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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTGGAGAATCAAGCTACTGATGCCTTTACTCTTACTTATCGACTTCTTACTCAAGCAAAGAGGAATTGCTTCTGCACTCTTCAACCGTGTTAAAGACAGgtatgtccttattcactttttccctgactttgaaacgatttattcgagagctctaacgcattgacgaatatacgaaacgcag

Basic information

species Arabidopsis thaliana
transcript AT5G38520.1
intron # 4
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|125281122|gb|EL295207.1|EL295207
EST:     CTCAAGCAAAGAGGAATTGCTTCTGCACTCTTCAACCGTGTTAAAGACAG                         GGAAAATCTGAAGAACATCTTGACAAAT
genomic: CTCAAGCAAAGAGGAATTGCTTCTGCACTCTTCAACCGTGTTAAAGACAGgtatgtcctt ... cgaaacgcagGGAAAATCTGAAGAACATCTTGACAAAT
EST: gi|125181764|gb|EL197732.1|EL197732
EST:     CTCAAGCAAAGAGGAATTGC-TCTGCACTCTTCAACCGTGTTAAAGACAG                         GGAAAATCTGAAGAACATCTTGACAAATGTTTACG
genomic: CTCAAGCAAAGAGGAATTGCTTCTGCACTCTTCAACCGTGTTAAAGACAGgtatgtcctt ... cgaaacgcagGGAAAATCTGAAGAACATCTTGACAAATGTTTACG
EST: gi|86074209|gb|DR369966.1|DR369966
EST:     CTCAAGCAAAGAGGAATTGCTTCTGCACTCTTCAACCGTGTTAAAGACAG                         GGAAAATCTGAAGAACATCTTGACAAATGTTTACGGGAACAAGGACAATGT
genomic: CTCAAGCAAAGAGGAATTGCTTCTGCACTCTTCAACCGTGTTAAAGACAGgtatgtcctt ... cgaaacgcagGGAAAATCTGAAGAACATCTTGACAAATGTTTACGGGAACAAGGACAATGT
EST: gi|125254029|gb|EL268114.1|EL268114
EST:     CTCAAGCAAAGAGGAATTGCTTCTGCACTCTTCAACCGTGTTAAAGACAG                         GGAAAATCTGAAGAACATCTTGACAAATGTTTACGGGAACAAGG
genomic: CTCAAGCAAAGAGGAATTGCTTCTGCACTCTTCAACCGTGTTAAAGACAGgtatgtcctt ... cgaaacgcagGGAAAATCTGAAGAACATCTTGACAAATGTTTACGGGAACAAGG
EST: gi|124987202|gb|EL059673.1|EL059673
EST:     AGGAATTGCTTCTGCACTCTTCAACCGTGTTAAAGACAG                         GGAAAATCTGAAGAACATCTTGACAAATGTTTACGGGAACAAGGACAATGT
genomic: AGGAATTGCTTCTGCACTCTTCAACCGTGTTAAAGACAGgtatgtcctt ... cgaaacgcagGGAAAATCTGAAGAACATCTTGACAAATGTTTACGGGAACAAGGACAATGT
EST: gi|124885703|gb|EH964605.1|EH964605
EST:     CTCAAGCAAAGAGGAATTGCTTCTGCACTCTTCAACCGTGTTAAAGACAG                         GGAAAATCTGAAGAACATCTTGACAAATGTTTACGGGAAC
genomic: CTCAAGCAAAGAGGAATTGCTTCTGCACTCTTCAACCGTGTTAAAGACAGgtatgtcctt ... cgaaacgcagGGAAAATCTGAAGAACATCTTGACAAATGTTTACGGGAAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACTGGAGAATCAAGCTACTGATGCCTTTACTCTTACTTATCGACTTCTTACTCAAGCAAAGAGGAATTGCTTCTGCACTCTTCAACCGTGTTAAAGACAGgtatgtccttattcactttttccctgactttgaaacgatttattcgagagctctaacgcattgacgaatatacgaaacgcag

- - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA