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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaccacttctctatattccgtagtctacttatttttcgttcctgtataagtaattttatgttacttgataaagatgctacgatcaaattttcataaactgatgactaaaggtattaaatactaactgttatctgtttgacttgctgttcccagCTTGGCCTCTCAGATTCAGACAAGGAGAAAGTACCACATGTCATAAGATGGGTGAATTACATCCAG

Basic information

species Arabidopsis thaliana
transcript AT2G40660.1
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|116410067|gb|EG452659.1|EG452659
EST:     CGCCATCGGCAGCTGATGTTGCTGTGTTTTCAGCTCTGCATTCTTCAGTG                         CTTGGCCTCTCAGATTCAGACAAGGAGAAAGTACCACATGTCATAAGATGG
genomic: CGCCATCGGCAGCTGATGTTGCTGTGTTTTCAGCTCTGCATTCTTCAGTGgtaccacttc ... ctgttcccagCTTGGCCTCTCAGATTCAGACAAGGAGAAAGTACCACATGTCATAAGATGG
EST: gi|116410082|gb|EG452674.1|EG452674
EST:     CGCCATCGGCAGCTGATGTTGCTGTGTTTTCAGCTCTGCATTCTTCGGTG                         CTTGGCCTCTCAGATTCAGACAAGGAGAAAGTACCACATGTCATAAGATGG
genomic: CGCCATCGGCAGCTGATGTTGCTGTGTTTTCAGCTCTGCATTCTTCAGTGgtaccacttc ... ctgttcccagCTTGGCCTCTCAGATTCAGACAAGGAGAAAGTACCACATGTCATAAGATGG
EST: gi|116410078|gb|EG452670.1|EG452670
EST:     CGCCATCGGCAGCTGATGTTGCTGTGTTTTCAGCTCTGCATTCTTCAGTG                         CTTGGCCTCTCAGATTCAGACAAGGAGAAAGTACCACATGTCATAAGATGG
genomic: CGCCATCGGCAGCTGATGTTGCTGTGTTTTCAGCTCTGCATTCTTCAGTGgtaccacttc ... ctgttcccagCTTGGCCTCTCAGATTCAGACAAGGAGAAAGTACCACATGTCATAAGATGG
EST: gi|116410084|gb|EG452676.1|EG452676
EST:     CGCCATCGGCAGCTGATGTTGCTGTGTTTTCAGCTCTGCATTCTTCAGTG                         CTTGGCCTCTCAGATTCAGACAAGGAGAAAGTACCACATGTCATAAGATGG
genomic: CGCCATCGGCAGCTGATGTTGCTGTGTTTTCAGCTCTGCATTCTTCAGTGgtaccacttc ... ctgttcccagCTTGGCCTCTCAGATTCAGACAAGGAGAAAGTACCACATGTCATAAGATGG
EST: gi|47828784|gb|CK118468.1|CK118468
EST:     CGCCATTGGCAGCTGATGTTGCTGTGTTTTCAGCTCTGCATTCTTCAGTG                         CTTGGCCTCTCAGATTCAGACAAGGAGAAAGTACCACATGTCATAAGATGG
genomic: CGCCATCGGCAGCTGATGTTGCTGTGTTTTCAGCTCTGCATTCTTCAGTGgtaccacttc ... ctgttcccagCTTGGCCTCTCAGATTCAGACAAGGAGAAAGTACCACATGTCATAAGATGG
EST: gi|116410069|gb|EG452661.1|EG452661
EST:     CGCCATCGGCAGCTGATGTTGCTGTGTTTTCAGCTCTGTATTCTTCAGTG                         CTTGGCCTCTCAGATTCAGACAAGGAGAAAGTACCACATGTCATAAGATGG
genomic: CGCCATCGGCAGCTGATGTTGCTGTGTTTTCAGCTCTGCATTCTTCAGTGgtaccacttc ... ctgttcccagCTTGGCCTCTCAGATTCAGACAAGGAGAAAGTACCACATGTCATAAGATGG
EST: gi|116410080|gb|EG452672.1|EG452672
EST:     CGCCATCGGCAGCTGATGTTGCTGTGTTTTCAGCTCTGCATTCTTCAGTG                         CTTGGCCTCTCAGATTCAGACAAGGAGAAAGTACCACATGTCATAAGATGG
genomic: CGCCATCGGCAGCTGATGTTGCTGTGTTTTCAGCTCTGCATTCTTCAGTGgtaccacttc ... ctgttcccagCTTGGCCTCTCAGATTCAGACAAGGAGAAAGTACCACATGTCATAAGATGG
EST: gi|116411094|gb|EG453686.1|EG453686
EST:     CGCCATCGGCAGCTGATGTTGCTGTGTTTTCAGCTCTGCATTCTTCAGTG                         CTTGGCCTCTCAGATTCAGACAAGGAGAAAGTACCACATGTCATAAGATGG
genomic: CGCCATCGGCAGCTGATGTTGCTGTGTTTTCAGCTCTGCATTCTTCAGTGgtaccacttc ... ctgttcccagCTTGGCCTCTCAGATTCAGACAAGGAGAAAGTACCACATGTCATAAGATGG
EST: gi|116387938|gb|EG430530.1|EG430530
EST:     CGCCATCGGCAGCTGATGTTGCTGTGTTTTCAGCTCTGCATTCTTCAGTG                         CTTGGCCTCTCAGATTCAG
genomic: CGCCATCGGCAGCTGATGTTGCTGTGTTTTCAGCTCTGCATTCTTCAGTGgtaccacttc ... ctgttcccagCTTGGCCTCTCAGATTCAG
EST: gi|116411098|gb|EG453690.1|EG453690
EST:     CGCCATCGGCAGCTGATGTTGCTGTGTTTTCAGCTCTGCATTCTTCAGTG                         CTTGGCCTCTCAGATTCAGACAAGGAGAAAGTACCACATGTCATAAGATGG
genomic: CGCCATCGGCAGCTGATGTTGCTGTGTTTTCAGCTCTGCATTCTTCAGTGgtaccacttc ... ctgttcccagCTTGGCCTCTCAGATTCAGACAAGGAGAAAGTACCACATGTCATAAGATGG
EST: gi|116410076|gb|EG452668.1|EG452668
EST:     CGCCATCGGCAGCTGATGTTGCTGTGTTTTCAGCTCTGCATTCTTCAGTG                         CTTGGCCTCTCAGATTCAGACAAGGAGAAAGTACCACATGTCATAAGATGG
genomic: CGCCATCGGCAGCTGATGTTGCTGTGTTTTCAGCTCTGCATTCTTCAGTGgtaccacttc ... ctgttcccagCTTGGCCTCTCAGATTCAGACAAGGAGAAAGTACCACATGTCATAAGATGG
EST: gi|124959967|gb|EL034667.1|EL034667
EST:     CGCCATCGGCAGCTGATGTTGCTGTGTTTTCAGCTCTGCATTCTTCAGTG                         CTTGGCCTCTCAGATTCAGACAAG
genomic: CGCCATCGGCAGCTGATGTTGCTGTGTTTTCAGCTCTGCATTCTTCAGTGgtaccacttc ... ctgttcccagCTTGGCCTCTCAGATTCAGACAAG
EST: gi|116410074|gb|EG452666.1|EG452666
EST:     CGCCATCGGCAGCTGATGTTGCTGTGTTTTCAGCTCTGCATTCTTCAGTG                         CTTGGCCTCTCAGATTCAGACAAGGAGAAAGTACCACATGTCATAAGATGG
genomic: CGCCATCGGCAGCTGATGTTGCTGTGTTTTCAGCTCTGCATTCTTCAGTGgtaccacttc ... ctgttcccagCTTGGCCTCTCAGATTCAGACAAGGAGAAAGTACCACATGTCATAAGATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatgactaaaggtattaaatactaactgttatctgtttgacttgctgttcccagCTTGGCCTCTCAGATTCAGACAAGGAGAAAGTACCACATGTCATAAGATGGGTGAATTACATCCAG
                                             ctgttccc  CT-rich tract
       taaaggtattaaata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaccacttctctatattccgtagtctacttatttttcgttcctgtataagtaattttatgttacttgataaagatgctacgatcaaattttcataaactgatgactaaaggtattaaatactaactgttatctgtttgacttgctgttcccagCTTGGCCTCTCAGATTCAGACAAGGAGAAAGTACCACATGTCATAAGATGGGTGAATTACATCCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG