|EG465847
EST:     ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAG                         GTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
genomic: ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAGgttcgtctct ... tcttatgaagGTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
EST: gi|116423246|gb|EG465838.1|EG465838
EST:     ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAG                         GTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
genomic: ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAGgttcgtctct ... tcttatgaagGTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
EST: gi|116452142|gb|EG494734.1|EG494734
EST:     ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAG                         GTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGTGCCAAACTAT
genomic: ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAGgttcgtctct ... tcttatgaagGTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
EST: gi|116423254|gb|EG465846.1|EG465846
EST:     ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAG                         GTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
genomic: ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAGgttcgtctct ... tcttatgaagGTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
EST: gi|116423222|gb|EG465814.1|EG465814
EST:     ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAG                         GTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
genomic: ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAGgttcgtctct ... tcttatgaagGTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
EST: gi|116452150|gb|EG494742.1|EG494742
EST:     ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAG                         GTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
genomic: ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAGgttcgtctct ... tcttatgaagGTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
EST: gi|116423221|gb|EG465813.1|EG465813
EST:     ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAG                         GTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
genomic: ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAGgttcgtctct ... tcttatgaagGTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
EST: gi|116423252|gb|EG465844.1|EG465844
EST:     ACGCCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAG                         GTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
genomic: ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAGgttcgtctct ... tcttatgaagGTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
EST: gi|116423245|gb|EG465837.1|EG465837
EST:     ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAG                         GTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
genomic: ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAGgttcgtctct ... tcttatgaagGTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
EST: gi|116452135|gb|EG494727.1|EG494727
EST:     ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAG                         GTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
genomic: ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAGgttcgtctct ... tcttatgaagGTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
EST: gi|116452149|gb|EG494741.1|EG494741
EST:     ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAG                         GTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
genomic: ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAGgttcgtctct ... tcttatgaagGTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
EST: gi|116423247|gb|EG465839.1|EG465839
EST:     ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAG                         GTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
genomic: ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAGgttcgtctct ... tcttatgaagGTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
EST: gi|116423242|gb|EG465834.1|EG465834
EST:     ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAG                         GTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
genomic: ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAGgttcgtctct ... tcttatgaagGTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
EST: gi|116423253|gb|EG465845.1|EG465845
EST:     ACGCCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAG                         GTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT
genomic: ACACCTCTTCAGATGATTGCATTGCTTCCATTAACTCTTATTCTGACCAGgttcgtctct ... tcttatgaagGTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgcttaaagttatgatttttatctttcgtgacattgttgcaccgtcttatgaagGTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTATGATAATGATTGTGTTTTGGCCAACATTTTGGCTGCTCATTACCTTAGCT
                                          ccgtctt  CT-rich tract
     taaagttatgattttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaagatgatatttgtagctttcaagttgtgtttttctggtttgctatgcttaaagttatgatttttatctttcgtgacattgttgcaccgtcttatgaagGTTCTTGGTTATGGAAGAGAGAAGAAGGTGATTCTAGAAGCGCCAAACTATGATAATGATTGTGTTTTGGCCAACATTTTGGCTGCTCATTACCTTAGCT

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