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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAGGATTGGTCCAATACTAAGGAGATTTCCGAGGAAGAAACTTGATCTCCAAGTTAAAGCTGTTGCCACGACTCTTGCACCTCTCGAAGAGATCAAAGAgtctgtctttattttagttcatcgtgttgctttggtcgatataactatatgaatataataataaacatagttcatgattgattattttgatag

Basic information

species Arabidopsis thaliana
transcript AT3G15840.5
intron # 2
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|125238625|gb|EL252710.1|EL252710
EST:     AGCTGTTGCCACGACTCTTGCACCTCTCGAAGAGATCAAAGA                         ATACAAGCTTCCTTCATGGGCCATGTTCGAGATGG
genomic: AGCTGTTGCCACGACTCTTGCACCTCTCGAAGAGATCAAAGAgtctgtcttt ... attttgatagATACAAGCTTCCTTCATGGGCCATGTTCGAGATGG
EST: gi|125159446|gb|EL187529.1|EL187529
EST:     CTGTTGCCACGACTCTTGCACCTCTCGAGGAGATCAAAGA                         ATACAAGCTTCCTTCATGGGCCATGTTCGAGATGGGTACTGCTCCTGTGTA
genomic: CTGTTGCCACGACTCTTGCACCTCTCGAAGAGATCAAAGAgtctgtcttt ... attttgatagATACAAGCTTCCTTCATGGGCCATGTTCGAGATGGGTACTGCTCCTGTGTA
EST: gi|116441102|gb|EG483694.1|EG483694
EST:     CAAGTTAAAGCTGTTGCCACGACTCTTGCACCTCTCGAAGAGATCAAAGA                         ATACAAGCTTCCTTCATGGGCCATGTTCGAGATGGGTACTGCTCCTGTGTA
genomic: CAAGTTAAAGCTGTTGCCACGACTCTTGCACCTCTCGAAGAGATCAAAGAgtctgtcttt ... attttgatagATACAAGCTTCCTTCATGGGCCATGTTCGAGATGGGTACTGCTCCTGTGTA
EST: gi|124732869|gb|EH824271.1|EH824271
EST:     CAAGTTAAAGCTGTTGCCACGACTCTTGCACCTCTCGAAGAGATCAAAGA                         ATACAAGCTTCCTTCATGGGCCATGTTC
genomic: CAAGTTAAAGCTGTTGCCACGACTCTTGCACCTCTCGAAGAGATCAAAGAgtctgtcttt ... attttgatagATACAAGCTTCCTTCATGGGCCATGTTC
EST: gi|116479684|gb|EG522276.1|EG522276
EST:     CAAGTTAAAGCTGTTGCCACGACTCTTGCACCTCTCGAAGAGATCAAAGA                         ATACAAGCTTCCTTCATGGGCCATGTTCGAGATGGGTACTGCTCCTGTGTA
genomic: CAAGTTAAAGCTGTTGCCACGACTCTTGCACCTCTCGAAGAGATCAAAGAgtctgtcttt ... attttgatagATACAAGCTTCCTTCATGGGCCATGTTCGAGATGGGTACTGCTCCTGTGTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAAGGATTGGTCCAATACTAAGGAGATTTCCGAGGAAGAAACTTGATCTCCAAGTTAAAGCTGTTGCCACGACTCTTGCACCTCTCGAAGAGATCAAAGAgtctgtctttattttagttcatcgtgttgctttggtcgatataactatatgaatataataataaacatagttcatgattgattattttgatag

- - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA