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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaataaattttctatgtttgacatttataaactagtaaattataacaaagttgtttcacaagatttactttttaggagaaatggtaacaaagtgtttttgtgggtagttataatgatatgtttactttaattgcagTGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAGCAAAGTCAAAAGTTTTGGCAGAAAGTGAAAGTTCAGCATTTGAAGACCAATGTGGCCGATGC

Basic information

species Arabidopsis thaliana
transcript AT5G14740.1
intron # 8
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|124829918|gb|EH914484.1|EH914484
EST:     ACGGAAACAACTCTAC                         TGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAGCAAAGTCAAAAGT
genomic: ACGGAAACAACTCTACgtaataaatt ... ttaattgcagTGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAGCAAAGTCAAAAGT
EST: gi|125285072|gb|EL299157.1|EL299157
EST:     AACAACTCTAC                         TGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAGCAAAGTCAAAAGT
genomic: AACAACTCTACgtaataaatt ... ttaattgcagTGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAGCAAAGTCAAAAGT
EST: gi|125255874|gb|EL269959.1|EL269959
EST:     GGTGGCATCAAGGGGCTTATGTCATTTCCTCTTGACGGAAACAACTCTAC                         TGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAG
genomic: GGTGGCATCAAGGGGCTTATGTCATTTCCTCTTGACGGAAACAACTCTACgtaataaatt ... ttaattgcagTGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAG
EST: gi|124998299|gb|EL070568.1|EL070568
EST:     ACGGAAACAACTCTAC                         TGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAGCAAAGTCAAAAGT
genomic: ACGGAAACAACTCTACgtaataaatt ... ttaattgcagTGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAGCAAAGTCAAAAGT
EST: gi|124958986|gb|EL033693.1|EL033693
EST:     CCTCTTGACGGAAACAACTCTAC                         TGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAGCAAAGTCAAAAGT
genomic: CCTCTTGACGGAAACAACTCTACgtaataaatt ... ttaattgcagTGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAGCAAAGTCAAAAGT
EST: gi|124761614|gb|EH851744.1|EH851744
EST:     GGTGGCATCAAGGGGCTTATGTCATTTCCTCTTGACGGAAACAACTCTAC                         TGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAGCAAA
genomic: GGTGGCATCAAGGGGCTTATGTCATTTCCTCTTGACGGAAACAACTCTACgtaataaatt ... ttaattgcagTGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAGCAAA
EST: gi|124815030|gb|EH899896.1|EH899896
EST:     TGTCATTTCCTCTTGACGGAAACAACTCTAC                         TGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAGCAAAGTCAAAAGT
genomic: TGTCATTTCCTCTTGACGGAAACAACTCTACgtaataaatt ... ttaattgcagTGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAGCAAAGTCAAAAGT
EST: gi|124812988|gb|EH897854.1|EH897854
EST:     AAGGGGCTTATGTCATTTCCTCTTGACGGAAACTAACTCTAC                         TGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAGCAAAGTCAAAAG
genomic: AAGGGGCTTATGTCATTTCCTCTTGACGGAAAC-AACTCTACgtaataaatt ... ttaattgcagTGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAGCAAAGTCAAAAG
EST: gi|125271232|gb|EL285317.1|EL285317
EST:     TCAAGGGGCTTATGTCATTTCCTCTTGACGGAAACAACTCTAC                         TGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAGCAAAGTCAAAAGT
genomic: TCAAGGGGCTTATGTCATTTCCTCTTGACGGAAACAACTCTACgtaataaatt ... ttaattgcagTGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAGCAAAGTCAAAAGT
EST: gi|124968643|gb|EL042586.1|EL042586
EST:     GGTGGCATCAAGGGGCTTATGTCATTTCCTCTTGACGGAAACAACTCTAC                         TGACTTCATAGAGGAATTAGGGTCAAAATCTGTTTACCAGCAAAGTCAAAA
genomic: GGTGGCATCAAGGGGCTTATGTCATTTCCTCTTGACGGAAACAACTCTACgtaataaatt ... ttaattgcagTGACTTCATAGAGGA-TT-GGGTCAAAATCTGTTTACCAGCAAAGTCAAAA
EST: gi|125219271|gb|EL233356.1|EL233356
EST:     GGTGGCATCAAGGGGCTTATGTCATTTCCTCTTGACGGAAACAACTCTAC                         TGACTTCATAG
genomic: GGTGGCATCAAGGGGCTTATGTCATTTCCTCTTGACGGAAACAACTCTACgtaataaatt ... ttaattgcagTGACTTCATAG
EST: gi|125275432|gb|EL289517.1|EL289517
EST:     GGTGGCATCAAGGGGCTTATGTCATTTCCTCTTGACGGAAACAACTCTAC                         TGACTTCATAGAAGATTGGGTCAAAATCTGTTTACCAGCAAAG
genomic: GGTGGCATCAAGGGGCTTATGTCATTTCCTCTTGACGGAAACAACTCTACgtaataaatt ... ttaattgcagTGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAGCAAAG
EST: gi|124912085|gb|EH986165.1|EH986165
EST:     TTCCTCTTGACGGAAACAACTCTAC                         TGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAGCAAAGTCAAAAGT
genomic: TTCCTCTTGACGGAAACAACTCTACgtaataaatt ... ttaattgcagTGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAGCAAAGTCAAAAGT
EST: gi|124877183|gb|EH956620.1|EH956620
EST:     TTTCCTCTTGACAGAAACAACTCTAC                         TGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAGCAAAGTCAAAAGT
genomic: TTTCCTCTTGACGGAAACAACTCTACgtaataaatt ... ttaattgcagTGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAGCAAAGTCAAAAGT
EST: gi|124993431|gb|EL065700.1|EL065700
EST:     GGTGGCATCAAGGGGCTTATGTCGTTTCCTCTTGACGGAAACAACTCTAC                         TGACTTCATAGAGGA
genomic: GGTGGCATCAAGGGGCTTATGTCATTTCCTCTTGACGGAAACAACTCTACgtaataaatt ... ttaattgcagTGACTTCATAGAGGA
EST: gi|124998816|gb|EL071085.1|EL071085
EST:     GGTGGCATCAAGGGGCTTATGTCATTTCCTCTTGACGGAAACAACTCTAC                         TGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAGCAAAGTCAAAAGT
genomic: GGTGGCATCAAGGGGCTTATGTCATTTCCTCTTGACGGAAACAACTCTACgtaataaatt ... ttaattgcagTGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAGCAAAGTCAAAAGT
EST: gi|124851353|gb|EH935790.1|EH935790
EST:     GGTGGCATCAAGGGGCTTATGTCATTTCCTCTTGACGGAAACAACTCTAC                         TGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAG
genomic: GGTGGCATCAAGGGGCTTATGTCATTTCCTCTTGACGGAAACAACTCTACgtaataaatt ... ttaattgcagTGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAG
EST: gi|125276281|gb|EL290366.1|EL290366
EST:     TTTCCTCTTGACGGAAACAACTCTAC                         TGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAGCAAAGTACAAAAG
genomic: TTTCCTCTTGACGGAAACAACTCTACgtaataaatt ... ttaattgcagTGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAGCAAAGT-CAAAAG
EST: gi|125220805|gb|EL234890.1|EL234890
EST:     GGTGGCATCAAGGGGCTTATGTCATTTCCTCTTGACGGAAACAACTCTAC                         TGACTTCATAG
genomic: GGTGGCATCAAGGGGCTTATGTCATTTCCTCTTGACGGAAACAACTCTACgtaataaatt ... ttaattgcagTGACTTCATAG
EST: gi|125109033|gb|EL161681.1|EL161681
EST:     AAGGGGCTTATGTCATTTCCTCTTGACGGAAACAACTCTAC                         TGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAGCAAAGTCAAAAGT
genomic: AAGGGGCTTATGTCATTTCCTCTTGACGGAAACAACTCTACgtaataaatt ... ttaattgcagTGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAGCAAAGTCAAAAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtaacaaagtgtttttgtgggtagttataatgatatgtttactttaattgcagTGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAGCAAAGTCAAAAGTTTTGGCAGAAAGTGAAAGTTCAGCATTTGAAGACCAATGTGGCCGATGC
                                       tttacttt  CT-rich tract
                       tagttataatgatatg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaataaattttctatgtttgacatttataaactagtaaattataacaaagttgtttcacaagatttactttttaggagaaatggtaacaaagtgtttttgtgggtagttataatgatatgtttactttaattgcagTGACTTCATAGAGGATTGGGTCAAAATCTGTTTACCAGCAAAGTCAAAAGTTTTGGCAGAAAGTGAAAGTTCAGCATTTGAAGACCAATGTGGCCGATGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA