Skip to another splice site:
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taagtgatgtctttaacacctcatcctctatcagcaacacaacttcattcctccaaggttgtagctgacctctttgtttcttgatttgcttgttttgcagAATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAGAGAAGGTCAAGCCTACTGCAGCAAGTTAGTTTTATCCCATGTAGAGCTGAAGAGGA

Basic information

species Arabidopsis thaliana
transcript AT1G05720.1
intron # 3
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|86078488|gb|DR374245.1|DR374245
EST:     CCCAAGTTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAG                         AATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAGAGAAGGT
genomic: CCCAAGTTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAGgtaagttgct ... tgttttgcagAATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAGAGAAGGT
EST: gi|86022918|gb|DR318671.1|DR318671
EST:     CCAAGTTGATCATGCTCGACGAAGACGGTGAACATAAGGAAATCAATTAG                         AATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAGA
genomic: CCAAGTTGATCATGCTCGACGAAGACGGTGAACATAAGGAA-TCAATTAGgtaagttgct ... tgttttgcagAATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAGA
EST: gi|86022908|gb|DR318661.1|DR318661
EST:     CCCAAGTTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAG                         AATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAGAGAAGGT
genomic: CCCAAGTTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAGgtaagttgct ... tgttttgcagAATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAGAGAAGGT
EST: gi|86022912|gb|DR318665.1|DR318665
EST:     CCCAAGTTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAG                         RATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAGAGAAGGT
genomic: CCCAAGTTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAGgtaagttgct ... tgttttgcagAATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAGAGAAGGT
EST: gi|19878749|gb|AU239580.1|AU239580
EST:     CCCAAGTTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAG                         AATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAGAGAAGGT
genomic: CCCAAGTTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAGgtaagttgct ... tgttttgcagAATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAGAGAAGGT
EST: gi|164003028|gb|ES176125.1|ES176125
EST:     CCCAAGTTGATCATGCTCGACGAAGACGGTGTACATAAGGAATCAATTAG                         AATCGACAACTGGAAACG
genomic: CCCAAGTTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAGgtaagttgct ... tgttttgcagAATCGACAACTGGAAACG
EST: gi|124939213|gb|EL015773.1|EL015773
EST:     CCCAAGTTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAG                         AATCGGCAACTGGAAACGCGAACATCTACTGCAGTATA
genomic: CCCAAGTTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAGgtaagttgct ... tgttttgcagAATCGACAACTGGAAACGCGAACATCTACTGCAGTATA
EST: gi|164079129|gb|ES175364.1|ES175364
EST:     CCCAAGTTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAG                         AATCGTACAACTGGAAACGCGAACATCTAC
genomic: CCCAAGTTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAGgtaagttgct ... tgttttgcagAATCG-ACAACTGGAAACGCGAACATCTAC
EST: gi|124773098|gb|EH863227.1|EH863227
EST:     GAACATAAGGAATCAATTAG                         AATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAGAGAAGGT
genomic: GAACATAAGGAATCAATTAGgtaagttgct ... tgttttgcagAATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAGAGAAGGT
EST: gi|86022917|gb|DR318670.1|DR318670
EST:     CCCAAGTTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAG                         AATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAGAGAAGGT
genomic: CCCAAGTTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAGgtaagttgct ... tgttttgcagAATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAGAGAAGGT
EST: gi|164049012|gb|EL988354.1|EL988354
EST:     TTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAG                         AATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAGAGAAGGT
genomic: TTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAGgtaagttgct ... tgttttgcagAATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAGAGAAGGT
EST: gi|86022913|gb|DR318666.1|DR318666
EST:     CCCAAGTTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAG                         AATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAGAGAAGGT
genomic: CCCAAGTTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAGgtaagttgct ... tgttttgcagAATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAGAGAAGGT
EST: gi|164215606|gb|ES001683.1|ES001683
EST:     TTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAG                         AATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAG
genomic: TTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAGgtaagttgct ... tgttttgcagAATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAG
EST: gi|86022914|gb|DR318667.1|DR318667
EST:     CCCAAGTTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAG                         AATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAGAGAAGGT
genomic: CCCAAGTTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAGgtaagttgct ... tgttttgcagAATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAGAGAAGGT
EST: gi|86022909|gb|DR318662.1|DR318662
EST:     CCCAAGTTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAG                         AATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAGAGAAGGT
genomic: CCCAAGTTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAGgtaagttgct ... tgttttgcagAATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAGAGAAGGT
EST: gi|86022911|gb|DR318664.1|DR318664
EST:     CCCAAGTTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAG                         AATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAGAGAAGGT
genomic: CCCAAGTTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAGgtaagttgct ... tgttttgcagAATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAGAGAAGGT
EST: gi|124940967|gb|EL017367.1|EL017367
EST:     CCCAAGTTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAG                         AATCGACAACTGGAAACGCGAA
genomic: CCCAAGTTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAGgtaagttgct ... tgttttgcagAATCGACAACTGGAAACGCGAA
EST: gi|164149853|gb|ES132643.1|ES132643
EST:     TTGATCATGCTCGACGAAGACGGTGAACATAA-GAATCAATTAG                         AATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAGAGAAGGT
genomic: TTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAGgtaagttgct ... tgttttgcagAATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAGAGAAGGT
EST: gi|124863879|gb|EH948316.1|EH948316
EST:     CCCAAGTTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAG                         AATCGACAACTGGAAACG
genomic: CCCAAGTTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAGgtaagttgct ... tgttttgcagAATCGACAACTGGAAACG
EST: gi|86022915|gb|DR318668.1|DR318668
EST:     CCCAAGTTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAG                         AATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAG
genomic: CCCAAGTTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAGgtaagttgct ... tgttttgcagAATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAG
EST: gi|86022907|gb|DR318660.1|DR318660
EST:     CCCAAGTTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAG                         AATCGACAACTGGNAACGCGAACATCTACTGCAGTATATGCGAGAGAAGGT
genomic: CCCAAGTTGATCATGCTCGACGAAGACGGTGAACATAAGGAATCAATTAGgtaagttgct ... tgttttgcagAATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAGAGAAGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattcctccaaggttgtagctgacctctttgtttcttgatttgcttgttttgcagAATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAGAGAAGGTCAAGCCTACTGCAGCAAGTTAGTTTTATCCCATGTAGAGCTGAAGAGGA
                                           cttgtttt  CT-rich tract
                           tttgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taagtgatgtctttaacacctcatcctctatcagcaacacaacttcattcctccaaggttgtagctgacctctttgtttcttgatttgcttgttttgcagAATCGACAACTGGAAACGCGAACATCTACTGCAGTATATGCGAGAGAAGGTCAAGCCTACTGCAGCAAGTTAGTTTTATCCCATGTAGAGCTGAAGAGGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - cacctca
- - - - - - - - - - - - - - - - - caacaca
- - - - - - - - - - - - - - - - - - - - - - - - -cctccaa