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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacagaacaaatctacatttctaccattacagtgtagattagtatttgcgaatggttagtaaatggttaattgattatgcagAGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACTTCAAGCCCTACAGTTACAAAATCCGTGGACGGCAAGAAAACGTTGAGGA

Basic information

species Arabidopsis thaliana
transcript AT4G27440.1
intron # 1
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|116443986|gb|EG486578.1|EG486578
EST:     TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAG                         AGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
genomic: TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAGgtacagaaca ... gattatgcagAGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
EST: gi|125111313|gb|EL162842.1|EL162842
EST:     TCTTCCTCGTTAAGATTCAAG                         AGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
genomic: TCTTCCTCGTTAAGATTCAAGgtacagaaca ... gattatgcagAGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
EST: gi|116462873|gb|EG505465.1|EG505465
EST:     TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAG                         AGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
genomic: TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAGgtacagaaca ... gattatgcagAGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
EST: gi|116443416|gb|EG486008.1|EG486008
EST:     TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAG                         AGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
genomic: TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAGgtacagaaca ... gattatgcagAGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
EST: gi|125235012|gb|EL249097.1|EL249097
EST:     TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAG                         AGAGAACAGAGCTTAAGGAATCT
genomic: TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAGgtacagaaca ... gattatgcagAGAGAACAGAGCTTAAGGAATCT
EST: gi|116471163|gb|EG513755.1|EG513755
EST:     TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAG                         AGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
genomic: TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAGgtacagaaca ... gattatgcagAGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
EST: gi|124855665|gb|EH940102.1|EH940102
EST:     TGGATCTTCCTCGTTAAGATTCAAG                         AGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
genomic: TGGATCTTCCTCGTTAAGATTCAAGgtacagaaca ... gattatgcagAGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
EST: gi|116462849|gb|EG505441.1|EG505441
EST:     TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAG                         AGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
genomic: TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAGgtacagaaca ... gattatgcagAGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
EST: gi|125255837|gb|EL269922.1|EL269922
EST:     CGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAG                         AGAGAACAGAGCTTAAGGAATCTAG
genomic: CGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAGgtacagaaca ... gattatgcagAGAGAACAGAGCTTAAGGAATCTAG
EST: gi|152034281|gb|BP824141.2|BP824141
EST:     TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAG                         AGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
genomic: TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAGgtacagaaca ... gattatgcagAGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
EST: gi|125266516|gb|EL280601.1|EL280601
EST:     TCCGAACATGGATCTTCCTCGTTAAGATTCAAG                         AGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
genomic: TCCGAACATGGATCTTCCTCGTTAAGATTCAAGgtacagaaca ... gattatgcagAGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
EST: gi|125218821|gb|EL232905.1|EL232905
EST:     TTCCTCGTTAAGATTCAAG                         AGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
genomic: TTCCTCGTTAAGATTCAAGgtacagaaca ... gattatgcagAGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
EST: gi|116440576|gb|EG483168.1|EG483168
EST:     TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAG                         AGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
genomic: TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAGgtacagaaca ... gattatgcagAGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
EST: gi|163977146|gb|ES102130.1|ES102130
EST:     TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAG                         AGAGAACAGAGCT
genomic: TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAGgtacagaaca ... gattatgcagAGAGAACAGAGCT
EST: gi|124988785|gb|EL061147.1|EL061147
EST:     TTAAGATTCAAG                         AGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
genomic: TTAAGATTCAAGgtacagaaca ... gattatgcagAGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
EST: gi|152033930|gb|BP820299.2|BP820299
EST:     TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAG                         AGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
genomic: TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAGgtacagaaca ... gattatgcagAGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
EST: gi|116439814|gb|EG482406.1|EG482406
EST:     TTACCGACCAAATCAAATCCGAACATGGACCTTCCTCGTTAAGATTCAAG                         AGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
genomic: TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAGgtacagaaca ... gattatgcagAGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
EST: gi|125106295|gb|EL159790.1|EL159790
EST:     ACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAG                         AGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
genomic: ACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAGgtacagaaca ... gattatgcagAGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
EST: gi|125094244|gb|EL151783.1|EL151783
EST:     ATCCGAACATGGATCTTCCTCGTTAAGATTCAAG                         AGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
genomic: ATCCGAACATGGATCTTCCTCGTTAAGATTCAAGgtacagaaca ... gattatgcagAGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
EST: gi|152035621|gb|BP859282.2|BP859282
EST:     TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAG                         AGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
genomic: TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAGgtacagaaca ... gattatgcagAGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
EST: gi|152038290|gb|BP812986.2|BP812986
EST:     TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAG                         AGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
genomic: TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAGgtacagaaca ... gattatgcagAGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
EST: gi|125293535|gb|EL307620.1|EL307620
EST:     TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAG                         AGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGA
genomic: TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAGgtacagaaca ... gattatgcagAGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGA
EST: gi|164201856|gb|ES083462.1|ES083462
EST:     CAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAG                         AGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
genomic: CAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAGgtacagaaca ... gattatgcagAGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
EST: gi|116439736|gb|EG482328.1|EG482328
EST:     TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAG                         AGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
genomic: TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAGgtacagaaca ... gattatgcagAGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
EST: gi|164227223|gb|ES060451.1|ES060451
EST:     TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAG                         AGAGAACAGAGCTTAAG
genomic: TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAGgtacagaaca ... gattatgcagAGAGAACAGAGCTTAAG
EST: gi|116443427|gb|EG486019.1|EG486019
EST:     TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAG                         AGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAGCCGCTGCGACT
genomic: TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAGgtacagaaca ... gattatgcagAGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
EST: gi|116462851|gb|EG505443.1|EG505443
EST:     TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAG                         AGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCG
genomic: TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAGgtacagaaca ... gattatgcagAGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCG
EST: gi|152033870|gb|BP818289.2|BP818289
EST:     TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAG                         AGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
genomic: TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAGgtacagaaca ... gattatgcagAGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
EST: gi|116440655|gb|EG483247.1|EG483247
EST:     TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAG                         AGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
genomic: TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAGgtacagaaca ... gattatgcagAGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
EST: gi|163967298|gb|ES034353.1|ES034353
EST:     CGTTAAGATTCAAG                         AGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACC
genomic: CGTTAAGATTCAAGgtacagaaca ... gattatgcagAGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACC
EST: gi|116438531|gb|EG481123.1|EG481123
EST:     TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAG                         AGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT
genomic: TTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAGgtacagaaca ... gattatgcagAGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacagtgtagattagtatttgcgaatggttagtaaatggttaattgattatgcagAGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACTTCAAGCCCTACAGTTACAAAATCCGTGGACGGCAAGAAAACGTTGAGGA
                                         aattgat  putative branch site (score: 4)
                                       ttaattgattat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacagaacaaatctacatttctaccattacagtgtagattagtatttgcgaatggttagtaaatggttaattgattatgcagAGAGAACAGAGCTTAAGGAATCTAGCAATTCGAGCCCAAACCGCTGCGACTTCAAGCCCTACAGTTACAAAATCCGTGGACGGCAAGAAAACGTTGAGGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA