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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGGTGAAAGCTTTTCAATCGACTCTGGAAGAAGTTGTTGAAGCTGATCTACTTCTGgtaagagctaaataaataaataaaataatattccatagttacatttagaagagaaaactgcagaaagacttggcgttgatatgattaaacccctgcag

Basic information

species Arabidopsis thaliana
transcript AT3G49725.1
intron # 11
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|116481837|gb|EG524429.1|EG524429
EST:     AAGCTTTTCAATCGACTCTGGAAGAAGTTGTTGAAGCTGATCTACTTCTG                         CATGTAGTTGATTCAACAGCTCCAAATATCGAGGAGCATCGTTCAACAGTG
genomic: AAGCTTTTCAATCGACTCTGGAAGAAGTTGTTGAAGCTGATCTACTTCTGgtaagagcta ... acccctgcagCATGTAGTTGATTCAACAGCTCCAAATATCGAGGAGCATCGTTCAACAGTG
EST: gi|125290344|gb|EL304429.1|EL304429
EST:     CTGGAAGAAGTTGTTGAAGCTGATCTACTTCTG                         CATGTAGTTGATTCAACAGCTCCAAATATCGAGGAGCATCGTTCAACAGTG
genomic: CTGGAAGAAGTTGTTGAAGCTGATCTACTTCTGgtaagagcta ... acccctgcagCATGTAGTTGATTCAACAGCTCCAAATATCGAGGAGCATCGTTCAACAGTG
EST: gi|164059253|gb|ES003710.1|ES003710
EST:     CGACTCTGGAAGAAGTTGTTGAAGCTGATCTACTTCTG                         CATGTAGTTGATTCAACAGCTCCAAATATCGAGGAGCATCGTTCAAC
genomic: CGACTCTGGAAGAAGTTGTTGAAGCTGATCTACTTCTGgtaagagcta ... acccctgcagCATGTAGTTGATTCAACAGCTCCAAATATCGAGGAGCATCGTTCAAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTGGTGAAAGCTTTTCAATCGACTCTGGAAGAAGTTGTTGAAGCTGATCTACTTCTGgtaagagctaaataaataaataaaataatattccatagttacatttagaagagaaaactgcagaaagacttggcgttgatatgattaaacccctgcag

- - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - -  AGAAGT
- - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - - - - - GCTGAT