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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAACCCTGAAACACAACGACCTTATACCATCAGCATGGTAGAGCGCCTAATGCATGAAATTCATTTTGCTGTTGATCCTCATAGTAATTCCAAGAAGCAGgtgagttgtttaaagttataatgtagaagcaaagtgacttgtgggctttctatcaaaagcttatgtgagtcttcattttgattatcaaaactatgcag

Basic information

species Arabidopsis thaliana
transcript AT1G43860.1
intron # 3
splice site 5'
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|86041634|gb|DR337389.1|DR337389
EST:     TGCATGAAATTCATTTTGCTGTTGATCCTCATAGTAATTCCAAGAAGCAG                         GCACTTGATGTCATCCGTGAGCTGCAAAAGCACTTCCCTATAAAGCGTTCT
genomic: TGCATGAAATTCATTTTGCTGTTGATCCTCATAGTAATTCCAAGAAGCAGgtgagttgtt ... aactatgcagGCACTTGATGTCATCCGTGAGCTGCAAAAGCACTTCCCTATAAAGCGTTCT
EST: gi|86041636|gb|DR337391.1|DR337391
EST:     TGCATGAAATTCATTTTGCTGTTGATCCTCATAGTAATTCCAAGAAGCAG                         GCACTTGATGTCAT
genomic: TGCATGAAATTCATTTTGCTGTTGATCCTCATAGTAATTCCAAGAAGCAGgtgagttgtt ... aactatgcagGCACTTGATGTCAT
EST: gi|164002037|gb|ES213799.1|ES213799
EST:     TAGTAATTCCAAGAAGCAG                         GCACTTGATGTCATCCGTGAGCTGCAAAAGCACTTCCCTATAAAGCGTTCT
genomic: TAGTAATTCCAAGAAGCAGgtgagttgtt ... aactatgcagGCACTTGATGTCATCCGTGAGCTGCAAAAGCACTTCCCTATAAAGCGTTCT
EST: gi|164207063|gb|ES164553.1|ES164553
EST:     GTAATTCCAAGAAGCAG                         GCACTTGATGTCATCCGTGAGCTGCAAAAGCACTTCCCTATAAAGCGTTCT
genomic: GTAATTCCAAGAAGCAGgtgagttgtt ... aactatgcagGCACTTGATGTCATCCGTGAGCTGCAAAAGCACTTCCCTATAAAGCGTTCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAACCCTGAAACACAACGACCTTATACCATCAGCATGGTAGAGCGCCTAATGCATGAAATTCATTTTGCTGTTGATCCTCATAGTAATTCCAAGAAGCAGgtgagttgtttaaagttataatgtagaagcaaagtgacttgtgggctttctatcaaaagcttatgtgagtcttcattttgattatcaaaactatgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC