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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttccattaacaattttttttttttgaaatactaaaagtagtaattcgtttgaaaaagaaaaaaacacactattataatattagattcttggatttttcagGCGAATAAAGTTGATCTCTATATGAACGGTCATGATCATTGCTTGCAACATATAAGCACATCACAAAG

Basic information

species Arabidopsis thaliana
transcript AT1G25230.1
intron # 5
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|86018669|gb|DR314415.1|DR314415
EST:     TTCATGGGAATACCAAAGAGCTTGAATCTCTCCTCTTACCCATCCTTGAG                         GCGAATAAAGTTGATCTCTATATGAACGGTCATGATCATTGCTTGCAACAT
genomic: TTCATGGGAATACCAAAGAGCTTGAATCTCTCCTCTTACCCATCCTTGAGgttcattttc ... gatttttcagGCGAATAAAGTTGATCTCTATATGAACGGTCATGATCATTGCTTGCAACAT
EST: gi|124957165|gb|EL032027.1|EL032027
EST:     CCTCTTACCCATCCTTGAG                         GCGAATAAAGTTGATCTCTATATGAACGGTCATGATCATTGCTTGCAACAT
genomic: CCTCTTACCCATCCTTGAGgttcattttc ... gatttttcagGCGAATAAAGTTGATCTCTATATGAACGGTCATGATCATTGCTTGCAACAT
EST: gi|86078770|gb|DR374527.1|DR374527
EST:     TTCATGGGAATACCAAAGAGCTTGAATCTCTCCTCTTACCCATCCTTGAG                         GCGAATAAAGTTGATCTCTATATGAACGGTCATGATCATTGCTTGCAACAT
genomic: TTCATGGGAATACCAAAGAGCTTGAATCTCTCCTCTTACCCATCCTTGAGgttcattttc ... gatttttcagGCGAATAAAGTTGATCTCTATATGAACGGTCATGATCATTGCTTGCAACAT
EST: gi|125233455|gb|EL247540.1|EL247540
EST:     TTCATGGGAATACCAAAGAGCTTGAATCTCTCCTCTTACCCATCCTTGAG                         GCGAATAAAGTTGATCTCTATATGAACGGTCATGATCATTG
genomic: TTCATGGGAATACCAAAGAGCTTGAATCTCTCCTCTTACCCATCCTTGAGgttcattttc ... gatttttcagGCGAATAAAGTTGATCTCTATATGAACGGTCATGATCATTG
EST: gi|124810712|gb|EH895578.1|EH895578
EST:     AGCTTGAATCTCTCCTCTTACCCATCCTTGAG                         GCGAATAAAGTTGATCTCTATATGAACGGTCATGATCATTGCTTGCAACAT
genomic: AGCTTGAATCTCTCCTCTTACCCATCCTTGAGgttcattttc ... gatttttcagGCGAATAAAGTTGATCTCTATATGAACGGTCATGATCATTGCTTGCAACAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgtttgaaaaagaaaaaaacacactattataatattagattcttggatttttcagGCGAATAAAGTTGATCTCTATATGAACGGTCATGATCATTGCTTGCAACATATAAGCACATCACAAAG
                                               tttttc  CT-rich tract
      aaaaagaaaaaaacac  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttccattaacaattttttttttttgaaatactaaaagtagtaattcgtttgaaaaagaaaaaaacacactattataatattagattcttggatttttcagGCGAATAAAGTTGATCTCTATATGAACGGTCATGATCATTGCTTGCAACATATAAGCACATCACAAAG

- - - - - - - - - - - - - - -actaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaac