Skip to another splice site:
1  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttactttcgattcttttgattcattctctgctcatgtttttgattgaatcacaacgatttactgatcaaaacttggacaaattttctcttgcagCTTTCTTGAAACACCAATTGAATCTTTTCTCTCTACCGGCAAAAAAAAAAGATTAGTCCTTTTAGGTCTGGAAACGCCAAGATCACTCGTTCTAAACCTT

Basic information

species Arabidopsis thaliana
transcript AT2G44080.1
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|124785771|gb|EH875450.1|EH875450
EST:     TCTTCTTCTCGCTGAAGGTGTGTTTGGCTCTAACGGTTTAAAG                         CTTTCTTGAAACACCAATTGAATCTTTTCTCTCTACCGG
genomic: TCTTCTTCTCGCTGAAGGTGTGTTTGGCTCTAACGGTTTAAAGgtacttactt ... tctcttgcagCTTTCTTGAAACACCAATTGAATCTTTTCTCTCTACCGG
EST: gi|124769817|gb|EH859947.1|EH859947
EST:     ATCTTCATCTTCTTCTCGCTGAAGGTGTGTTTGGCTCTAACGGTTTAAAG                         CTTTCTTGAAACACCAATTGAATCTTTTCTCTCTACCGGC
genomic: ATCTTCATCTTCTTCTCGCTGAAGGTGTGTTTGGCTCTAACGGTTTAAAGgtacttactt ... tctcttgcagCTTTCTTGAAACACCAATTGAATCTTTTCTCTCTACCGGC
EST: gi|124890392|gb|EH969294.1|EH969294
EST:     TCTTCTTCTCGCTGAAGGTGTGTTTGGCTCTAACGGTTTAAAG                         CTTTCTTGAAACACCAATTGAATCTTT-CTCTCTACCGG
genomic: TCTTCTTCTCGCTGAAGGTGTGTTTGGCTCTAACGGTTTAAAGgtacttactt ... tctcttgcagCTTTCTTGAAACACCAATTGAATCTTTTCTCTCTACCGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgattgaatcacaacgatttactgatcaaaacttggacaaattttctcttgcagCTTTCTTGAAACACCAATTGAATCTTTTCTCTCTACCGGCAAAAAAAAAAGATTAGTCCTTTTAGGTCTGGAAACGCCAAGATCACTCGTTCTAAACCTT
                    tactgat  putative branch site (score: 2)
                                          ttttctcttgc  putative PPT
                                     acaaatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacttactttcgattcttttgattcattctctgctcatgtttttgattgaatcacaacgatttactgatcaaaacttggacaaattttctcttgcagCTTTCTTGAAACACCAATTGAATCTTTTCTCTCTACCGGCAAAAAAAAAAGATTAGTCCTTTTAGGTCTGGAAACGCCAAGATCACTCGTTCTAAACCTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA